#Contains_Novel_or_Only_Known(Annotated)_Junctions as_event_type gene_name chr strand exclusion_junctions inclusion_junctions exclusion_exons inclusion_exons intron-exon_junctions neighboring_constitutive_exons virtual Untreated CG10203 CG10851 CG17136 CG1987 CG4602 CG5442 CG5655 CG10377 CG12749 CG13425 CG16901 CG17838 CG18426 CG30122 CG31000 CG6946 CG7437 CG9373 CG9983 CG10279 CG1646 CG3312 CG6227 CG5836 CG6841 CG8241 CG8749 CG1101 CG1559 CG16788 CG8781 CG10128 CG10328 CG11266 CG18350 CG3584 CG4262 CG5422 CG6049 CG7878 CG7971 CG8019 CG8912 CG9412 CG31716 CG32423 CG3249 CG33106 CG4760 CG4816 CG4878 CG5170 CG5821 CG6203 CG6779 CG8636 N intron_retention Clc,CG6951 chr3L + chr3L_20234785_20235884 chr3L_20234784_20234785;chr3L_20235884_20235885 chr3L_20234707_20234784;chr3L_20235885_20236816 20.83 NA NA 50.00 NA NA NA NA NA NA NA 25.00 NA NA NA 12.50 NA NA NA 20.83 NA NA 38.46 NA NA NA 100.00 33.33 100.00 NA NA NA NA NA NA NA NA NA NA 15.38 33.33 20.00 NA NA NA 13.33 NA NA 20.00 NA NA NA NA NA NA 20.00 NA 10.53 K alternative_acceptor I_chr3L_212783_212843,Kaz1-ORFB,Kaz1-ORFA_Kaz1-ORFB,CG13877 chr3L + chr3L_218196_218282 chr3L_218196_218279 chr3L_218127_218195;chr3L_218283_218658 55.91 66.67 60.00 NA NA NA 52.63 68.18 44.44 NA NA 68.18 NA 52.94 55.56 63.64 56.25 58.33 50.00 53.12 60.00 NA 63.64 55.56 NA 63.64 53.85 NA NA 63.64 53.33 75.00 50.00 55.56 60.00 NA 54.55 NA 50.00 52.63 50.00 62.50 66.67 NA NA 43.75 80.95 NA 45.45 62.50 60.00 36.36 NA 68.75 53.85 53.33 68.18 NA K jcn_only_AD CG31217 chr3R - chr3R_12479557_12479627 chr3R_12479557_12479623 chr3R_12479253_12479556;chr3R_12479628_12480093 91.30 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 91.30 K intron_retention Myo31DF,I_chr2L_10506249_10506683,I_chr2L_10506446_10506542 chr2L - chr2L_10506107_10506683 chr2L_10506106_10506107;chr2L_10506683_10506684 chr2L_10505926_10506106;chr2L_10506684_10506780 18.06 14.77 21.05 19.81 11.67 12.77 37.63 10.57 15.54 21.51 22.86 11.29 29.03 15.96 12.84 19.26 23.21 12.22 20.22 11.82 21.43 16.34 16.27 14.55 32.35 20.78 25.96 14.97 36.44 15.79 12.41 27.27 22.47 14.93 23.91 26.03 15.45 15.12 14.89 13.56 28.75 18.78 21.25 9.74 15.94 20.37 14.86 23.47 14.72 20.27 22.06 19.64 16.28 13.56 18.42 18.06 20.27 17.31 K intron_retention I_chr2R_7778750_7781059,I_chr2R_7778971_7781059,Ef1alpha48D,I_chr2R_7779690_7780997,I_chr2R_7779690_7781065,I_chr2R_7779690_7783075,I_chr2R_7779719_7781059,I_chr2R_7779813_7781059,I_chr2R_7779892_7781059,EF_chr2R_7779896_7781065,I_chr2R_7780542_7781059,I_chr2R_7780580_7781059,snoRNA:Me28S-A1322,I_chr2R_7780840_7781059,I_chr2R_7780877_7781059,RI_chr2R_7781135_7783075 chr2R + chr2R_7779892_7781065 chr2R_7779891_7779892;chr2R_7781065_7781066 chr2R_7779804_7779891;chr2R_7781066_7781097 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.71 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.50 100.00 100.00 100.00 100.00 100.00 97.87 100.00 100.00 100.00 97.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention htt,I_chr3R_24527763_24528033,I_chr3R_24542203_24543363 chr3R + chr3R_24547447_24547531 chr3R_24547446_24547447;chr3R_24547531_24547532 chr3R_24546562_24547446;chr3R_24547532_24547719 0.00 0.00 3.70 2.38 0.00 0.00 2.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 3.17 0.00 0.00 0.00 0.00 2.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG12811,RI_chr3R_5873666_5874292 chr3R - chr3R_5873666_5874292 chr3R_5873666_5874138 chr3R_5873566_5873665;chr3R_5874293_5874392 100.00 100.00 100.00 100.00 100.00 100.00 98.31 98.78 100.00 96.67 100.00 99.02 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.10 100.00 NA 100.00 100.00 96.55 100.00 97.67 100.00 NA 100.00 100.00 100.00 100.00 99.01 100.00 NA 100.00 100.00 100.00 100.00 100.00 99.17 100.00 100.00 100.00 100.00 96.36 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.44 98.63 100.00 100.00 K alternative_donor RpL15 chr3LHet + chr3LHet_2398018_2398127;chr3LHet_2397859_2398127;chr3LHet_2397925_2398127;chr3LHet_2397992_2398127;chr3LHet_2398060_2398127;chr3LHet_2397841_2398127;chr3LHet_2397820_2398127;chr3LHet_2398053_2398127 chr3LHet_2398002_2398127 chr3LHet_2398128_2398454;chr3LHet_2397802_2397819 0.35 0.00 0.00 0.35 0.00 0.00 1.39 0.36 1.56 4.17 0.00 1.79 0.00 3.70 0.00 3.45 0.00 0.00 0.00 0.00 0.00 1.45 0.00 4.35 0.00 0.00 3.57 1.07 0.84 0.00 1.89 0.44 0.46 0.39 2.38 1.43 0.00 0.00 0.00 0.10 0.74 0.00 0.00 0.22 0.49 0.61 5.56 0.43 0.54 4.35 4.35 0.00 0.00 0.00 1.20 3.85 0.00 0.00 K intron_retention CG13784,I_chr2L_7209439_7209522,I_chr2L_7219131_7219918 chr2L - chr2L_7219131_7219859 chr2L_7219130_7219131;chr2L_7219859_7219860 chr2L_7219031_7219130;chr2L_7219860_7219986 87.30 91.67 82.61 95.24 72.73 93.75 87.10 90.32 85.11 90.00 92.31 80.56 71.43 87.50 95.00 95.00 100.00 87.50 84.38 85.00 78.57 85.71 88.89 83.33 92.31 93.33 83.33 100.00 100.00 72.00 75.00 76.92 84.62 88.89 76.00 100.00 81.82 88.89 80.95 85.11 92.31 78.05 78.95 80.65 NA 85.71 93.33 90.91 82.93 90.00 85.71 92.31 NA 88.89 88.89 80.00 NA 93.75 K alternative_donor CG1358,I_chr2R_3485171_3489936,CEF_chr2R_3495963_3501113 chr2R - chr2R_3493750_3501965 chr2R_3493750_3501438 chr2R_3493449_3493749;chr2R_3501966_3502037 92.31 93.75 92.31 90.00 92.31 100.00 100.00 88.24 92.59 76.47 100.00 84.62 100.00 92.31 94.44 93.75 90.91 85.71 87.50 92.00 100.00 70.00 95.45 90.91 90.00 100.00 100.00 100.00 100.00 86.67 90.00 90.00 100.00 88.89 93.75 92.86 82.61 94.12 100.00 96.43 90.91 85.71 100.00 92.86 88.89 100.00 90.91 100.00 100.00 90.91 90.00 100.00 100.00 75.00 100.00 85.71 90.91 85.71 K alternative_donor M(2)21AB,I_chr2L_107839_110405,I_chr2L_107957_108587,I_chr2L_110878_111037,I_chr2L_112022_112689,RI_chr2L_132256_132482 chr2L + chr2L_108347_108587;chr2L_108227_108587;chr2L_108102_108587 chr2L_107839_108587 chr2L_108588_108687;chr2L_107833_107838 0.00 0.00 0.00 0.00 0.00 0.00 2.70 2.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.69 0.00 1.28 0.00 0.00 0.00 0.00 0.00 1.75 0.00 0.00 0.00 5.00 3.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.94 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette RI_chrX_11473566_11473702,roX2,noncoding_23149,I_chrX_11475074_11475402 chrX + chrX_11473433_11473702 chrX_11473433_11473544;chrX_11473562_11473702 chrX_11473545_11473561 chrX_11473419_11473432;chrX_11473703_11473726 50.00 NA NA NA NA NA NA 66.67 57.14 NA NA 64.29 NA NA NA 46.15 NA NA NA 57.89 NA NA NA NA NA 50.00 NA NA NA NA 45.45 NA NA 53.33 NA NA NA NA NA 50.00 NA 42.86 NA NA NA 45.45 NA NA 64.29 NA NA NA NA NA 40.00 NA NA NA K jcn_only_AA Tif-IA,RI_chr2L_22250854_22257652 chr2L + chr2L_22253333_22253424;chr2L_22253333_22253421 chr2L_22253333_22253386 chr2L_22253256_22253332;chr2L_22253425_22253685 3.33 NA NA NA NA NA 1.96 0.00 6.06 NA NA 3.70 NA NA NA NA NA NA NA 3.70 NA NA NA NA NA NA 0.00 NA NA NA 0.00 NA NA 0.00 NA NA NA NA 4.76 NA NA 3.45 NA NA NA 0.00 NA NA 3.33 NA 4.76 NA NA NA NA NA NA NA K alternative_acceptor Dystrophin chr3R + chr3R_15394994_15410962 chr3R_15394994_15410934 chr3R_15394977_15394993;chr3R_15410963_15410968 36.36 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 36.36 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention tmod,I_chr3R_26402561_26402900 chr3R + chr3R_26403281_26403838 chr3R_26403280_26403281;chr3R_26403838_26403839 chr3R_26402901_26403280;chr3R_26403839_26404436 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.17 1.39 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.93 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.54 0.00 1.09 N alternative_acceptor Pxn,I_chr3L_2629527_2629921 chr3L - chr3L_2629579_2629913;chr3L_2629585_2629913;chr3L_2629684_2629913;chr3L_2629527_2629913;chr3L_2629597_2629913 chr3L_2629613_2629913 chr3L_2629914_2629921;chr3L_2629427_2629526 0.56 0.50 0.34 0.76 0.58 0.37 0.81 0.61 0.62 0.00 0.63 0.96 0.24 0.60 0.69 0.38 0.93 0.56 0.27 0.26 0.00 0.00 0.34 0.58 1.03 0.72 1.46 0.00 0.69 0.56 0.78 0.83 0.44 0.77 0.71 0.81 1.06 0.69 0.43 0.25 0.00 0.49 0.35 0.51 0.00 0.26 0.00 0.19 1.43 0.93 0.33 0.72 0.00 0.00 0.63 0.64 0.77 0.30 K intron_retention Gga chrX + chrX_9495445_9496113 chrX_9495444_9495445;chrX_9496113_9496114 chrX_9495287_9495444;chrX_9496114_9496708 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.44 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.26 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG6454,I_chr3R_20175958_20178905 chr3R + chr3R_20180603_20180659 chr3R_20180602_20180603;chr3R_20180659_20180660 chr3R_20180515_20180602;chr3R_20180660_20181046 0.00 0.00 0.00 2.56 0.00 0.00 0.00 0.00 1.61 0.00 0.00 0.00 NA 4.76 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Tm1,I_chr3R_11125070_11126469,I_chr3R_11126545_11128874,I_chr3R_11128245_11128874 chr3R + chr3R_11126545_11127345 chr3R_11126544_11126545;chr3R_11127345_11127346 chr3R_11126470_11126544;chr3R_11127346_11127408 0.00 0.00 0.00 0.77 0.00 0.00 0.63 0.67 0.64 0.00 0.00 0.00 0.00 0.72 0.00 0.00 0.00 0.00 0.00 0.36 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.72 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor CG8709,I_chr2R_4027128_4027182,RI_chr2R_4029534_4029599,I_chr2R_4030580_4030636,I_chr2R_4030580_4030746,I_chr2R_4035901_4043493 chr2R - chr2R_4030580_4033256;chr2R_4030580_4030636 chr2R_4030580_4033259 chr2R_4030480_4030579;chr2R_4033260_4033265 92.31 93.18 95.12 94.12 92.59 95.24 90.70 90.00 90.74 88.24 93.94 92.13 92.00 89.47 88.57 91.53 90.70 90.00 93.85 89.87 90.32 87.50 90.41 93.22 96.08 93.62 90.32 92.31 86.84 93.02 92.50 95.24 91.43 92.31 90.91 92.31 91.67 96.43 93.88 91.84 95.24 91.58 90.24 91.30 88.89 93.75 93.33 88.24 92.75 96.55 92.75 93.94 96.30 89.47 90.74 96.55 94.44 94.29 K mutually_exclusive CG11299,noncoding_8970,I_chr2R_19602423_19609308,I_chr2R_19619053_19619186 chr2R + chr2R_19601642_19609732,chr2R_19610399_19616571 chr2R_19601642_19602229,chr2R_19602423_19616571 chr2R_19609733_19610398 chr2R_19602230_19602422 chr2R_19601628_19601641;chr2R_19616572_19616757 30.95 33.33 NA 66.67 42.86 NA NA 0.00 16.67 NA NA 60.00 0.00 50.00 NA 33.33 NA 0.00 33.33 50.00 NA NA 8.33 0.00 20.00 66.67 0.00 50.00 0.00 0.00 50.00 NA NA NA 50.00 NA NA 16.67 50.00 50.00 25.00 16.67 0.00 NA 0.00 0.00 50.00 33.33 33.33 28.57 0.00 0.00 40.00 20.00 66.67 0.00 33.33 33.33 K alternative_acceptor CG32436 chr3L + chr3L_21343362_21343438 chr3L_21343362_21343419 chr3L_21343187_21343361;chr3L_21343439_21343562 2.78 NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 5.56 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention mfrn,I_chr3R_23771063_23772599 chr3R - chr3R_23770437_23770500 chr3R_23770436_23770437;chr3R_23770500_23770501 chr3R_23770275_23770436;chr3R_23770501_23770736 0.00 0.00 0.00 2.04 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.80 8.20 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG15717,RI_chrX_13023070_13023131 chrX + chrX_13023222_13023338 chrX_13023221_13023222;chrX_13023338_13023339 chrX_13023132_13023221;chrX_13023339_13024417 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.49 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.62 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG18177,CRE_chr3L_9721717_9721814,I_chr3L_9723741_9723833 chr3L + chr3L_9721715_9721812 chr3L_9721714_9721715;chr3L_9721812_9721813 chr3L_9721617_9721714;chr3L_9721813_9722117 0.00 0.00 NA 14.29 NA NA NA 20.00 8.33 NA NA 9.52 NA NA NA 6.67 0.00 NA NA 0.00 NA 5.00 4.17 NA 0.00 0.00 22.22 14.29 NA NA NA NA 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 7.41 6.67 NA 0.00 0.00 NA NA 13.04 9.09 0.00 NA NA 0.00 NA 10.53 NA NA K intron_retention pps chr3R + chr3R_8246149_8246221 chr3R_8246148_8246149;chr3R_8246221_8246222 chr3R_8245952_8246148;chr3R_8246222_8246384 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.53 0.00 0.00 2.08 0.00 0.00 2.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.55 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA alpha-Cat,I_chr3L_23319861_23321813,I_chr3L_23322620_23322985,I_chr3L_23327841_23328002 chr3L - chr3L_23322499_23322985 chr3L_23322620_23322985 chr3L_23322986_23323085;chr3L_23322330_23322498 0.00 0.00 0.00 1.14 0.00 0.00 1.27 0.00 0.00 2.00 0.00 0.63 2.94 0.00 1.11 1.16 0.00 0.00 1.05 1.21 0.00 6.52 0.00 1.43 0.00 1.37 1.22 0.00 3.85 0.00 4.17 0.00 1.11 0.65 0.00 0.00 2.50 0.00 1.85 0.00 1.45 0.00 0.00 2.70 2.70 3.17 0.00 0.89 0.64 1.61 0.00 1.52 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG10103,noncoding_10997 chr3L - chr3L_6747594_6748519 chr3L_6747593_6747594;chr3L_6748519_6748520 chr3L_6747493_6747593;chr3L_6748520_6749258 9.52 15.38 12.50 10.68 14.29 7.02 7.22 10.11 15.96 14.29 10.81 19.61 18.00 9.52 5.97 14.58 12.50 18.75 10.64 8.82 7.14 5.26 16.07 12.82 11.76 4.84 8.77 18.18 3.08 1.82 10.77 4.69 4.35 12.50 8.62 2.60 8.93 13.51 8.62 5.65 4.81 12.00 9.26 10.42 4.23 5.83 11.63 6.96 13.08 8.82 15.56 9.09 3.39 6.52 10.77 9.80 3.12 3.55 K intron_retention sd,RI_chrX_15706472_15707633,RI_chrX_15706568_15707633 chrX + chrX_15714587_15715041 chrX_15714586_15714587;chrX_15715041_15715042 chrX_15714456_15714586;chrX_15715042_15715058 25.00 NA NA 20.00 NA NA NA NA NA NA NA 25.00 NA NA NA NA NA NA NA NA NA 30.77 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD Rab30,I_chr2L_7032178_7032236 chr2L - chr2L_7032178_7032244;chr2L_7032178_7032310;chr2L_7032178_7032321 chr2L_7032178_7032236 chr2L_7032078_7032177;chr2L_7032322_7032336 2.27 3.33 2.86 0.00 NA 2.86 0.00 0.00 3.85 5.00 7.14 1.96 9.52 NA 3.70 2.78 5.00 0.00 3.03 1.89 0.00 17.24 2.78 0.00 0.00 4.76 0.00 4.76 2.27 0.00 0.00 3.85 2.44 2.63 NA 0.00 0.00 0.00 8.57 3.39 7.69 7.69 4.17 2.86 2.27 2.04 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 3.23 0.00 NA 0.00 K cassette CG11155,I_chr4_1151213_1151903,I_chr4_1152220_1152710,I_chr4_1152585_1152687 chr4 + chr4_1152220_1152710 chr4_1152220_1152326;chr4_1152585_1152710 chr4_1152327_1152584 chr4_1152120_1152219;chr4_1152711_1152723 100.00 100.00 93.75 100.00 100.00 100.00 100.00 97.30 97.06 100.00 100.00 96.88 100.00 100.00 100.00 100.00 100.00 88.89 95.45 96.30 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 87.50 100.00 NA 93.75 100.00 100.00 100.00 90.00 100.00 100.00 96.67 100.00 100.00 100.00 100.00 100.00 94.74 100.00 100.00 100.00 K intron_retention BRWD3 chr3R + chr3R_20151805_20151861 chr3R_20151804_20151805;chr3R_20151861_20151862 chr3R_20151472_20151804;chr3R_20151862_20152617 83.33 82.61 70.27 96.30 77.14 75.00 84.78 87.72 78.75 86.15 84.85 84.62 77.14 78.12 84.62 91.67 84.21 82.93 76.67 83.50 82.35 87.12 93.18 86.36 87.27 90.00 82.93 70.93 79.17 86.67 90.24 82.72 79.50 86.15 86.44 90.79 81.19 89.23 82.64 82.88 92.86 84.91 83.33 77.78 81.20 88.89 83.33 86.16 85.51 81.18 83.33 83.33 81.97 91.49 88.37 83.10 81.82 81.60 K intron_retention CG7188 chr3L - chr3L_8300481_8300893 chr3L_8300480_8300481;chr3L_8300893_8300894 chr3L_8300192_8300480;chr3L_8300894_8301064 1.29 1.24 2.50 3.87 1.47 0.88 1.45 1.14 0.96 0.00 1.71 2.68 3.05 1.80 0.00 2.42 1.80 2.27 0.00 2.04 2.17 1.07 1.28 0.75 3.01 1.46 1.27 1.94 0.70 0.00 0.68 0.00 3.51 1.61 1.83 2.91 0.00 0.00 0.00 2.42 4.23 0.95 0.00 0.00 0.00 1.17 0.60 6.52 2.55 0.84 0.94 0.93 1.59 1.29 1.43 1.58 1.04 1.65 K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2389272_2395659 chrX_2389272_2390808;chrX_2390959_2391350;chrX_2391522_2392054;chrX_2392149_2392515;chrX_2392665_2393243;chrX_2393712_2394269;chrX_2394396_2395151;chrX_2395275_2395659 chrX_2390809_2390958;chrX_2391351_2391521;chrX_2392055_2392148;chrX_2392516_2392664;chrX_2393244_2393711;chrX_2394270_2394395;chrX_2395152_2395274 chrX_2389172_2389271;chrX_2395660_2395759 26.66 NA NA NA NA NA NA NA NA NA NA 33.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 20.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K cassette CG30118,I_chr2R_14320281_14325712,I_chr2R_14325118_14325712 chr2R - chr2R_14325118_14325712 chr2R_14325118_14325444;chr2R_14325483_14325712 chr2R_14325445_14325482 chr2R_14325111_14325117;chr2R_14325713_14325780 72.73 66.67 85.71 93.33 NA NA 72.73 84.62 76.92 NA NA 83.33 NA 100.00 87.50 83.33 NA 90.00 88.89 81.25 NA 46.67 60.00 50.00 NA NA 80.00 87.50 NA NA 73.33 85.71 64.29 90.91 54.55 NA 53.85 NA 58.33 41.67 50.00 78.95 NA 70.00 50.00 70.00 54.55 80.00 72.73 61.54 70.00 NA NA 55.56 88.89 58.33 NA 68.42 K alternative_donor chico,I_chr2L_10246534_10246899 chr2L - chr2L_10246040_10246184;chr2L_10246040_10246755;chr2L_10246040_10246867;chr2L_10246040_10246899 chr2L_10246040_10247024 chr2L_10245878_10246039;chr2L_10247025_10247051 0.00 0.00 0.00 3.23 0.00 0.00 3.45 2.78 4.35 0.00 0.00 2.63 4.55 0.00 0.00 4.65 5.26 5.88 3.85 3.77 5.56 6.25 0.00 0.00 0.00 5.26 0.00 5.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.70 0.00 4.55 0.00 0.00 2.70 5.88 0.00 0.00 0.00 0.00 0.00 2.44 0.00 0.00 0.00 0.00 0.00 3.23 0.00 8.33 0.00 K intron_retention Vha100-2 chr3R - chr3R_14219132_14222507 chr3R_14219131_14219132;chr3R_14222507_14222508 chr3R_14218994_14219131;chr3R_14222508_14222727 15.38 NA NA 28.57 NA 15.38 15.62 30.00 24.24 NA NA 19.35 9.09 11.76 35.00 18.52 17.65 26.67 10.53 21.88 NA 13.04 15.00 NA NA 23.81 14.29 NA NA NA 0.00 NA NA 15.38 NA 14.29 NA NA 14.29 NA NA 15.62 12.50 NA NA NA NA NA 13.51 NA NA NA NA NA 25.00 NA 14.29 NA K alternative_donor CG31365,RI_chr3R_18950918_18950979 chr3R - chr3R_18950918_18950983 chr3R_18950918_18950979 chr3R_18950818_18950917;chr3R_18950984_18951079 4.17 0.00 NA 0.00 NA 0.00 0.00 5.56 0.00 NA NA 4.35 NA NA 0.00 4.55 0.00 7.14 NA 2.94 0.00 11.76 0.00 0.00 7.69 7.14 4.17 NA NA NA 9.52 NA 14.29 4.55 NA 5.00 0.00 NA NA 0.00 0.00 7.14 NA NA NA 0.00 8.70 6.67 0.00 4.35 4.55 4.55 NA 0.00 5.56 3.85 5.26 0.00 K jcn_only_AA CG9425,I_chr3L_14783173_14784369 chr3L + chr3L_14783173_14784970;chr3L_14783173_14785138 chr3L_14783173_14784369 chr3L_14783073_14783172;chr3L_14785139_14785560 3.12 NA NA 0.00 NA NA 0.00 3.12 0.00 NA NA 9.68 NA NA NA 3.12 NA NA 0.00 18.18 NA NA NA NA NA NA NA NA NA NA NA NA NA 6.67 NA NA NA NA NA NA NA 10.71 NA NA NA NA NA NA 7.69 NA NA NA NA NA NA NA NA NA K mutually_exclusive Galpha49B,I_chr2R_8504706_8504960,I_chr2R_8506056_8506112 chr2R + chr2R_8504447_8504960,chr2R_8505090_8505299 chr2R_8504447_8504576,chr2R_8504706_8505299 chr2R_8504961_8505089 chr2R_8504577_8504705 chr2R_8504292_8504446;chr2R_8505300_8505429 100.00 100.00 100.00 96.88 100.00 100.00 98.28 97.56 99.05 100.00 97.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.00 100.00 100.00 100.00 100.00 100.00 97.62 98.95 100.00 96.88 98.18 100.00 97.87 94.92 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.59 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.43 100.00 K jcn_only_AD CG17159,CG17162,noncoding_25215 chrXHet - chrXHet_69232_75250;chrXHet_69232_75430 chrXHet_69232_75279 chrXHet_69195_69231;chrXHet_75431_75453 20.83 NA 16.13 23.33 NA 10.00 30.56 20.59 13.79 NA 6.45 9.52 NA NA 17.39 19.23 NA 43.48 NA 20.00 36.36 NA 26.09 20.83 NA 16.13 NA NA NA NA 9.52 NA NA 21.95 NA NA 27.59 23.81 16.22 30.43 NA 22.86 NA 10.00 NA NA NA NA 20.83 NA 20.83 23.08 NA NA 29.41 NA NA NA K intron_retention didum,I_chr2R_3393005_3393348 chr2R + chr2R_3393005_3393153 chr2R_3393004_3393005;chr2R_3393153_3393154 chr2R_3392905_3393004;chr2R_3393154_3393251 0.00 0.00 0.00 7.14 2.38 0.00 0.00 0.00 1.45 0.00 0.00 5.00 0.00 0.00 0.00 0.00 5.88 0.00 0.00 3.92 0.00 0.00 0.00 0.00 8.70 0.00 3.45 NA 9.68 0.00 0.00 0.00 0.00 0.00 5.00 0.00 4.44 0.00 0.00 0.00 3.12 1.56 0.00 2.86 0.00 0.00 0.00 0.00 2.74 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD Pomp,I_chr2L_20788087_20788402 chr2L + chr2L_20788087_20788402 chr2L_20788116_20788402 chr2L_20788403_20788502;chr2L_20787987_20788086 100.00 100.00 100.00 99.63 100.00 99.58 100.00 100.00 99.56 99.56 100.00 99.60 99.46 100.00 100.00 100.00 100.00 99.56 100.00 99.62 100.00 99.02 99.73 99.81 100.00 100.00 99.80 100.00 99.57 100.00 99.67 100.00 100.00 99.65 99.17 100.00 99.86 99.79 100.00 99.57 99.45 99.62 100.00 100.00 100.00 99.76 99.71 100.00 99.71 100.00 100.00 100.00 100.00 99.81 100.00 99.81 100.00 100.00 N jcn_only_AA CG13900,I_chr3L_830745_830907 chr3L - chr3L_830745_830907;chr3L_830814_830907;chr3L_830729_830907 chr3L_830715_830907 chr3L_830908_831007;chr3L_830702_830714 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 17.65 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG10737 chr2R + chr2R_15053034_15058190 chr2R_15053034_15058122 chr2R_15053020_15053033;chr2R_15058191_15058666 80.95 72.73 81.82 75.00 80.00 NA 65.38 66.67 67.86 88.89 61.54 80.95 70.00 63.64 81.82 71.43 81.82 73.33 76.47 87.50 83.33 84.62 76.92 84.62 91.67 93.75 92.86 86.67 95.00 91.67 76.19 84.62 95.65 76.19 NA 69.23 81.82 NA 72.73 95.83 91.67 68.00 58.82 80.00 90.91 90.48 85.71 91.18 83.33 NA 66.67 66.67 NA NA 71.43 80.00 50.00 89.47 K intron_retention crol,I_chr2L_11799403_11802904 chr2L - chr2L_11806158_11808013 chr2L_11806157_11806158;chr2L_11808013_11808014 chr2L_11806048_11806157;chr2L_11808014_11808100 0.00 0.00 0.00 1.72 0.00 0.00 3.23 4.17 0.00 0.00 0.00 2.97 0.00 0.00 6.52 1.92 0.00 8.33 0.00 0.00 0.00 6.25 0.95 0.00 0.00 0.00 8.51 7.55 4.44 0.00 1.69 0.00 0.00 0.00 3.03 0.00 0.00 0.00 1.52 3.49 0.00 1.00 0.00 3.92 6.25 0.00 0.00 4.72 4.30 0.00 0.00 2.50 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention mRpS28 chr2R - chr2R_14501930_14501986 chr2R_14501929_14501930;chr2R_14501986_14501987 chr2R_14501643_14501929;chr2R_14501987_14502108 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.49 0.00 0.00 0.00 5.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.39 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.06 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.97 K intron_retention I_chrX_15223901_15223968,HDAC6,I_chrX_15232958_15233665 chrX + chrX_15229302_15229382 chrX_15229301_15229302;chrX_15229382_15229383 chrX_15229023_15229301;chrX_15229383_15229421 0.00 0.00 NA 7.14 NA NA 0.00 3.85 0.00 NA NA 0.00 NA 0.00 0.00 0.00 NA NA NA 0.00 NA 0.00 0.00 0.00 NA NA 20.00 NA NA 0.00 11.76 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 6.06 0.00 NA 0.00 0.00 NA 0.00 5.41 0.00 0.00 NA NA NA 0.00 NA NA 0.00 N alternative_donor CG32529 chrX + chrX_19795641_19795900;chrX_19795522_19795900 chrX_19795687_19795900 chrX_19795901_19798251;chrX_19794649_19795521 0.92 1.85 0.55 2.05 0.60 1.31 1.90 1.24 0.80 0.54 2.02 0.86 1.86 1.27 1.84 1.70 0.00 0.51 0.73 0.92 1.42 14.46 1.11 0.50 0.59 0.00 1.26 1.27 2.16 1.28 1.05 1.14 0.92 0.44 0.83 1.70 0.68 0.81 0.60 0.27 1.20 0.96 0.81 0.32 0.00 1.80 0.91 1.99 1.10 0.78 0.83 0.00 0.00 1.25 1.09 0.75 0.98 0.00 K alternative_donor tacc,I_chr3R_570388_572101,I_chr3R_574271_574512 chr3R - chr3R_560576_560883;chr3R_560576_560847 chr3R_560576_560886 chr3R_560204_560575;chr3R_560887_561068 2.10 1.68 3.03 0.92 1.20 3.15 1.53 4.68 2.55 1.45 7.14 2.35 8.41 0.91 4.35 4.85 1.98 0.93 2.74 2.44 8.65 0.00 1.12 1.32 1.14 1.35 2.93 1.06 0.97 4.17 2.27 1.10 0.95 2.73 2.06 NA 0.78 0.96 1.33 0.54 1.68 2.75 4.72 0.77 2.08 2.76 2.42 3.31 3.27 0.79 2.66 3.00 1.06 2.13 2.94 0.71 2.44 5.11 K alternative_acceptor Fur1,I_chr3R_21179590_21179870,CEI_chr3R_21210600_21222433,I_chr3R_21257704_21287086 chr3R - chr3R_21177936_21179870;chr3R_21177915_21179870 chr3R_21179590_21179870 chr3R_21179871_21179970;chr3R_21177839_21177914 1.03 0.00 2.44 0.00 0.00 0.00 1.92 1.82 0.86 0.00 13.79 1.98 0.00 0.00 0.00 2.44 0.00 2.00 0.00 0.85 3.12 1.10 1.19 1.52 1.47 0.00 1.69 9.68 1.03 0.00 1.82 0.00 1.03 1.23 1.52 0.00 1.03 1.79 0.79 0.90 1.56 0.79 0.00 0.93 0.77 0.79 1.47 0.62 1.05 1.82 1.12 0.00 0.00 1.47 1.75 1.82 0.00 0.71 K alternative_acceptor CG9932,I_chr2L_13031395_13035824 chr2L - chr2L_13028540_13028867 chr2L_13028552_13028867 chr2L_13028868_13029642;chr2L_13027809_13028539 48.48 54.17 54.17 57.14 52.63 63.16 44.00 58.62 45.65 53.33 60.00 43.59 35.71 35.71 41.38 55.17 64.29 47.06 54.55 46.81 53.85 49.41 48.39 66.67 62.50 33.33 58.82 54.55 44.00 41.94 57.14 41.67 47.37 48.48 47.62 61.11 44.74 46.15 51.61 46.94 64.29 41.38 47.83 54.17 42.11 50.00 50.00 49.02 45.00 45.00 45.00 47.06 43.75 54.55 43.33 58.33 53.85 33.33 N jcn_only_AD CG32594 chrX + chrX_14927496_14927638;chrX_14927033_14927638;chrX_14926607_14927638 chrX_14927381_14927638 chrX_14927639_14928125;chrX_14925576_14926606 4.21 3.95 3.00 13.64 5.61 4.63 1.29 8.33 3.11 2.74 12.57 5.04 0.71 6.35 3.80 7.34 2.86 6.74 8.94 6.28 9.69 7.76 5.34 4.48 2.70 3.23 5.33 7.58 11.06 1.05 4.55 6.93 8.25 2.27 5.81 4.21 2.56 4.07 4.33 6.25 2.94 4.94 4.49 2.98 3.04 4.29 3.57 2.29 3.86 2.63 6.25 2.46 3.31 2.79 4.21 3.30 3.18 0.42 K intron_retention mus308 chr3R - chr3R_8532951_8533003 chr3R_8532950_8532951;chr3R_8533003_8533004 chr3R_8532743_8532950;chr3R_8533004_8535227 0.00 NA 7.69 3.45 NA NA 0.00 0.00 0.00 NA NA 0.00 0.00 NA NA 0.00 NA NA NA 0.00 NA 0.00 0.00 0.00 NA NA 0.00 NA NA 0.00 NA NA 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 NA 0.00 NA 0.00 NA 0.00 NA 0.00 0.00 NA 0.00 NA NA NA NA NA NA 0.00 K intron_retention CG1681,RI_chrX_13299118_13299649,RI_chrX_13299118_13301936,I_chrX_13299118_13302688,I_chrX_13300335_13302320 chrX + chrX_13299118_13302320 chrX_13299117_13299118;chrX_13302320_13302321 chrX_13299018_13299117;chrX_13302321_13302420 1.59 1.38 1.27 2.67 0.00 0.00 2.11 0.00 1.17 2.47 6.25 1.41 0.00 0.00 2.90 0.00 0.00 0.00 0.00 1.64 2.00 1.39 2.60 3.45 5.93 3.28 1.22 3.43 7.62 1.59 1.33 3.03 3.64 2.17 0.00 2.56 0.87 1.97 2.30 1.65 0.00 1.56 1.82 1.23 2.78 2.26 0.00 0.00 1.98 2.00 2.26 3.60 1.03 0.00 0.00 0.73 1.63 0.00 K alternative_donor E2f,I_chr3R_17452573_17458606,R_chr3R_17452574_17485937,CG6353 chr3R - chr3R_17452573_17458645 chr3R_17452573_17457854 chr3R_17452474_17452572;chr3R_17458646_17458706 83.33 84.00 88.75 87.57 79.63 85.92 86.31 82.45 83.13 97.30 92.00 87.26 87.88 82.35 85.11 86.71 86.36 82.72 81.67 79.62 89.47 65.33 81.31 89.86 90.57 83.16 82.09 77.78 88.75 72.09 85.57 86.54 79.03 82.42 81.08 94.52 94.55 82.61 85.71 89.38 79.76 88.07 89.66 89.23 83.33 79.05 82.61 84.71 81.59 86.11 82.95 81.67 81.82 73.91 85.83 81.63 79.49 81.91 K intron_retention mrj,RI_chr2R_12093733_12108627,I_chr2R_12108697_12109174 chr2R - chr2R_12092537_12093214 chr2R_12092536_12092537;chr2R_12093214_12093215 chr2R_12092330_12092536;chr2R_12093215_12093324 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.43 0.00 0.00 0.00 2.88 0.00 3.08 0.00 1.32 0.00 5.56 3.37 1.98 0.00 0.00 1.67 5.88 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.80 0.00 0.70 0.00 0.00 0.00 0.00 0.00 0.00 1.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor CG11739,RI_chr3R_205772_205830,I_chr3R_207254_207600 chr3R + chr3R_205768_205830 chr3R_205772_205830 chr3R_205831_205930;chr3R_205672_205767 1.41 1.09 1.11 1.92 1.15 0.00 1.18 0.59 1.90 0.00 0.00 2.22 1.33 0.00 0.97 0.97 2.30 1.22 1.32 1.03 1.45 2.27 2.50 2.50 0.00 1.79 1.35 3.45 10.26 2.38 6.06 2.13 3.77 0.00 0.00 1.79 0.00 1.43 2.11 3.66 2.27 1.38 2.86 0.00 0.00 1.41 1.33 2.38 0.65 2.94 1.23 1.85 2.22 1.18 1.83 1.08 2.21 3.90 K jcn_only_AD CG9797 chr3R - chr3R_4555824_4556254 chr3R_4555824_4556088 chr3R_4555512_4555823;chr3R_4556255_4556334 100.00 100.00 100.00 99.00 100.00 100.00 100.00 98.41 100.00 100.00 100.00 100.00 96.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.80 100.00 97.96 98.59 100.00 100.00 90.16 100.00 100.00 100.00 97.33 100.00 100.00 100.00 100.00 98.68 98.89 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.84 N alternative_donor CycG,I_chr3R_27425071_27425214,RE_chr3R_27427953_27436598 chr3R - chr3R_27425071_27426110 chr3R_27425071_27425968 chr3R_27424971_27425070;chr3R_27426111_27426325 0.00 0.00 0.00 0.00 0.00 0.00 0.24 0.14 0.07 0.00 0.00 0.26 0.00 0.18 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.08 0.00 0.00 0.00 0.00 0.40 0.89 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.11 0.00 0.17 0.00 0.00 0.00 0.16 0.00 0.00 0.10 0.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG10907 chr3L + chr3L_11787277_11787453 chr3L_11787276_11787277;chr3L_11787453_11787454 chr3L_11786670_11787276;chr3L_11787454_11787837 6.25 NA NA 0.00 NA NA 0.00 NA 7.14 NA NA NA NA NA NA NA NA NA NA 6.25 NA NA NA NA NA NA NA NA NA NA NA NA NA 6.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CG6686 chr2L - chr2L_11987513_11987695;chr2L_11987495_11987695 chr2L_11987388_11987695 chr2L_11987696_11988035 94.23 93.81 91.78 87.69 100.00 95.38 98.15 95.24 94.56 92.06 98.59 94.53 95.83 95.24 99.08 98.68 98.08 92.86 84.78 95.39 92.98 77.38 92.45 93.84 88.51 84.91 97.06 98.30 91.72 91.51 87.76 94.34 83.91 94.23 96.83 92.86 94.26 95.77 95.51 92.95 94.67 95.15 95.38 93.62 83.82 94.20 95.24 88.12 94.44 92.44 92.72 97.20 97.33 94.44 91.86 91.74 90.00 88.24 K jcn_only_AA ATPCL,RFI_chr2R_11883823_11884399,I_chr2R_11887476_11888411 chr2R - chr2R_11883820_11884399 chr2R_11883871_11884399 chr2R_11884400_11884499;chr2R_11883723_11883819 100.00 100.00 99.35 100.00 100.00 99.37 99.31 100.00 100.00 100.00 99.30 100.00 100.00 99.11 100.00 100.00 100.00 100.00 100.00 100.00 99.39 99.73 99.68 100.00 100.00 99.37 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.78 100.00 100.00 100.00 100.00 99.14 100.00 100.00 100.00 99.60 100.00 99.34 99.10 99.32 100.00 100.00 100.00 K jcn_only_AA CG32202 chr3L + chr3L_18675478_18675538 chr3L_18675478_18675524 chr3L_18675302_18675477;chr3L_18675539_18675973 0.59 NA 0.00 0.00 NA 0.00 0.00 7.27 1.89 NA 4.35 0.00 NA 7.14 11.11 4.35 NA 0.00 0.00 1.18 0.00 7.14 5.71 4.17 NA 0.00 NA NA 4.76 0.00 0.00 10.71 18.18 0.00 4.76 NA NA 0.00 0.00 0.00 0.00 2.50 0.00 0.00 3.45 2.08 0.00 0.00 2.13 5.71 6.67 NA 0.00 0.00 0.00 8.70 2.78 2.22 K alternative_acceptor CG6656,RI_chr3R_17701533_17702073,CG33092 chr3R + chr3R_17701533_17702073 chr3R_17701533_17702069 chr3R_17701437_17701532;chr3R_17702074_17702162 97.34 100.00 100.00 100.00 100.00 96.67 100.00 100.00 98.75 93.33 95.24 98.11 100.00 95.65 97.30 100.00 100.00 97.30 96.67 98.91 95.65 97.30 95.65 100.00 93.33 100.00 100.00 95.45 91.67 100.00 97.56 95.65 97.30 97.83 100.00 NA 98.57 95.45 94.52 96.67 93.33 98.51 100.00 90.91 93.10 100.00 97.62 96.00 100.00 96.67 100.00 94.12 94.44 96.43 97.37 96.00 98.51 96.43 K mutually_exclusive CG9171,I_chr2L_5771210_5773014,RI_chr2L_5792418_5799117,I_chr2L_5799412_5800043 chr2L - chr2L_5771210_5799117,chr2L_5799278_5800043 chr2L_5771210_5787964,chr2L_5787985_5800043 chr2L_5799118_5799277 chr2L_5787965_5787984 chr2L_5771110_5771209;chr2L_5800044_5800143 0.00 NA NA NA NA NA 0.00 0.00 33.33 NA NA 0.00 NA NA 0.00 NA NA 0.00 NA 14.29 NA 0.00 0.00 NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA 33.33 NA 12.50 0.00 NA NA NA NA NA 22.22 NA NA NA NA NA NA NA NA NA K alternative_acceptor e(y)3,I_chrX_19526957_19527002 chrX - chrX_19526939_19527002 chrX_19526957_19527002 chrX_19527003_19527102;chrX_19526857_19526938 0.00 0.00 0.00 2.38 0.00 0.00 2.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.72 0.81 0.00 0.00 2.00 0.00 0.00 0.00 2.17 0.00 0.00 0.00 0.00 1.49 0.00 0.00 0.00 0.00 1.05 0.00 0.00 0.00 1.41 1.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor Axn,I_chr3R_25849563_25849626 chr3R + chr3R_25859466_25859544 chr3R_25859466_25859526 chr3R_25859321_25859465;chr3R_25859545_25859847 32.50 31.11 34.78 33.33 26.67 25.58 43.59 40.00 29.23 21.95 43.33 32.43 34.29 41.18 34.21 30.23 36.00 29.27 35.29 35.63 30.00 30.77 27.03 30.77 21.82 16.67 40.74 44.12 34.78 30.00 23.53 35.29 29.17 25.45 31.82 42.11 32.50 45.45 28.99 28.71 18.75 35.94 31.43 31.48 30.56 33.33 26.42 33.33 44.44 32.65 41.07 41.18 38.10 33.33 23.40 34.29 34.38 24.44 K intron_retention RI_chrX_1954878_1955077,CG4281,CG14054,I_chrX_1962457_1964222 chrX - chrX_1958522_1958579 chrX_1958521_1958522;chrX_1958579_1958580 chrX_1957450_1958521;chrX_1958580_1958853 0.00 0.00 0.00 6.45 0.00 0.00 2.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.57 0.00 2.23 1.95 0.00 1.98 1.52 1.29 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.90 0.00 0.00 0.00 4.76 1.08 0.00 0.00 0.00 0.00 0.00 0.00 0.50 1.32 0.00 0.00 0.00 0.00 0.00 0.00 0.79 0.00 K alternative_acceptor Ptp4E,EI_chrX_4842231_4842425 chrX + chrX_4847655_4848167;chrX_4847655_4847757 chrX_4847655_4848149 chrX_4847526_4847654;chrX_4848168_4848168 70.37 75.00 64.71 76.19 61.11 64.71 57.14 73.91 58.33 65.00 66.67 65.22 25.00 73.33 70.59 71.43 77.78 71.43 73.33 78.12 73.33 69.57 66.67 65.62 72.22 88.89 83.33 91.67 86.67 66.67 70.37 64.29 73.33 67.74 75.00 82.35 65.79 69.57 60.61 80.00 73.68 70.37 80.00 64.29 72.22 69.57 62.96 63.64 73.91 68.00 63.64 85.00 66.67 77.78 76.92 69.23 64.71 65.22 N intron_retention CG42354,CG42353 chrX - chrX_15989430_15989490 chrX_15989429_15989430;chrX_15989490_15989491 chrX_15989002_15989429;chrX_15989491_15989723 0.00 NA NA 4.00 0.00 NA 0.00 NA 0.00 NA 0.00 0.00 NA NA NA 0.00 NA NA NA 0.00 NA 0.00 NA NA NA NA 11.11 25.00 15.79 NA 0.00 NA 0.00 4.17 NA NA NA NA 0.00 0.00 NA 0.00 NA NA NA NA NA NA 0.00 NA 0.00 NA NA NA 0.00 NA NA NA K jcn_only_AA Syb chr2R - chr2R_6138650_6139432 chr2R_6138719_6139432 chr2R_6139433_6139489;chr2R_6138448_6138649 26.85 21.95 21.78 32.89 23.53 25.13 26.89 32.00 25.16 22.66 24.70 26.16 24.06 21.59 22.47 29.42 23.93 20.49 26.85 29.50 21.36 33.05 24.84 28.32 29.97 24.81 32.02 41.31 31.29 27.83 23.52 33.33 32.66 28.92 28.60 19.10 18.23 25.20 26.28 32.28 29.67 30.48 21.04 23.82 33.27 32.70 26.71 40.99 28.73 26.21 29.61 29.70 26.75 28.33 19.91 22.52 27.31 40.43 K alternative_donor CG6724 chr2L - chr2L_10768891_10768953 chr2L_10768891_10768947 chr2L_10768644_10768890;chr2L_10768954_10769614 100.00 97.67 97.44 98.39 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.72 100.00 100.00 100.00 100.00 100.00 97.30 96.97 100.00 100.00 100.00 98.15 100.00 95.24 100.00 97.87 100.00 100.00 100.00 100.00 98.33 98.97 100.00 97.37 96.77 98.51 100.00 98.39 98.44 98.08 100.00 100.00 97.96 98.72 98.46 100.00 98.44 100.00 100.00 98.04 100.00 98.18 100.00 97.73 100.00 100.00 99.27 K intron_retention CG12428,I_chr3R_23531574_23532266 chr3R - chr3R_23531574_23531981 chr3R_23531573_23531574;chr3R_23531981_23531982 chr3R_23531474_23531573;chr3R_23531982_23531987 12.50 NA NA NA NA NA 13.33 NA 7.69 NA NA NA NA NA NA NA NA NA NA 0.00 NA 26.32 NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA 25.00 NA NA NA NA NA NA NA NA 12.50 NA NA NA NA NA NA NA NA NA K intron_retention poe chr2L - chr2L_8056254_8056308 chr2L_8056253_8056254;chr2L_8056308_8056309 chr2L_8054657_8056253;chr2L_8056309_8058244 0.00 0.00 0.00 0.00 0.00 0.00 0.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.47 0.00 0.00 0.00 0.00 0.00 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG1443 chr3R - chr3R_24821097_24821187 chr3R_24821096_24821097;chr3R_24821187_24821188 chr3R_24820984_24821096;chr3R_24821188_24821240 31.25 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 31.25 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_donor par-1,I_chr2R_15348122_15353660,RI_chr2R_15348122_15356294,EF_chr2R_15349994_15351814,F_chr2R_15349994_15351846,noncoding_8037,FI_chr2R_15350149_15351814,I_chr2R_15350437_15351814,I_chr2R_15350437_15351825,I_chr2R_15350905_15351814,RI_chr2R_15355419_15356294,F_chr2R_15362147_15365138,RI_chr2R_15363358_15365120,I_chr2R_15365210_15370456 chr2R + chr2R_15350149_15351814;chr2R_15350905_15351814;chr2R_15350285_15351814 chr2R_15350437_15351814 chr2R_15351815_15351914;chr2R_15350068_15350148 33.33 28.57 37.50 25.00 33.33 30.00 27.78 38.10 22.73 66.67 60.00 42.86 33.33 30.00 16.67 25.00 33.33 33.33 30.00 19.05 28.57 33.33 41.67 36.36 40.00 18.18 57.14 40.00 60.00 36.36 35.71 50.00 28.57 36.36 57.14 21.43 60.00 66.67 20.00 28.57 33.33 35.29 50.00 33.33 NA 50.00 40.00 37.50 40.74 16.67 42.86 33.33 20.00 25.00 21.43 33.33 28.57 40.00 K intron_retention Fer1HCH,I_chr3R_26212319_26213496,I_chr3R_26212319_26212460,I_chr3R_26212834_26213185,I_chr3R_26213132_26213185 chr3R - chr3R_26212319_26213185 chr3R_26212318_26212319;chr3R_26213185_26213186 chr3R_26212219_26212318;chr3R_26213186_26213272 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.20 0.00 0.00 0.00 0.00 0.00 0.10 0.00 0.00 0.00 0.07 0.00 0.25 0.00 0.08 0.00 0.00 0.11 0.16 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.23 0.00 0.07 0.00 0.27 0.00 0.00 0.00 0.00 0.00 0.12 0.00 0.00 0.17 0.00 0.00 0.00 0.00 0.00 K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2387249_2395659 chrX_2387249_2387583;chrX_2387710_2388436;chrX_2388671_2389073;chrX_2389272_2389980;chrX_2390067_2390493;chrX_2390627_2390808;chrX_2390959_2391350;chrX_2391522_2395659 chrX_2387584_2387709;chrX_2388437_2388670;chrX_2389074_2389271;chrX_2389981_2390066;chrX_2390494_2390626;chrX_2390809_2390958;chrX_2391351_2391521 chrX_2387149_2387248;chrX_2395660_2395759 0.00 1.92 0.00 0.00 0.00 0.00 0.00 0.75 0.59 0.00 0.00 3.26 0.00 1.72 1.11 0.00 0.00 0.00 1.22 0.99 0.00 0.00 0.00 0.00 0.00 0.00 1.45 0.00 0.00 0.00 0.00 0.00 1.01 0.76 0.00 0.00 1.12 0.00 1.25 0.99 0.00 0.73 0.00 1.39 0.00 0.00 NA 0.78 0.56 0.00 0.00 0.00 0.00 NA 1.02 0.00 0.00 0.00 K jcn_only_AA CG33558,RI_chr2R_2813804_2816013,I_chr2R_2813804_2817753,I_chr2R_2814327_2817753,I_chr2R_2815816_2816013,I_chr2R_2816342_2817327,I_chr2R_2816779_2817354,RI_chr2R_2817876_2819347,CREI_chr2R_2832933_2850384 chr2R - chr2R_2815768_2816013;chr2R_2815657_2816013 chr2R_2815654_2816013 chr2R_2816014_2816113;chr2R_2815599_2815653 17.91 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 20.83 NA NA NA NA NA NA NA NA NA NA NA NA 15.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CG8312 chr3R + chr3R_5448140_5448194 chr3R_5448140_5448191 chr3R_5448075_5448139;chr3R_5448195_5448263 35.48 36.99 32.26 38.82 22.64 37.88 35.82 44.71 37.50 38.10 36.67 30.97 47.06 48.57 32.93 30.36 32.35 32.39 35.71 31.76 44.83 35.77 45.56 33.72 36.36 31.71 28.40 37.50 33.96 40.79 29.58 31.37 32.63 42.27 46.38 42.86 34.59 36.25 40.74 35.48 37.50 31.16 35.19 36.84 27.78 32.39 37.04 46.99 31.62 42.42 31.13 44.44 28.77 26.04 33.82 27.42 34.31 35.29 K alternative_donor CG1458,I_chr3R_25048492_25048616 chr3R - chr3R_25048492_25048964 chr3R_25048492_25048616 chr3R_25048392_25048491;chr3R_25048965_25049121 1.19 0.65 0.93 1.92 1.67 1.98 1.22 1.59 1.95 0.00 2.44 1.25 1.67 1.14 0.93 2.38 2.08 1.12 3.23 1.43 1.37 1.75 0.98 0.70 0.00 1.15 1.03 1.18 1.19 1.61 3.26 1.23 0.99 2.40 0.93 0.00 0.81 0.00 0.49 1.83 1.27 1.04 1.47 0.85 1.53 1.63 1.06 1.19 2.27 2.22 1.44 0.90 0.89 0.76 1.12 0.65 1.10 2.02 K alternative_donor lin chr2R + chr2R_4802513_4802569;chr2R_4802505_4802569 chr2R_4802509_4802569 chr2R_4802570_4805741;chr2R_4802033_4802504 3.57 0.00 0.00 6.67 11.11 0.00 0.00 6.25 3.45 11.11 9.09 7.41 0.00 8.33 5.88 0.00 11.11 11.11 0.00 2.94 14.29 0.00 0.00 4.00 5.00 7.69 3.57 0.00 0.00 4.76 0.00 0.00 7.41 4.35 5.88 12.50 3.57 4.35 7.89 9.68 0.00 6.67 0.00 5.26 0.00 22.73 0.00 7.14 9.52 0.00 3.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Dgkepsilon chr2R + chr2R_8646849_8646903 chr2R_8646848_8646849;chr2R_8646903_8646904 chr2R_8646561_8646848;chr2R_8646904_8647226 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.56 0.00 0.00 1.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor RI_chr3L_3803455_3805820,CG10855,I_chr3L_3804765_3804877 chr3L - chr3L_3804751_3805820 chr3L_3804765_3805820 chr3L_3805821_3805920;chr3L_3804665_3804750 100.00 NA NA NA NA NA NA NA 87.50 NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA N multi_cassette CG1161,RI_chr3R_1181273_1181459,I_chr3R_1182079_1182146 chr3R + chr3R_1181273_1182146 chr3R_1181273_1181555;chr3R_1181665_1181724;chr3R_1181851_1181899;chr3R_1181959_1182146 chr3R_1181556_1181664;chr3R_1181725_1181850;chr3R_1181900_1181958 chr3R_1181173_1181272;chr3R_1182147_1182246 100.00 100.00 100.00 100.00 100.00 100.00 86.67 100.00 92.13 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 94.33 100.00 90.00 85.25 87.10 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 67.95 100.00 100.00 100.00 100.00 100.00 100.00 89.74 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 86.27 100.00 100.00 100.00 100.00 100.00 K jcn_only_AD slgA,I_chrX_21253735_21253820 chrX + chrX_21245849_21247146;chrX_21245487_21247146 chrX_21245768_21247146 chrX_21247147_21247693;chrX_21245405_21245486 28.93 NA NA NA NA NA NA 15.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 42.86 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG33232,I_chr3L_2484838_2495010,CG1146 chr3L + chr3L_2490848_2490979 chr3L_2490847_2490848;chr3L_2490979_2490980 chr3L_2490798_2490847;chr3L_2490980_2492250 78.57 NA NA 81.82 NA NA 78.57 90.00 60.00 NA NA 90.00 NA NA NA 87.50 NA NA NA NA NA 50.00 NA NA NA NA NA 80.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 63.64 NA 63.64 NA NA NA NA 75.00 NA NA NA NA NA NA NA NA NA K alternative_donor Mtch,RI_chr3L_184729_185366,I_chr3L_185367_185925 chr3L + chr3L_184670_184774 chr3L_184682_184774 chr3L_184775_185000;chr3L_184665_184669 44.44 NA 53.33 46.67 NA 25.00 50.00 41.67 64.00 NA 46.15 50.00 40.00 44.44 47.06 53.33 NA 41.67 35.71 38.46 NA NA NA NA NA 35.71 NA NA NA NA 36.36 35.71 27.27 60.00 NA NA NA NA NA 30.43 NA 48.28 75.00 NA 43.75 41.67 NA 40.00 47.62 NA NA NA NA NA 57.89 NA NA 45.45 K alternative_donor Pk61C,CE_chr3L_129889_141769,I_chr3L_132531_133824,I_chr3L_133962_134014 chr3L + chr3L_129889_135457 chr3L_129909_135457 chr3L_135458_135842;chr3L_129840_129888 0.00 0.00 0.00 0.00 2.44 0.00 1.67 1.23 1.75 0.00 0.00 1.54 0.00 0.00 1.67 0.00 0.00 2.78 0.00 1.12 0.00 0.00 0.00 0.00 0.00 0.00 2.13 0.00 3.23 0.00 0.00 0.00 0.93 1.43 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.03 2.50 0.00 0.00 0.00 0.00 0.00 1.27 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 K multi_cassette Jupiter,I_chr3R_7417030_7419354,I_chr3R_7418347_7445425,RE_chr3R_7419487_7429863,I_chr3R_7429934_7430307,I_chr3R_7429962_7445425,I_chr3R_7430006_7445425,RI_chr3R_7442748_7445425,RI_chr3R_7442793_7445425 chr3R - chr3R_7418347_7445425 chr3R_7418347_7419043;chr3R_7419077_7419354;chr3R_7419489_7445425 chr3R_7419044_7419076;chr3R_7419355_7419488 chr3R_7418247_7418346;chr3R_7445426_7445525 99.35 98.00 100.00 99.36 100.00 100.00 95.29 99.03 100.00 99.08 100.00 100.00 100.00 100.00 98.86 100.00 98.41 100.00 100.00 100.00 100.00 97.66 100.00 98.51 94.69 97.37 98.31 94.92 98.95 100.00 100.00 100.00 98.67 100.00 99.26 99.16 99.07 98.23 99.29 98.80 99.60 99.44 100.00 100.00 99.37 99.35 99.06 99.68 99.37 99.28 99.15 98.55 98.82 98.95 98.91 100.00 99.01 99.63 K intron_retention l(1)G0156 chrX - chrX_19413865_19413936 chrX_19413864_19413865;chrX_19413936_19413937 chrX_19413729_19413864;chrX_19413937_19414331 0.00 0.00 0.00 0.00 0.00 0.40 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.33 0.00 0.00 0.00 0.00 0.00 0.90 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.61 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG8079 chr2R + chr2R_11109071_11109232 chr2R_11109071_11109132 chr2R_11108939_11109070;chr2R_11109233_11109322 6.67 10.53 NA 0.00 NA 0.00 19.05 7.69 10.00 NA 0.00 11.11 6.67 14.29 0.00 4.00 NA 0.00 NA 4.08 NA NA 3.45 8.70 16.67 NA 0.00 NA NA NA 9.68 NA NA 4.00 0.00 0.00 8.33 6.25 15.00 9.09 NA 15.00 NA 0.00 NA 7.69 7.69 NA 6.25 6.67 4.35 12.50 NA 0.00 8.33 NA NA NA K alternative_acceptor Hsc70Cb chr3L + chr3L_14030212_14030580 chr3L_14030212_14030577 chr3L_14030158_14030211;chr3L_14030581_14030850 100.00 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD RpS18,CG8908,EI_chr2R_16151918_16151997,I_chr2R_16151918_16152036,I_chr2R_16151938_16152065,I_chr2R_16151942_16151997,I_chr2R_16158045_16158109 chr2R + chr2R_16151938_16151997;chr2R_16151942_16151997 chr2R_16151918_16151997 chr2R_16151998_16152066;chr2R_16151852_16151917 0.07 0.08 0.10 0.07 0.05 0.11 0.06 0.09 0.07 0.06 0.11 0.09 0.11 0.07 0.06 0.16 0.13 0.10 0.05 0.09 0.11 0.14 0.07 0.08 0.07 0.11 0.04 0.06 0.07 0.04 0.14 0.04 0.07 0.09 0.07 0.10 0.08 0.07 0.06 0.05 0.06 0.05 0.11 0.04 0.02 0.09 0.03 0.05 0.08 0.03 0.06 0.05 0.07 0.06 0.10 0.07 0.02 0.04 K alternative_acceptor Gnf1,I_chr3R_749200_749265 chr3R + chr3R_733842_733969 chr3R_733842_733903 chr3R_732511_733841;chr3R_733970_734812 0.00 1.67 1.25 0.00 0.00 0.00 3.03 0.00 0.85 0.00 0.00 0.00 2.13 1.72 0.00 1.00 0.00 2.00 1.61 0.51 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.93 1.09 0.00 0.00 0.00 1.72 0.00 0.00 1.23 0.88 1.85 0.00 1.27 0.00 0.00 0.00 0.00 0.00 0.00 1.96 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG3011,I_chrX_5808514_5808613 chrX - chrX_5808437_5808613 chrX_5808514_5808613 chrX_5808614_5808683;chrX_5808420_5808436 1.64 1.76 2.21 1.46 0.69 0.92 4.60 1.67 1.34 0.66 0.98 1.26 6.90 1.05 0.62 1.05 1.04 0.84 2.88 2.59 0.00 3.81 2.10 2.40 2.73 4.35 2.20 1.26 2.67 3.12 1.48 3.25 3.82 1.09 3.96 7.53 1.53 0.88 1.87 1.90 2.56 1.19 0.00 0.85 2.87 2.14 1.83 3.41 1.38 2.15 1.64 0.82 1.08 1.97 0.67 1.45 1.00 1.47 K intron_retention sba,I_chr3R_19721149_19722571 chr3R - chr3R_19721149_19722784 chr3R_19721148_19721149;chr3R_19722784_19722785 chr3R_19721049_19721148;chr3R_19722785_19722913 100.00 100.00 95.65 95.83 93.75 94.74 100.00 95.65 100.00 94.74 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 93.33 100.00 96.77 100.00 100.00 100.00 100.00 97.62 100.00 95.65 100.00 100.00 100.00 96.15 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.83 100.00 100.00 96.55 K alternative_acceptor lkb1 chr3R + chr3R_9504789_9504872;chr3R_9504789_9504862 chr3R_9504789_9504847 chr3R_9504472_9504788;chr3R_9504873_9505152 57.14 47.83 62.50 67.74 54.55 58.33 50.00 50.00 65.71 50.00 50.00 59.38 56.25 46.67 52.38 54.17 60.00 50.00 55.56 57.14 88.89 65.00 NA 50.00 50.00 55.00 55.00 60.00 52.63 57.14 62.50 52.94 60.00 46.15 61.54 NA 62.50 60.00 57.89 64.52 47.06 57.69 NA 50.00 48.00 67.57 60.87 57.14 51.43 55.00 55.00 NA NA 64.00 NA 62.50 58.33 66.67 K alternative_acceptor Ucrh,CREFI_chr3LHet_606442_607073 chr3LHet + chr3LHet_606442_607073 chr3LHet_606442_606499 chr3LHet_606350_606441;chr3LHet_607074_607088 98.60 99.02 98.88 98.97 100.00 97.67 97.52 98.38 98.47 100.00 100.00 94.61 100.00 96.46 98.04 98.60 100.00 100.00 100.00 99.38 100.00 86.67 96.15 98.89 93.33 89.13 99.07 98.21 91.67 100.00 99.33 95.38 96.77 97.86 98.73 98.61 100.00 100.00 97.37 100.00 96.72 97.91 97.12 96.77 97.62 98.63 99.14 97.37 97.80 99.17 98.89 98.63 97.78 99.12 98.39 98.47 99.08 98.31 K intron_retention msn,F_chr3L_2558036_2563817,I_chr3L_2558390_2561931,I_chr3L_2558393_2560115,I_chr3L_2579521_2586402,I_chr3L_2585716_2586402,I_chr3L_2585733_2586036,I_chr3L_2585739_2586413 chr3L - chr3L_2563960_2564396 chr3L_2563959_2563960;chr3L_2564396_2564397 chr3L_2563818_2563959;chr3L_2564397_2564692 0.00 0.00 0.00 0.00 0.00 0.00 0.44 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.19 0.00 0.00 0.00 0.00 0.85 0.99 0.94 0.48 0.28 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Cctgamma chr3R + chr3R_12473772_12473856 chr3R_12473771_12473772;chr3R_12473856_12473857 chr3R_12473710_12473771;chr3R_12473857_12474356 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.25 0.00 0.00 0.00 0.00 0.37 0.00 0.00 0.00 0.00 0.19 0.31 0.19 0.00 0.00 0.96 0.98 0.33 0.20 0.31 0.27 0.13 0.00 0.00 0.00 0.00 0.17 0.00 0.00 0.24 0.00 0.00 0.00 0.00 0.20 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.49 0.25 0.00 0.00 0.00 K intron_retention RpL28,RI_chr3L_3221710_3221877,snoRNA:Me28S-C3351 chr3L - chr3L_3221710_3221877 chr3L_3221709_3221710;chr3L_3221877_3221878 chr3L_3221610_3221709;chr3L_3221878_3221977 33.34 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 50.00 63.64 NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 16.67 NA K alternative_acceptor mod(r),I_chrX_515823_515874,RI_chrX_515831_515923,I_chrX_516392_517480 chrX + chrX_515831_515874;chrX_515831_515885 chrX_515831_515923 chrX_515763_515830;chrX_515924_515974 4.76 6.67 0.00 5.26 0.00 7.14 5.56 4.76 10.34 0.00 7.69 0.00 8.33 0.00 0.00 4.55 0.00 0.00 20.00 0.00 7.14 9.09 0.00 0.00 10.00 7.14 0.00 0.00 0.00 11.11 13.64 0.00 0.00 4.76 9.09 20.00 5.88 0.00 6.25 0.00 14.29 4.00 0.00 5.88 27.27 0.00 5.88 12.50 0.00 0.00 10.53 9.09 0.00 0.00 5.88 0.00 6.67 7.14 K intron_retention CG8202 chr3R + chr3R_4560474_4560531 chr3R_4560473_4560474;chr3R_4560531_4560532 chr3R_4560142_4560473;chr3R_4560532_4560840 0.00 0.00 0.00 2.22 0.00 0.00 0.00 2.38 0.00 NA 0.00 0.00 0.00 0.00 0.00 2.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA K intron_retention l(3)82Fd,I_chr3R_1125296_1161435,I_chr3R_1125296_1175189,I_chr3R_1129905_1148709,I_chr3R_1129905_1160126,I_chr3R_1131576_1133656,I_chr3R_1131693_1133665,I_chr3R_1147660_1148709 chr3R - chr3R_1131693_1133665 chr3R_1131692_1131693;chr3R_1133665_1133666 chr3R_1131626_1131692;chr3R_1133666_1133756 20.00 NA NA NA NA NA NA 35.29 36.36 NA NA 7.14 20.00 NA NA 41.67 NA NA 28.57 5.56 NA NA NA NA NA NA NA NA NA NA 16.67 NA NA 15.38 NA NA NA NA NA NA NA 14.29 NA NA NA NA NA NA 27.78 NA NA NA NA NA NA NA NA NA K intron_retention RI_chr2L_22735482_22741701,CG17715,I_chr2L_22737141_22741701,I_chr2L_22742106_22746918 chr2L + chr2L_22737141_22737199 chr2L_22737140_22737141;chr2L_22737199_22737200 chr2L_22737072_22737140;chr2L_22737200_22737268 38.03 42.03 46.15 37.38 41.18 46.15 18.18 42.50 42.14 30.30 33.33 38.03 32.65 32.50 39.76 36.31 32.88 50.68 40.18 44.78 50.98 19.57 46.67 34.18 45.65 46.67 40.00 31.03 80.95 29.31 35.97 32.14 43.33 40.12 34.48 41.46 24.62 37.10 41.51 37.70 40.00 38.97 37.97 25.45 39.13 34.29 25.93 60.61 43.89 33.72 36.79 25.58 48.65 33.33 43.16 28.38 23.81 44.19 K jcn_only_AA CG9904 chrX + chrX_2515346_2515418 chrX_2515346_2515411 chrX_2514858_2515345;chrX_2515419_2516173 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.88 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.44 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor CG9855,RI_chr3R_222522_222581,RI_chr3R_222525_222604,I_chr3R_223384_223429 chr3R - chr3R_222525_222604 chr3R_222525_222581 chr3R_222457_222524;chr3R_222605_222650 100.00 96.15 100.00 97.67 100.00 95.45 100.00 100.00 97.96 100.00 100.00 100.00 94.44 100.00 96.55 96.88 100.00 100.00 100.00 100.00 100.00 98.11 100.00 100.00 90.91 100.00 97.06 100.00 97.83 100.00 100.00 97.50 98.18 97.06 95.45 100.00 96.77 96.30 100.00 98.59 100.00 98.00 100.00 100.00 100.00 100.00 95.24 98.92 97.73 100.00 100.00 95.24 97.06 100.00 100.00 97.06 100.00 98.84 K intron_retention sar1,I_chr3R_18185148_18185246 chr3R + chr3R_18183394_18184093 chr3R_18183393_18183394;chr3R_18184093_18184094 chr3R_18183253_18183393;chr3R_18184094_18184213 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.41 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.35 0.58 0.62 0.00 0.00 0.00 0.00 1.75 0.00 0.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.40 0.00 0.32 0.00 0.00 K cassette cv-c,RI_chr3R_10258928_10265129,RI_chr3R_10301040_10306363,RI_chr3R_10306635_10307255 chr3R - chr3R_10221749_10233875 chr3R_10221749_10225440;chr3R_10225513_10233875 chr3R_10225441_10225512 chr3R_10221597_10221748;chr3R_10233876_10233917 100.00 100.00 100.00 100.00 100.00 100.00 97.14 100.00 98.59 100.00 100.00 98.25 100.00 100.00 100.00 100.00 100.00 96.77 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.22 100.00 100.00 100.00 91.67 100.00 100.00 100.00 95.24 100.00 100.00 96.30 98.36 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor CaMKI,I_chr4_466377_467256,I_chr4_466377_467726,I_chr4_467072_467446,I_chr4_467378_467424,I_chr4_471136_473243,I_chr4_473338_473428,I_chr4_473517_473601 chr4 + chr4_466912_467256;chr4_467113_467256;chr4_466858_467256;chr4_466798_467256;chr4_466896_467256 chr4_466816_467256 chr4_467257_467272;chr4_466792_466797 0.00 0.00 0.00 10.00 NA 0.00 7.69 0.00 7.14 NA NA 0.00 0.00 0.00 0.00 0.00 33.33 0.00 0.00 0.00 NA NA 0.00 NA 0.00 NA NA NA NA NA 0.00 NA NA 0.00 NA NA NA NA NA NA NA 0.00 0.00 NA NA NA NA NA 0.00 NA NA 0.00 NA NA 0.00 NA NA NA K intron_retention rad50,ppk12 chr2R + chr2R_18311940_18311996 chr2R_18311939_18311940;chr2R_18311996_18311997 chr2R_18311837_18311939;chr2R_18311997_18312977 0.00 0.00 0.00 0.00 NA NA 1.69 0.00 3.64 NA 0.00 0.00 0.00 0.00 0.00 3.45 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 NA 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 NA NA NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 N intron_retention CG17184 chr3R - chr3R_7059293_7059355 chr3R_7059292_7059293;chr3R_7059355_7059356 chr3R_7059124_7059292;chr3R_7059356_7059373 39.13 NA NA NA NA NA NA 39.13 34.38 NA NA NA NA NA 28.57 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA 41.18 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_acceptor CG17665 chr2R - chr2R_123842_123917 chr2R_123868_123917 chr2R_123918_124062;chr2R_123742_123841 92.86 89.47 92.31 91.89 100.00 91.67 90.00 91.43 95.00 NA 92.86 96.15 94.44 100.00 95.45 96.43 95.24 80.95 88.46 96.30 100.00 90.91 95.24 85.71 93.33 100.00 88.89 92.86 90.00 100.00 95.65 88.89 NA 97.14 100.00 88.24 95.24 90.91 91.67 95.83 100.00 85.71 94.12 95.00 90.00 92.31 89.47 100.00 90.32 84.21 81.48 100.00 90.91 87.50 90.91 95.00 87.10 100.00 K jcn_only_AA CG7971,I_chr3L_1659363_1659845,I_chr3L_1667736_1667806 chr3L - chr3L_1659991_1661108 chr3L_1660858_1661108 chr3L_1661109_1661165;chr3L_1659846_1659990 1.81 1.41 1.54 0.91 2.50 3.77 3.45 4.35 0.78 0.00 0.00 3.06 2.04 4.65 1.47 3.80 2.94 4.35 3.39 1.05 0.00 0.00 0.85 1.80 2.04 4.65 3.39 5.56 1.82 0.00 0.00 2.33 0.39 1.08 0.00 2.67 3.06 0.00 0.00 2.13 7.25 0.68 NA 0.96 1.90 2.54 1.23 0.86 0.00 10.87 0.00 1.92 0.00 2.04 1.18 1.82 5.26 1.21 N intron_retention CG2765,RI_chr2R_20849027_20852094,E_chr2R_20849271_20852090,E_chr2R_20851190_20852094 chr2R - chr2R_20851822_20852094 chr2R_20851821_20851822;chr2R_20852094_20852095 chr2R_20851782_20851821;chr2R_20852095_20852190 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 86.89 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 57.78 100.00 83.52 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 92.59 100.00 100.00 100.00 100.00 100.00 100.00 100.00 91.35 100.00 100.00 NA 100.00 100.00 100.00 82.35 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor sbb,I_chr2R_14193641_14243004,noncoding_7736,RI_chr2R_14243561_14244282,I_chr2R_14243561_14244715 chr2R - chr2R_14243561_14244642;chr2R_14243561_14244596 chr2R_14243561_14244715 chr2R_14243461_14243560;chr2R_14244716_14244766 12.50 NA 12.50 14.29 NA NA 9.09 5.56 24.14 NA NA 17.65 7.69 10.00 NA 9.09 33.33 14.29 10.00 20.00 NA 11.11 28.57 NA NA 16.67 NA NA NA NA 0.00 NA NA 11.76 NA NA NA NA NA NA NA 25.00 12.50 NA NA NA NA NA 23.53 NA NA 14.29 NA NA 0.00 NA 0.00 NA K alternative_acceptor CG13090 chr2L + chr2L_8517581_8517662 chr2L_8517581_8517659 chr2L_8517446_8517580;chr2L_8517663_8519162 91.67 NA 100.00 92.86 90.91 87.50 100.00 94.12 96.00 NA 84.62 94.74 88.89 100.00 85.71 90.91 88.89 90.91 92.86 92.00 NA NA NA 85.71 NA 93.33 NA 87.50 100.00 NA 100.00 85.71 100.00 89.47 NA NA 71.43 NA NA 91.30 NA 100.00 NA 85.71 NA 85.71 NA 100.00 93.75 66.67 NA NA NA NA 92.86 NA NA 91.67 K jcn_only_AD debcl,I_chr2R_2539027_2539493 chr2R + chr2R_2539636_2539692 chr2R_2539638_2539692 chr2R_2539693_2540353;chr2R_2539494_2539635 96.14 92.86 97.89 95.79 98.53 97.24 95.45 97.22 96.41 94.00 95.45 98.90 98.33 97.10 95.73 98.73 98.51 98.02 94.25 98.01 95.88 94.57 96.59 96.93 97.92 100.00 96.43 94.59 94.84 94.62 93.90 95.39 96.91 95.12 96.43 94.31 97.46 98.00 95.72 94.39 97.88 98.61 91.25 98.11 96.14 96.67 99.36 97.44 93.56 94.24 95.95 98.75 92.75 93.84 93.86 95.97 94.71 94.98 K jcn_only_AD Npc1a chr2L - chr2L_10218890_10220868;chr2L_10218890_10220796;chr2L_10218890_10220834 chr2L_10218890_10220692 chr2L_10218779_10218889;chr2L_10220869_10220873 73.12 76.36 71.21 71.70 79.63 78.95 76.26 74.40 73.94 69.23 73.33 63.44 70.27 82.61 62.71 78.18 80.70 78.00 70.67 52.56 77.78 64.71 60.00 63.27 72.00 72.92 78.26 NA 62.16 70.00 74.19 NA 66.04 77.94 75.00 56.41 48.78 74.07 71.43 80.00 84.00 70.34 73.47 68.92 NA 87.10 54.55 61.43 70.23 NA 75.00 74.42 NA NA 78.95 59.09 NA 82.05 K intron_retention CG3294,RI_chr2L_4795584_4795842 chr2L + chr2L_4795572_4795842 chr2L_4795571_4795572;chr2L_4795842_4795843 chr2L_4795484_4795571;chr2L_4795843_4795942 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA 0.00 K alternative_donor Lam chr2L + chr2L_5542656_5543324;chr2L_5542864_5543324;chr2L_5542661_5543324 chr2L_5543273_5543324 chr2L_5543325_5543794;chr2L_5542527_5542655 1.92 2.86 0.00 2.08 0.00 3.85 4.00 4.17 3.33 1.92 3.03 1.61 3.57 3.70 2.17 5.71 5.00 0.00 2.78 2.94 0.00 0.93 1.35 1.47 2.27 2.94 2.94 1.67 1.82 2.33 2.86 2.94 1.39 1.69 0.00 0.00 0.00 0.00 2.22 2.34 2.70 1.18 3.03 1.72 0.00 1.67 0.00 1.65 2.35 0.00 1.85 0.00 2.50 0.00 2.70 1.82 0.00 2.90 K multi_cassette ssp4,I_chr2R_13409412_13410357,RI_chr2R_13409412_13411004,I_chr2R_13409412_13411328,I_chr2R_13409412_13411588,I_chr2R_13414489_13414718,I_chr2R_13414818_13414880,I_chr2R_13418952_13419022 chr2R - chr2R_13408434_13411588 chr2R_13408434_13410357;chr2R_13410466_13411004;chr2R_13411077_13411328;chr2R_13411404_13411588 chr2R_13410358_13410465;chr2R_13411005_13411076;chr2R_13411329_13411403 chr2R_13408151_13408433;chr2R_13411589_13411688 12.50 11.11 NA 17.65 7.69 10.00 1.72 27.27 12.00 7.14 6.67 20.00 6.67 11.11 14.29 20.00 25.00 14.29 18.18 40.00 8.33 7.14 15.38 14.29 NA 5.56 18.18 NA 4.76 10.00 16.67 NA 14.29 7.69 25.00 NA 14.29 18.18 6.25 3.45 7.69 13.04 7.69 7.69 22.22 20.00 NA NA 10.00 11.11 15.38 33.33 NA 12.50 7.14 10.00 14.29 28.57 K jcn_only_AD CG32103,I_chr3L_12398261_12403200 chr3L - chr3L_12407187_12407805 chr3L_12407187_12407801 chr3L_12407030_12407186;chr3L_12407806_12407901 35.96 28.57 NA 35.56 NA 20.83 55.00 45.71 25.42 NA 34.78 33.33 NA 30.77 41.38 40.91 39.13 12.50 39.13 40.48 23.81 29.17 40.91 39.29 NA 38.10 31.03 NA NA 28.57 26.32 NA NA 45.00 26.67 23.81 34.78 NA 40.00 28.57 NA 46.43 NA 40.00 NA 43.48 54.55 36.36 35.19 NA 43.24 47.62 25.00 NA 40.74 NA NA 34.62 K jcn_only_AA dwg,RI_chrX_2622297_2622355,RI_chrX_2622297_2622430,RI_chrX_2622435_2622577,RI_chrX_2627170_2627263 chrX + chrX_2622297_2622577;chrX_2622297_2622430 chrX_2622297_2622355 chrX_2622197_2622296;chrX_2622578_2622677 10.00 12.96 4.26 15.22 0.00 4.88 22.22 7.02 13.04 10.81 2.38 8.43 16.67 5.00 6.38 7.27 10.00 16.67 4.44 8.25 18.75 34.21 4.76 21.15 4.55 11.11 11.29 8.16 10.53 21.15 28.57 7.50 17.74 9.43 3.03 5.13 14.71 20.00 8.43 11.25 6.67 11.39 10.00 15.79 10.34 5.13 10.87 1.45 11.54 13.73 16.67 NA 6.00 5.66 9.76 13.21 8.70 3.95 K intron_retention CG33057,mkg-p,Oseg1 chr3L - chr3L_8397151_8397202 chr3L_8397150_8397151;chr3L_8397202_8397203 chr3L_8395407_8397150;chr3L_8397203_8397610 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 2.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.44 6.25 0.00 0.00 0.00 0.00 0.00 13.95 23.68 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.85 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 K intron_retention CG12859 chr2R + chr2R_10644219_10644298 chr2R_10644218_10644219;chr2R_10644298_10644299 chr2R_10644036_10644218;chr2R_10644299_10644636 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 1.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.77 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.70 0.00 0.00 K intron_retention msk,I_chr3L_8109906_8110404 chr3L + chr3L_8110641_8110695 chr3L_8110640_8110641;chr3L_8110695_8110696 chr3L_8110405_8110640;chr3L_8110696_8111193 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.35 0.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG7523 chr3R - chr3R_13495349_13495787 chr3R_13495348_13495349;chr3R_13495787_13495788 chr3R_13494947_13495348;chr3R_13495788_13496064 1.34 1.08 0.00 2.80 2.59 2.25 3.33 2.90 1.91 2.33 4.82 2.93 2.33 2.47 0.00 2.88 0.00 0.95 4.35 1.28 2.35 0.00 0.88 1.68 1.98 0.00 1.56 3.55 0.00 1.34 2.47 1.82 2.41 1.40 0.98 0.00 0.74 1.05 0.00 2.07 0.00 1.16 0.00 1.08 0.48 0.47 1.35 0.98 2.11 1.10 2.66 0.00 1.93 0.00 1.79 0.55 1.04 1.09 K alternative_donor Lmpt,RI_chr3L_16884531_16889334,I_chr3L_16904980_16905228 chr3L + chr3L_16858505_16859765;chr3L_16858538_16859765 chr3L_16858527_16859765 chr3L_16859766_16860046;chr3L_16858440_16858504 54.55 NA NA NA NA NA NA NA 50.00 NA NA 40.00 NA NA NA NA NA NA NA 71.43 NA 40.00 54.55 50.00 NA NA NA NA NA NA 57.14 NA NA 50.00 NA NA NA NA NA NA NA NA NA 44.44 NA 55.56 NA 54.55 57.14 NA 75.00 45.45 NA NA NA 83.33 NA NA K jcn_only_AD Ptp4E,EI_chrX_4842231_4842425 chrX + chrX_4833364_4834454;chrX_4833234_4834454;chrX_4833308_4834454;chrX_4833338_4834454 chrX_4833203_4834454 chrX_4834455_4834880;chrX_4833197_4833202 2.91 NA 9.09 2.70 0.00 NA 0.00 0.00 4.55 4.17 NA 8.33 0.00 0.00 NA 3.12 3.12 NA 2.50 5.88 NA 27.27 NA NA NA NA NA NA NA 6.45 0.00 NA 5.08 2.27 NA NA NA NA NA NA NA 0.00 0.00 NA NA NA NA 0.00 4.44 NA NA NA NA NA 4.76 NA NA NA N alternative_last_exon sta chrX - chrX_1376514_1377290 chrX_1376949_1377290 chrX_1368708_1376513 chrX_1376706_1376948 chrX_1377291_1377379 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.98 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.99 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AD unc-13,I_chr4_913576_919018,I_chr4_924098_927699,RI_chr4_928193_928245,I_chr4_928482_929704,I_chr4_929811_932812 chr4 - chr4_924098_924986 chr4_924098_924258 chr4_923998_924097;chr4_924987_925545 26.92 NA NA NA NA NA NA 34.62 NA NA NA 26.92 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 18.18 NA NA NA NA NA NA NA 40.00 NA NA NA NA NA NA 13.64 NA NA NA NA NA NA NA NA NA K alternative_donor Ect4,C_chr3L_8091754_8101552,I_chr3L_8091826_8092243,I_chr3L_8098397_8101385,I_chr3L_8098758_8101738,I_chr3L_8100030_8101385 chr3L + chr3L_8100030_8101385 chr3L_8100050_8101385 chr3L_8101386_8101485;chr3L_8099930_8100029 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.88 100.00 100.00 100.00 97.92 100.00 100.00 100.00 100.00 98.63 100.00 97.22 100.00 100.00 97.30 100.00 100.00 100.00 100.00 100.00 100.00 98.33 100.00 100.00 100.00 100.00 100.00 100.00 96.30 100.00 100.00 97.50 93.94 98.51 K cassette CG8671,I_chr2L_21275807_21277205 chr2L + chr2L_21275807_21281131;chr2L_21275807_21279883 chr2L_21275807_21277229;chr2L_21278430_21281131,chr2L_21278430_21279883 chr2L_21277230_21278429 chr2L_21275724_21275806;chr2L_21281132_21281337 11.11 9.62 6.25 7.50 13.64 8.00 12.20 11.76 11.59 21.05 3.57 11.54 6.90 9.38 9.09 6.56 14.29 9.68 10.81 7.69 3.85 11.63 18.00 16.67 16.13 6.98 12.77 10.34 11.54 9.52 13.33 11.11 11.11 12.73 12.50 33.33 23.33 22.73 20.59 5.60 7.69 8.33 15.38 10.00 11.11 15.38 10.81 10.87 12.07 9.26 13.21 13.79 14.29 18.52 8.33 10.81 14.29 9.26 K intron_retention I_chr2L_476332_525391,ush chr2L + chr2L_491359_525391 chr2L_491358_491359;chr2L_525391_525392 chr2L_490856_491358;chr2L_525392_525436 24.24 20.83 28.26 28.79 20.00 30.23 32.73 27.27 26.21 14.71 25.71 26.03 31.91 21.74 33.33 27.54 31.82 27.66 28.30 26.32 16.28 16.33 21.95 20.00 23.40 18.87 29.17 24.24 25.00 20.69 23.40 21.62 13.54 30.59 26.42 26.76 28.12 19.57 20.00 20.00 19.05 25.45 29.79 17.33 17.14 24.59 12.24 23.68 23.53 27.78 22.06 28.89 9.76 14.29 25.40 19.23 18.18 24.59 K jcn_only_AD Sap47 chr3R + chr3R_11779957_11780304 chr3R_11779978_11780304 chr3R_11780305_11780405;chr3R_11779880_11779956 77.11 82.05 70.00 63.27 82.93 92.31 65.38 77.11 74.39 NA 66.67 82.67 70.83 84.21 74.32 75.81 77.78 73.47 82.61 80.90 78.95 86.87 61.76 62.16 56.25 82.98 78.38 58.33 91.18 83.78 84.00 91.38 81.25 78.75 73.17 82.05 67.44 60.71 70.45 74.47 88.89 86.79 72.73 73.33 84.13 82.43 70.37 83.21 85.42 52.00 67.35 NA 79.41 61.90 74.55 66.67 67.74 90.70 K alternative_donor CG6569,RI_chr3R_17693077_17693126,I_chr3R_17694702_17694760 chr3R - chr3R_17692987_17693126 chr3R_17692987_17693059 chr3R_17692977_17692986;chr3R_17693127_17693226 0.00 0.00 NA NA NA NA 0.00 0.00 0.00 NA NA NA NA NA NA 0.00 NA 0.00 NA 7.41 NA 3.85 NA NA NA NA NA 0.00 NA NA 2.00 NA NA NA NA NA 0.00 NA 0.00 NA NA 0.00 NA NA NA NA NA NA 0.00 NA 0.00 NA NA NA NA NA NA NA K intron_retention CG5871,NELF-A chr3R + chr3R_17047473_17047531 chr3R_17047472_17047473;chr3R_17047531_17047532 chr3R_17047048_17047472;chr3R_17047532_17048572 0.00 0.00 0.00 10.00 0.00 0.00 7.41 6.06 6.12 NA 0.00 3.92 0.00 0.00 3.45 24.32 0.00 0.00 NA 2.56 0.00 14.29 7.89 0.00 0.00 0.00 3.85 0.00 10.53 0.00 13.33 3.70 0.00 0.00 0.00 0.00 0.00 6.67 0.00 3.77 0.00 5.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 11.11 4.76 0.00 0.00 0.00 0.00 4.76 2.94 0.00 K intron_retention Adar,I_chrX_1668256_1682696,I_chrX_1674594_1674717 chrX + chrX_1672057_1672644 chrX_1672056_1672057;chrX_1672644_1672645 chrX_1671942_1672056;chrX_1672645_1672732 97.62 NA 100.00 90.00 NA 100.00 100.00 95.24 100.00 NA 73.33 100.00 NA NA 100.00 94.44 91.67 NA 100.00 94.12 83.33 NA 93.33 NA NA NA 100.00 NA NA NA 87.50 NA NA 100.00 NA NA NA NA NA 100.00 NA 93.75 NA NA NA NA NA 85.71 93.75 NA 100.00 NA NA NA 100.00 NA NA NA K intron_retention CG8334,I_chr3L_19870731_19870822 chr3L + chr3L_19873826_19873888 chr3L_19873825_19873826;chr3L_19873888_19873889 chr3L_19873358_19873825;chr3L_19873889_19874167 0.00 0.00 0.00 3.16 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.79 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.28 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.72 0.00 0.00 0.00 K intron_retention Ef1gamma,E_chr3R_25046218_25047549 chr3R + chr3R_25046302_25046364 chr3R_25046301_25046302;chr3R_25046364_25046365 chr3R_25046152_25046301;chr3R_25046365_25046787 0.38 0.11 0.24 0.41 0.31 0.27 0.34 0.25 0.32 0.46 0.14 0.24 0.00 0.16 0.32 0.38 0.00 0.23 0.31 0.43 0.39 5.50 0.43 0.39 0.86 0.41 0.59 1.19 2.51 0.82 0.78 0.71 0.74 0.18 0.62 1.80 0.47 0.19 0.37 0.62 1.68 0.15 0.24 0.46 0.73 0.40 0.32 1.16 0.33 0.52 0.57 0.38 0.25 0.31 0.18 0.32 0.15 0.69 K cassette CG9940 chrX - chrX_13595387_13612161 chrX_13595387_13601628;chrX_13601748_13612161 chrX_13601629_13601747 chrX_13595130_13595386;chrX_13612162_13612298 97.83 100.00 97.22 93.48 100.00 97.30 96.67 100.00 100.00 92.31 86.21 98.18 95.65 96.67 96.88 90.48 95.24 96.55 97.50 100.00 100.00 96.55 98.04 97.30 100.00 100.00 100.00 95.24 96.67 100.00 97.44 96.43 100.00 100.00 100.00 98.00 100.00 100.00 97.78 98.89 97.56 95.00 100.00 97.83 95.45 97.87 96.15 95.00 98.36 100.00 97.83 95.65 100.00 100.00 97.73 100.00 100.00 98.57 K intron_retention CG12024,REI_chr3L_1857404_1857509 chr3L + chr3L_1857404_1857464 chr3L_1857403_1857404;chr3L_1857464_1857465 chr3L_1857304_1857403;chr3L_1857465_1859050 15.79 NA NA NA NA NA NA NA 20.00 NA NA 7.69 NA NA NA NA NA NA NA 19.05 NA 14.29 14.29 12.50 NA NA 20.00 25.00 23.08 15.79 NA 0.00 8.00 NA NA 20.00 4.35 13.33 22.22 17.86 NA 17.65 NA 10.53 0.00 16.67 NA 6.25 36.36 23.53 17.65 14.29 NA NA NA NA NA 11.11 K intron_retention N chrX + chrX_3050498_3053135 chrX_3050497_3050498;chrX_3053135_3053136 chrX_3050293_3050497;chrX_3053136_3053266 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.46 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.96 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor CG6509 chr2L - chr2L_11516658_11516728 chr2L_11516658_11516722 chr2L_11516509_11516657;chr2L_11516729_11516801 100.00 NA 100.00 100.00 100.00 100.00 93.33 92.86 100.00 100.00 NA 92.31 90.91 100.00 100.00 100.00 91.67 100.00 100.00 94.12 100.00 100.00 94.44 93.33 100.00 100.00 100.00 100.00 100.00 92.31 85.71 NA 88.89 94.74 100.00 92.31 91.67 100.00 93.75 94.44 NA 90.48 100.00 100.00 NA 75.00 NA 100.00 100.00 NA 95.45 100.00 NA NA 100.00 100.00 NA NA K jcn_only_AD CG11984,I_chr3R_4837327_4837766,I_chr3R_4845450_4845598 chr3R - chr3R_4839215_4840394;chr3R_4839215_4840589 chr3R_4839215_4840474 chr3R_4839038_4839214;chr3R_4840590_4840610 88.93 93.94 70.00 75.56 80.95 90.48 85.71 79.59 82.05 NA 77.14 80.56 69.23 72.73 81.48 93.62 65.22 81.48 89.29 83.64 87.50 93.06 91.67 NA NA 69.70 90.24 90.32 100.00 97.37 91.18 85.00 97.96 70.00 96.00 96.88 93.48 85.00 NA 93.41 96.43 68.12 71.43 100.00 66.67 94.29 93.75 89.47 73.68 85.29 93.75 96.88 96.30 NA 88.57 93.10 85.29 98.36 K alternative_acceptor CG8677 chr2L + chr2L_21226423_21226632 chr2L_21226423_21226629 chr2L_21224696_21226422;chr2L_21226633_21228340 100.00 91.67 100.00 100.00 100.00 97.06 100.00 100.00 97.78 100.00 100.00 97.44 100.00 100.00 100.00 96.43 94.44 95.83 96.43 100.00 90.91 96.00 97.44 100.00 100.00 95.65 100.00 100.00 100.00 100.00 95.24 95.24 96.88 94.29 96.67 95.24 100.00 100.00 95.12 100.00 100.00 98.15 94.74 100.00 100.00 100.00 100.00 96.23 100.00 96.15 100.00 94.12 100.00 100.00 100.00 100.00 90.00 100.00 K jcn_only_AD Rab23,I_chr3R_1508710_1508882 chr3R - chr3R_1508710_1508882;chr3R_1508710_1511119 chr3R_1508710_1510597 chr3R_1508610_1508709;chr3R_1511120_1511186 16.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 16.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_donor Pp2A-29B,I_chr2L_8367210_8367311,I_chr2L_8369561_8369715 chr2L + chr2L_8366124_8367095 chr2L_8366395_8367095 chr2L_8367096_8367209;chr2L_8366118_8366123 100.00 100.00 100.00 98.15 99.15 100.00 100.00 99.33 99.74 100.00 100.00 99.65 100.00 100.00 99.47 99.71 100.00 99.29 100.00 99.73 100.00 100.00 99.47 100.00 99.08 100.00 99.33 100.00 100.00 100.00 99.11 98.82 100.00 100.00 100.00 100.00 99.24 100.00 98.52 99.50 100.00 99.67 99.31 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 N alternative_donor CG15173,RI_chr2L_19044304_19044369 chr2L - chr2L_19044084_19044153 chr2L_19044084_19044144 chr2L_19043946_19044083;chr2L_19044154_19044303 22.53 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 14.29 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 30.77 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CG18749,noncoding_15296,CG33722 chr3R + chr3R_4069864_4069923 chr3R_4069864_4069918 chr3R_4069831_4069863;chr3R_4069924_4070163 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.61 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.31 100.00 100.00 100.00 100.00 100.00 97.30 97.92 NA NA 98.08 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 98.28 NA 100.00 100.00 100.00 100.00 100.00 100.00 98.08 100.00 100.00 NA K intron_retention CG3847 chrX + chrX_6241503_6241558 chrX_6241502_6241503;chrX_6241558_6241559 chrX_6241500_6241502;chrX_6241559_6241564 98.21 98.08 97.87 98.81 97.50 97.56 98.68 98.91 98.20 97.22 97.50 97.67 97.62 98.25 98.08 98.81 97.78 95.24 100.00 100.00 94.74 92.31 100.00 97.78 100.00 98.21 98.48 100.00 98.00 97.67 100.00 97.83 100.00 98.82 100.00 97.96 100.00 100.00 96.30 98.46 97.96 99.06 98.11 100.00 94.12 98.88 98.04 100.00 99.01 96.36 97.96 100.00 100.00 100.00 98.41 97.44 98.48 97.92 K intron_retention Fis1,I_chr2R_1491917_1491981,I_chr2R_1491917_1492087,I_chr2R_1492154_1492214 chr2R - chr2R_1491917_1492021 chr2R_1491916_1491917;chr2R_1492021_1492022 chr2R_1491817_1491916;chr2R_1492022_1492032 37.86 NA NA 27.78 NA NA 30.77 43.75 47.06 NA NA 40.00 NA NA NA 50.00 NA NA 30.77 17.65 NA NA NA NA NA 40.00 35.71 NA NA NA 55.56 NA NA 60.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 33.33 NA NA NA NA NA NA NA 25.00 NA K alternative_acceptor PGRP-LA chr3L + chr3L_9330034_9330097 chr3L_9330034_9330085 chr3L_9329812_9330033;chr3L_9330098_9330321 36.36 33.33 NA 25.00 NA NA NA 36.36 42.86 NA NA NA NA NA NA 41.67 NA NA NA 66.67 NA 40.00 NA 35.71 NA NA NA 41.67 NA NA NA NA NA 45.45 NA NA 26.67 NA 30.77 28.57 NA 31.25 NA NA NA NA 35.71 NA 40.00 NA NA NA 38.46 NA NA 36.36 41.18 NA K alternative_acceptor cals,I_chr4_1136706_1138476,I_chr4_1136881_1136951,I_chr4_1139644_1142084,RI_chr4_1141233_1142084 chr4 - chr4_1136706_1136951 chr4_1136881_1136951 chr4_1136952_1137051;chr4_1136606_1136705 0.00 0.00 0.00 0.00 0.00 0.00 1.25 1.06 0.00 0.00 0.00 0.00 2.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 2.86 NA NA 0.00 0.00 0.00 NA 1.18 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA K alternative_donor miple2,I_chr3L_274251_274594 chr3L + chr3L_274808_274866 chr3L_274814_274866 chr3L_274867_274969;chr3L_274595_274807 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 2.86 0.00 NA 0.00 NA 0.00 0.00 0.00 NA NA 0.00 0.00 NA 2.56 2.63 0.00 0.00 0.00 0.00 5.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.30 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.00 0.00 0.00 0.00 0.00 0.00 1.92 0.00 0.00 K intron_retention Sin3A,I_chr2R_8473578_8480185,I_chr2R_8479951_8480185,RI_chr2R_8479951_8480233 chr2R - chr2R_8479951_8480233 chr2R_8479950_8479951;chr2R_8480233_8480234 chr2R_8479851_8479950;chr2R_8480234_8480285 92.59 90.91 100.00 89.47 NA 100.00 94.74 92.59 87.50 NA NA 85.19 92.31 93.33 85.71 93.10 NA 92.86 100.00 95.45 91.67 77.78 93.33 90.91 100.00 94.74 90.00 100.00 88.89 90.00 94.74 NA 100.00 88.24 100.00 NA 88.89 100.00 100.00 95.24 NA 88.46 82.35 88.89 NA NA NA 94.74 91.18 90.00 90.00 100.00 NA NA 93.75 NA NA 91.67 K alternative_donor CG11486,RE_chr3L_3084894_3085203 chr3L + chr3L_3088129_3088191;chr3L_3088139_3088191;chr3L_3088124_3088191 chr3L_3088120_3088191 chr3L_3088192_3088663;chr3L_3087957_3088119 98.97 98.75 97.89 97.73 97.50 100.00 100.00 99.45 98.42 96.97 98.13 99.53 100.00 97.12 96.38 98.55 98.97 99.24 100.00 98.18 100.00 100.00 98.60 99.41 99.08 99.21 98.71 100.00 100.00 100.00 96.85 98.02 100.00 96.81 100.00 98.51 98.14 98.50 98.44 100.00 100.00 97.86 97.85 99.45 99.46 98.34 99.56 100.00 99.13 98.59 98.65 100.00 98.60 100.00 100.00 100.00 97.57 98.19 K alternative_donor RpS23,I_chr2R_10103243_10103455,I_chr2R_10103616_10103938 chr2R - chr2R_10103616_10104034 chr2R_10103616_10103938 chr2R_10103516_10103615;chr2R_10104035_10104038 0.12 0.07 0.05 0.03 0.03 0.02 0.04 0.04 0.04 0.11 0.04 0.05 0.04 0.12 0.05 0.06 0.02 0.02 0.03 0.05 0.06 0.40 0.44 0.15 0.15 0.04 0.24 0.20 0.52 0.79 0.86 0.48 0.22 0.05 1.20 2.06 0.06 0.18 0.13 0.20 0.78 0.05 0.02 0.27 0.24 0.65 0.12 0.69 0.12 0.26 0.46 0.05 0.37 1.90 0.07 0.36 0.08 0.55 K intron_retention Dg chr2R - chr2R_11973126_11974435 chr2R_11973125_11973126;chr2R_11974435_11974436 chr2R_11973069_11973125;chr2R_11974436_11974487 14.59 16.67 22.22 4.44 NA NA 26.67 9.09 17.39 11.11 NA 36.84 NA 23.53 9.52 11.54 NA 5.56 25.00 5.49 NA 26.09 21.43 16.67 15.38 27.78 11.54 NA 6.25 8.33 NA NA 6.52 28.00 12.50 7.94 25.00 30.00 8.33 6.98 0.00 27.59 NA 13.79 0.00 6.67 NA 16.22 21.43 NA 26.67 NA 0.00 NA 16.67 NA NA NA K intron_retention CG8184,I_chrX_15620707_15620769 chrX + chrX_15617158_15617265 chrX_15617157_15617158;chrX_15617265_15617266 chrX_15615597_15617157;chrX_15617266_15618411 71.11 76.47 75.56 90.54 70.00 68.63 80.00 71.79 69.64 62.03 73.53 71.43 79.41 65.22 66.07 68.52 68.57 71.79 69.57 64.71 63.64 85.63 71.70 74.67 85.19 91.49 69.12 44.19 68.04 71.96 79.25 79.25 65.57 70.21 71.60 87.95 67.24 76.67 73.74 58.39 89.58 70.34 68.42 59.00 52.38 70.13 65.00 71.11 72.41 71.88 69.86 67.35 63.83 80.00 71.43 72.73 66.67 73.74 K jcn_only_AA SD23414,CG9125,I_chrX_16696492_16696589 chrX - chrX_16696492_16696589 chrX_16696503_16696589 chrX_16696590_16696689;chrX_16696392_16696491 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.19 100.00 97.78 100.00 100.00 100.00 100.00 98.82 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.77 98.72 100.00 100.00 99.12 100.00 100.00 100.00 98.80 98.39 98.96 99.40 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.06 100.00 100.00 100.00 100.00 100.00 100.00 98.82 98.99 99.50 K jcn_only_AA CG3499,I_chr2R_18772777_18772819 chr2R - chr2R_18772317_18772430 chr2R_18772326_18772430 chr2R_18772431_18772523;chr2R_18772243_18772316 42.25 41.51 34.21 61.02 50.98 32.14 36.29 40.54 47.86 59.38 47.83 39.33 45.95 37.50 37.88 46.74 45.16 41.03 43.04 38.55 41.67 46.67 45.98 32.35 70.59 53.70 30.85 31.58 45.71 36.96 44.78 48.57 54.00 39.39 40.91 42.11 42.25 39.62 50.98 44.74 58.33 41.96 47.27 29.69 38.64 42.25 35.14 40.00 41.38 46.88 43.28 41.67 43.33 29.03 51.43 46.67 48.44 46.94 K alternative_acceptor CG6664 chr3L - chr3L_17008359_17008842 chr3L_17008367_17008842 chr3L_17008843_17008976;chr3L_17008241_17008358 93.75 100.00 95.83 94.12 91.67 91.30 93.33 96.97 92.86 92.31 95.24 89.74 95.00 84.21 96.15 87.50 93.75 94.44 95.00 90.91 95.00 95.83 90.62 100.00 94.44 95.45 96.97 80.00 96.00 87.50 90.00 95.24 92.00 93.75 95.00 100.00 92.59 88.00 84.62 93.02 97.22 89.47 100.00 87.10 90.91 90.32 94.44 97.67 97.14 95.00 92.31 85.19 91.30 94.74 93.10 84.00 95.45 91.43 K alternative_donor CG5316 chr3R + chr3R_15229212_15229614 chr3R_15229545_15229614 chr3R_15229615_15229840;chr3R_15229203_15229211 100.00 100.00 100.00 100.00 90.91 93.75 97.22 100.00 100.00 83.33 93.75 100.00 94.44 100.00 100.00 97.06 95.00 100.00 100.00 97.14 100.00 100.00 100.00 100.00 100.00 94.44 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.97 100.00 100.00 88.24 92.31 95.24 100.00 100.00 100.00 100.00 100.00 100.00 93.33 93.75 100.00 97.30 100.00 100.00 93.75 100.00 100.00 95.24 90.00 100.00 100.00 K jcn_only_AA phtf,I_chr2R_2629598_2630209 chr2R + chr2R_2631050_2631157 chr2R_2631050_2631097 chr2R_2630542_2631049;chr2R_2631158_2632041 100.00 100.00 NA 96.77 100.00 NA 100.00 97.50 97.92 96.43 NA 100.00 100.00 100.00 96.43 96.15 NA 100.00 100.00 100.00 100.00 100.00 97.44 100.00 100.00 NA 96.77 90.00 NA 100.00 100.00 NA 100.00 97.44 NA 100.00 98.44 96.97 100.00 100.00 NA 100.00 NA 96.88 100.00 95.00 NA 95.35 100.00 92.00 100.00 91.30 95.00 NA 96.77 100.00 100.00 100.00 K intron_retention CG12734,I_chr3L_3183812_3183932,I_chr3L_3184645_3185360 chr3L + chr3L_3183800_3183932 chr3L_3183799_3183800;chr3L_3183932_3183933 chr3L_3183712_3183799;chr3L_3183933_3183997 2.20 0.00 0.00 7.14 6.67 0.00 2.78 10.71 5.63 0.00 0.00 4.44 0.00 0.00 6.45 7.41 0.00 0.00 9.09 5.45 7.69 0.00 0.00 3.28 0.00 8.33 6.12 8.16 2.94 5.56 0.00 3.45 2.86 5.41 0.00 0.00 4.44 0.00 2.20 8.16 0.00 1.72 0.00 4.76 0.00 2.70 2.13 0.00 8.93 3.92 0.00 0.00 0.00 0.00 3.23 2.00 4.65 0.00 K cassette spin,I_chr2R_12013288_12013847 chr2R + chr2R_12024072_12024709 chr2R_12024072_12024338;chr2R_12024535_12024709 chr2R_12024339_12024534 chr2R_12023930_12024071;chr2R_12024710_12025743 1.91 2.29 1.64 3.95 1.48 2.96 2.22 1.54 2.47 1.82 2.08 4.96 0.00 3.39 0.61 0.64 2.56 1.67 1.24 1.97 2.65 1.39 1.47 2.03 1.40 1.61 3.70 8.66 2.63 2.50 1.79 1.85 2.24 2.18 1.83 2.22 2.89 2.26 1.45 0.68 2.04 2.52 2.63 1.41 1.73 1.91 1.64 0.00 1.95 2.72 1.79 1.68 0.78 2.05 1.80 2.48 1.46 0.75 K intron_retention CG13745,I_chr2R_4825500_4825553,I_chr2R_4825500_4825702 chr2R - chr2R_4825500_4825557 chr2R_4825499_4825500;chr2R_4825557_4825558 chr2R_4825400_4825499;chr2R_4825558_4825646 0.00 NA NA NA NA NA NA 0.00 0.00 NA NA 5.56 NA NA NA 4.76 NA NA 0.00 3.70 NA NA 0.00 0.00 NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA 0.00 NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA 0.00 NA NA NA K intron_retention Unr,DMG4-MB6.chr3L.15.021 chr3L - chr3L_8429811_8429864 chr3L_8429810_8429811;chr3L_8429864_8429865 chr3L_8429346_8429810;chr3L_8429865_8430072 97.34 96.70 96.30 99.43 96.43 98.80 98.50 95.16 97.34 97.96 98.41 96.74 96.25 98.70 97.44 97.39 96.00 96.39 97.62 97.89 100.00 99.11 96.20 96.40 97.73 97.01 97.84 95.24 94.51 96.63 97.75 97.06 98.25 95.51 99.00 98.31 97.50 94.34 94.04 94.93 95.92 95.87 93.98 93.69 97.14 95.16 97.44 97.87 97.85 97.50 97.44 97.22 100.00 97.56 93.52 97.73 97.06 97.62 K alternative_donor CG4199,I_chrX_1962457_1964222 chrX - chrX_1965614_1967409;chrX_1965614_1967149;chrX_1965614_1966582 chrX_1965614_1965872 chrX_1965393_1965613;chrX_1967410_1967460 100.00 97.06 96.67 100.00 100.00 100.00 93.94 100.00 100.00 95.45 100.00 98.08 92.86 100.00 100.00 100.00 100.00 100.00 100.00 98.63 100.00 90.00 98.04 100.00 100.00 100.00 100.00 97.06 100.00 100.00 94.74 100.00 100.00 100.00 100.00 100.00 98.18 100.00 98.08 97.10 96.00 98.46 95.24 97.56 100.00 100.00 100.00 100.00 98.36 100.00 100.00 96.77 97.22 100.00 100.00 97.06 100.00 97.44 K intron_retention CREF_chr3R_5589662_5589762,CG8481 chr3R + chr3R_5593863_5594466 chr3R_5593862_5593863;chr3R_5594466_5594467 chr3R_5593583_5593862;chr3R_5594467_5594493 42.11 NA 23.08 46.15 NA NA NA 30.77 37.50 NA 30.77 40.00 NA NA NA NA NA NA NA 46.67 NA 63.64 NA NA NA NA NA NA NA NA NA 33.33 23.08 42.11 NA NA NA NA NA 47.62 NA 50.00 NA 46.15 26.67 50.00 NA 46.15 NA NA NA NA NA NA NA NA NA NA K intron_retention kis,RI_chr2L_242745_242800,I_chr2L_242926_250756 chr2L - chr2L_242745_250756 chr2L_242744_242745;chr2L_250756_250757 chr2L_242645_242744;chr2L_250757_250774 0.00 0.00 6.45 6.67 NA 7.69 11.11 11.11 3.57 NA NA 4.00 8.00 0.00 9.09 3.45 0.00 0.00 0.00 0.00 NA NA 0.00 NA NA 0.00 NA NA NA NA 0.00 NA 0.00 4.76 NA NA 0.00 NA NA 0.00 NA 9.30 0.00 NA NA NA NA 0.00 6.52 NA NA 0.00 NA NA 0.00 NA NA NA N cassette cher,I_chr3R_12927155_12927241,I_chr3R_12927155_12927867,I_chr3R_12927155_12927890,I_chr3R_12943024_12948119 chr3R - chr3R_12926801_12929977 chr3R_12926801_12927073;chr3R_12927155_12929977 chr3R_12927074_12927154 chr3R_12926714_12926800;chr3R_12929978_12930113 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Nc73EF,I_chr3L_16950628_16951334,I_chr3L_16950952_16952198,I_chr3L_16951588_16952198,I_chr3L_16951626_16952198,I_chr3L_16952138_16952198,I_chr3L_16952985_16955434,I_chr3L_16953768_16954599 chr3L + chr3L_16950628_16952198 chr3L_16950627_16950628;chr3L_16952198_16952199 chr3L_16950617_16950627;chr3L_16952199_16952207 0.00 NA 4.17 4.35 0.00 NA 10.00 3.23 3.28 NA NA 2.86 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 4.76 0.00 0.00 0.00 NA 0.00 9.52 NA NA NA NA NA 0.00 0.00 0.00 6.25 0.00 0.00 0.00 NA 0.00 NA 0.00 NA 0.00 NA NA 2.56 0.00 2.27 5.56 NA NA 0.00 0.00 0.00 NA N intron_retention growl chr3R + chr3R_229003_229955 chr3R_229002_229003;chr3R_229955_229956 chr3R_228731_229002;chr3R_229956_233725 100.00 NA NA 100.00 NA NA NA 100.00 100.00 NA NA 100.00 NA NA NA 100.00 NA 100.00 NA 100.00 NA 66.67 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 NA NA 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA NA NA NA 100.00 NA 100.00 K jcn_only_AD vig chr2L - chr2L_15067690_15067915;chr2L_15067690_15067995;chr2L_15067690_15067868;chr2L_15067690_15068029;chr2L_15067690_15067999 chr2L_15067690_15067952 chr2L_15066937_15067689;chr2L_15068030_15068031 3.51 5.36 1.90 3.65 3.73 4.55 3.14 7.66 2.69 6.00 3.45 3.85 3.03 3.70 2.10 4.00 2.73 3.85 1.16 3.74 3.97 2.52 0.00 3.70 0.00 2.48 0.00 4.14 9.09 4.17 2.11 9.52 4.12 1.64 2.86 6.49 5.98 7.25 1.45 7.12 5.41 3.32 3.51 3.85 4.40 2.38 1.32 4.64 2.95 0.00 2.97 7.06 2.88 0.00 2.26 2.90 2.30 5.66 K intron_retention Tsp42Ed chr2R - chr2R_2898360_2899096 chr2R_2898359_2898360;chr2R_2899096_2899097 chr2R_2898168_2898359;chr2R_2899097_2899359 9.82 7.50 7.38 10.07 6.82 8.04 6.87 6.73 8.70 14.67 11.90 6.46 6.98 8.20 6.43 6.49 8.24 8.33 3.87 9.90 8.18 7.56 13.87 12.09 9.82 5.17 14.87 14.29 14.57 13.38 10.44 16.13 16.02 6.93 10.24 10.07 15.08 4.67 9.94 17.33 13.64 5.67 3.70 16.67 13.89 13.29 11.92 14.67 4.89 9.46 13.33 9.82 9.42 12.93 7.38 9.80 7.52 10.55 K intron_retention CG34126,I_chr2L_4984636_4984712 chr2L + chr2L_4985425_4985861 chr2L_4985424_4985425;chr2L_4985861_4985862 chr2L_4985358_4985424;chr2L_4985862_4985954 2.54 2.13 0.00 0.00 0.00 0.00 3.12 1.27 3.70 0.00 10.53 3.12 5.41 0.00 0.00 9.76 6.06 0.00 4.35 3.33 0.00 2.13 1.37 3.12 0.00 0.00 1.32 9.52 4.35 2.13 3.92 NA 0.00 5.45 2.94 1.82 0.00 0.00 0.00 8.57 5.71 4.35 8.82 5.66 0.00 3.12 0.00 6.38 4.35 4.35 3.39 5.71 0.00 4.55 1.85 9.68 0.00 0.00 K alternative_donor CG5482,I_chr2R_14519136_14519239 chr2R - chr2R_14519136_14519367;chr2R_14519136_14519239 chr2R_14519136_14519254 chr2R_14519036_14519135;chr2R_14519368_14519403 100.00 100.00 93.75 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 96.15 93.33 100.00 100.00 97.50 100.00 100.00 100.00 100.00 100.00 90.00 100.00 100.00 100.00 100.00 100.00 NA 90.91 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.97 100.00 100.00 100.00 94.44 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AA CG10737 chr2R + chr2R_15057912_15058122 chr2R_15057912_15057980 chr2R_15057784_15057911;chr2R_15058123_15058183 0.00 NA NA 0.00 NA NA 5.00 0.00 7.41 NA NA 7.41 NA NA NA 0.00 NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA 4.35 NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA K jcn_only_AA CG2162,I_chr3L_3039516_3039562 chr3L + chr3L_3039516_3039578 chr3L_3039516_3039562 chr3L_3039416_3039515;chr3L_3039579_3039662 0.00 0.00 0.00 0.00 0.00 1.11 0.00 0.00 1.20 0.00 0.00 0.00 0.00 0.00 1.20 1.08 0.00 0.00 0.00 0.42 0.00 0.00 0.00 0.00 1.45 0.00 0.00 2.99 0.00 0.00 0.00 0.00 0.00 1.10 1.32 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.13 0.00 0.69 0.00 0.00 0.00 0.00 1.00 0.92 0.00 0.00 1.44 0.00 0.00 0.00 0.00 K alternative_last_exon CG42399,CG3709,F_chr2L_147711_148337,CG33635 chr2L - chr2L_149227_155127 chr2L_155060_155127 chr2L_148092_149226 chr2L_151115_155059 chr2L_155128_155178 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention fry,I_chr3L_9636648_9656042 chr3L - chr3L_9656618_9656720 chr3L_9656617_9656618;chr3L_9656720_9656721 chr3L_9656473_9656617;chr3L_9656721_9656890 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.55 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.47 NA 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 3.45 NA NA 0.00 0.00 0.00 NA K intron_retention TfIIFalpha,I_chr3R_2211939_2212057 chr3R + chr3R_2207328_2207403 chr3R_2207327_2207328;chr3R_2207403_2207404 chr3R_2206408_2207327;chr3R_2207404_2207991 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.45 0.00 0.00 0.00 0.59 0.00 0.00 0.00 0.31 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.19 0.00 0.67 0.00 0.62 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.30 0.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.63 0.00 0.00 0.80 K intron_retention sol chrX + chrX_21221878_21222886 chrX_21221877_21221878;chrX_21222886_21222887 chrX_21221327_21221877;chrX_21222887_21223512 11.11 8.51 12.90 14.29 12.50 12.00 19.57 17.39 9.84 5.88 17.24 11.67 20.00 21.43 12.50 21.21 11.43 17.24 16.67 12.15 19.23 22.62 7.41 9.46 12.24 22.73 9.52 13.51 7.06 7.69 8.47 2.63 4.73 11.59 10.64 18.18 4.13 9.09 9.64 6.13 2.00 11.11 22.73 8.86 7.14 10.61 4.35 7.33 11.76 0.00 16.39 13.89 7.14 11.11 10.00 9.68 9.09 6.82 K jcn_only_AA TwdlG,RI_chr3R_75576_75628 chr3R - chr3R_75568_75628 chr3R_75576_75628 chr3R_75629_75728;chr3R_75476_75567 0.00 NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 4.17 NA NA NA NA NA NA NA NA K cassette Gug,R_chr3L_8444636_8444874,I_chr3L_8455244_8456103 chr3L + chr3L_8445229_8456103 chr3L_8445229_8455071;chr3L_8455204_8456103 chr3L_8455072_8455203 chr3L_8445200_8445228;chr3L_8456104_8456203 100.00 100.00 100.00 95.83 100.00 100.00 87.50 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 85.71 100.00 100.00 NA 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 100.00 91.67 100.00 100.00 100.00 100.00 NA 100.00 NA 100.00 NA NA NA 100.00 100.00 NA 100.00 100.00 NA NA 100.00 NA NA 100.00 K intron_retention Prp19 chr2R - chr2R_14338331_14338394 chr2R_14338330_14338331;chr2R_14338394_14338395 chr2R_14336977_14338330;chr2R_14338395_14338503 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 8.33 8.70 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor SdhB chr2R + chr2R_2695323_2695594 chr2R_2695323_2695542 chr2R_2695116_2695322;chr2R_2695595_2696031 0.89 0.41 0.90 0.45 0.00 0.00 1.97 0.00 0.33 0.73 0.66 0.29 0.00 0.70 0.79 0.00 0.00 1.10 0.00 0.76 1.13 2.42 1.01 0.89 1.32 2.42 0.96 1.91 0.60 1.10 1.32 1.33 1.20 0.48 1.49 3.33 0.63 1.12 1.12 1.43 3.03 0.27 0.00 0.58 2.35 1.42 1.15 1.82 0.33 1.50 0.74 1.42 0.46 0.67 0.99 0.36 0.25 1.05 K jcn_only_AA CG32982,I_chr2L_9127467_9148754,EF_chr2L_9135385_9148841,F_chr2L_9149162_9154658 chr2L + chr2L_9162709_9163294;chr2L_9162709_9163143 chr2L_9162709_9163140 chr2L_9162363_9162708;chr2L_9163295_9163398 95.00 95.31 96.15 94.29 97.44 96.30 93.88 91.38 91.01 93.18 100.00 100.00 NA 97.37 93.02 96.55 96.15 96.30 100.00 96.67 96.15 94.24 96.15 91.67 95.12 92.00 92.77 93.33 95.45 96.67 97.56 94.00 92.98 90.91 97.87 94.55 92.16 95.83 95.24 93.75 94.59 93.83 95.00 96.06 97.78 94.25 92.13 91.43 91.04 93.51 94.68 98.04 90.32 98.68 95.00 96.70 91.78 96.25 K intron_retention Aats-arg chrX - chrX_15738015_15738072 chrX_15738014_15738015;chrX_15738072_15738073 chrX_15737886_15738014;chrX_15738073_15738078 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.52 0.00 0.00 3.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.76 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention RpS15Aa chrX - chrX_13231573_13231639 chrX_13231572_13231573;chrX_13231639_13231640 chrX_13231538_13231572;chrX_13231640_13231706 56.36 57.89 59.09 76.47 50.00 44.00 85.44 45.65 59.42 52.94 61.90 47.50 50.00 48.28 60.61 73.68 60.87 42.31 56.10 60.00 55.56 80.00 86.67 70.00 81.82 74.58 93.75 94.59 92.94 NA 56.67 45.45 NA 52.63 90.00 NA 65.38 80.00 62.50 41.67 44.44 56.36 55.00 NA NA 76.47 43.75 33.33 41.07 52.00 76.19 50.00 45.00 NA 46.67 47.83 49.09 36.36 K alternative_donor row,I_chr2R_11098574_11098633 chr2R - chr2R_11098574_11099081 chr2R_11098574_11098633 chr2R_11098474_11098573;chr2R_11099082_11099172 11.63 11.63 7.14 20.69 8.33 12.90 16.33 14.49 15.79 14.29 10.00 14.47 31.82 28.57 10.20 17.14 12.20 13.04 12.20 11.57 18.42 5.26 9.23 12.50 10.00 8.89 13.64 9.09 6.67 4.41 8.89 8.00 4.17 16.67 12.50 4.44 8.93 8.51 9.09 10.23 7.89 13.92 19.23 11.54 8.00 10.00 24.14 3.49 15.91 14.00 14.04 11.63 12.50 24.00 9.26 20.00 26.47 4.46 K cassette CG6448,I_chr2L_22156816_22158491 chr2L + chr2L_22156816_22158512 chr2L_22156816_22157022;chr2L_22157056_22158512 chr2L_22157023_22157055 chr2L_22156716_22156815;chr2L_22158513_22158591 1.30 0.73 2.68 3.18 1.87 2.38 1.44 1.22 1.62 0.00 10.98 1.78 1.19 1.18 1.60 1.01 0.89 1.41 0.94 3.12 4.08 1.30 1.17 1.16 1.94 2.06 1.86 2.56 2.53 0.78 0.00 0.00 0.00 1.54 0.99 1.72 1.52 0.72 1.52 0.53 0.00 0.50 1.30 0.64 1.37 0.81 1.43 1.41 0.60 1.33 1.12 1.41 0.93 0.93 0.82 1.67 0.58 0.00 K intron_retention rho chr3L + chr3L_1465823_1466489 chr3L_1465822_1465823;chr3L_1466489_1466490 chr3L_1465466_1465822;chr3L_1466490_1466907 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.32 0.00 0.00 0.00 0.00 10.00 2.78 0.00 0.00 0.00 2.38 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA K alternative_acceptor Pdsw chr2L + chr2L_3466229_3466315 chr2L_3466229_3466297 chr2L_3466160_3466228;chr2L_3466316_3466416 6.94 3.45 6.94 6.06 4.76 3.92 8.91 5.36 3.12 7.69 7.14 5.98 4.62 5.41 4.00 4.65 5.41 5.33 3.85 5.67 3.39 9.30 4.44 7.59 24.24 27.08 21.21 15.00 29.17 20.00 4.05 10.71 14.29 1.68 7.69 32.14 4.46 4.08 11.94 8.00 44.44 3.66 5.36 9.76 6.52 19.05 8.22 11.11 4.72 9.62 11.11 6.94 13.64 7.84 6.17 6.74 6.94 9.38 K alternative_donor CG1572,RI_chrX_11450380_11450442,I_chrX_11450380_11452520 chrX - chrX_11450380_11450442;chrX_11450380_11452571 chrX_11450380_11452565 chrX_11450280_11450379;chrX_11452572_11452620 2.27 2.12 2.20 2.31 1.74 1.71 1.77 2.38 1.82 3.07 1.78 2.27 1.62 2.11 4.49 2.11 1.41 1.67 2.01 2.54 1.95 1.99 2.61 1.97 2.36 1.92 2.84 3.69 3.51 3.05 1.79 2.98 2.49 1.68 2.16 2.19 2.00 1.74 1.40 3.11 2.37 1.88 1.54 2.30 3.18 2.70 2.64 2.62 2.51 2.38 2.77 1.73 2.98 3.27 2.16 2.30 2.31 2.69 K intron_retention Zyx102EF,I_chr4_1078380_1078835,I_chr4_1080463_1081366,REF_chr4_1081261_1081452,F_chr4_1081280_1081398,F_chr4_1081280_1081452 chr4 - chr4_1078380_1078432 chr4_1078379_1078380;chr4_1078432_1078433 chr4_1078280_1078379;chr4_1078433_1078643 0.00 0.00 0.00 5.77 0.00 11.11 0.00 4.65 3.03 NA NA 0.00 0.00 0.00 0.00 6.06 0.00 0.00 0.00 2.38 0.00 NA 0.00 0.00 NA 4.00 NA NA NA NA 0.00 13.33 NA 2.17 NA NA NA NA NA 7.14 NA 12.77 0.00 0.00 5.56 0.00 0.00 NA 11.32 3.85 7.14 0.00 0.00 0.00 0.00 4.17 0.00 0.00 K intron_retention RI_chr3L_11108913_11109028,Ufd1-like chr3L - chr3L_11115965_11116021 chr3L_11115964_11115965;chr3L_11116021_11116022 chr3L_11115064_11115964;chr3L_11116022_11116276 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.63 0.00 0.00 0.00 0.00 1.69 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Hcf,I_chr4_390281_391716,I_chr4_391783_391844,I_chr4_391787_391885,I_chr4_391984_392875 chr4 + chr4_390591_391716 chr4_390590_390591;chr4_391716_391717 chr4_390436_390590;chr4_391717_391782 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 2.00 0.00 0.00 2.15 0.00 0.00 0.00 0.00 0.00 1.41 0.00 1.06 0.00 0.00 0.00 0.00 0.00 0.00 1.03 0.00 0.00 0.00 0.00 0.00 1.41 0.00 0.00 0.00 K alternative_acceptor Mlh1,I_chr2R_4058619_4058671 chr2R + chr2R_4058619_4058678 chr2R_4058619_4058671 chr2R_4058519_4058618;chr2R_4058679_4058771 87.50 NA NA NA NA NA NA NA 87.50 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 60.00 NA NA NA NA NA NA 87.50 NA NA NA NA NA NA NA NA NA K jcn_only_AD Hr39,I_chr2L_21256047_21256260 chr2L + chr2L_21237347_21238280;chr2L_21237385_21238280;chr2L_21237421_21238280;chr2L_21237397_21238280;chr2L_21237405_21238280 chr2L_21237364_21238280 chr2L_21238281_21238529;chr2L_21237247_21237346 2.86 NA NA 2.86 NA NA 5.00 3.23 0.00 NA NA 2.86 0.00 NA NA 0.00 NA NA NA 4.44 NA NA 5.88 0.00 NA NA 0.00 NA NA NA 0.00 NA NA 8.33 0.00 NA NA NA NA 0.00 NA 0.00 NA 4.17 NA NA NA 3.33 2.38 NA 4.17 NA NA NA 4.17 NA NA NA K intron_retention GXIVsPLA2,I_chr3L_15948429_15948487,I_chr3L_15950680_15950738 chr3L + chr3L_15948410_15948487 chr3L_15948409_15948410;chr3L_15948487_15948488 chr3L_15948329_15948409;chr3L_15948488_15948587 33.33 NA NA 35.71 NA NA 23.08 NA NA NA NA 35.71 NA NA NA 26.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 33.33 NA NA NA NA NA NA NA NA NA NA 38.46 NA NA NA NA NA NA 11.11 NA NA NA NA NA NA NA NA NA K jcn_only_AA gem,I_chr2R_6015083_6015660 chr2R + chr2R_6016198_6016327 chr2R_6016198_6016288 chr2R_6016086_6016197;chr2R_6016328_6016534 20.41 22.86 17.39 26.98 28.95 24.78 16.27 19.61 17.47 23.08 20.41 18.75 20.63 26.83 18.66 20.13 23.02 25.00 20.18 17.70 19.30 38.85 14.93 23.40 21.32 38.39 10.95 20.93 33.33 25.55 25.29 17.11 22.55 18.39 28.32 17.69 26.27 23.00 19.56 23.91 24.14 21.83 15.70 19.90 18.69 18.03 13.70 14.63 15.41 19.20 20.18 27.03 17.47 18.46 22.08 14.40 20.86 23.40 K alternative_last_exon lola,I_chr2R_6380094_6419543,I_chr2R_6380747_6419543,I_chr2R_6421474_6423519,I_chr2R_6421904_6422354 chr2R - chr2R_6389565_6389862 chr2R_6389735_6389862 chr2R_6387703_6389564 chr2R_6389602_6389734 chr2R_6389863_6389967 11.54 9.09 16.67 15.38 0.00 7.69 29.63 14.29 16.13 13.33 9.09 15.38 23.08 16.67 17.65 23.08 10.00 8.33 25.00 10.71 20.00 17.39 15.00 11.11 18.75 27.27 6.25 6.67 11.54 5.56 16.67 7.69 13.64 10.00 10.00 23.08 8.00 0.00 5.00 11.11 16.67 8.70 11.11 16.67 0.00 8.33 15.38 14.29 22.22 0.00 20.83 25.00 9.09 0.00 0.00 11.11 8.33 17.65 K intron_retention CG4829,I_chrX_16717240_16717547 chrX + chrX_16719597_16719669 chrX_16719596_16719597;chrX_16719669_16719670 chrX_16718955_16719596;chrX_16719670_16720526 0.00 0.00 0.00 0.42 0.00 0.00 0.00 0.23 0.00 0.00 0.41 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.14 0.00 0.00 0.00 0.00 0.00 0.00 0.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Gug,R_chr3L_8444636_8444874,I_chr3L_8455244_8456103 chr3L + chr3L_8455204_8456103 chr3L_8455203_8455204;chr3L_8456103_8456104 chr3L_8455194_8455203;chr3L_8456104_8456203 6.51 NA NA 7.14 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 5.88 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG8675,Fim,I_chrX_17193096_17195392 chrX - chrX_17183071_17185283 chrX_17183070_17183071;chrX_17185283_17185284 chrX_17181960_17183070;chrX_17185284_17185735 3.08 0.00 5.13 0.00 0.00 0.00 2.94 3.39 4.76 0.00 6.67 3.70 12.50 4.00 0.00 3.08 0.00 0.00 5.41 4.35 4.65 5.13 3.28 5.26 0.00 4.76 5.00 0.00 NA 4.76 0.00 NA 6.25 3.57 5.00 NA 0.00 0.00 0.00 4.65 6.67 1.64 0.00 0.00 5.26 0.00 NA 0.00 5.88 0.00 2.27 0.00 NA 7.69 0.00 0.00 NA 10.53 N multi_cassette CG14709,F_chr3R_7396835_7396923,F_chr3R_7405343_7405539 chr3R + chr3R_7395557_7397989 chr3R_7395557_7396748;chr3R_7396835_7396896;chr3R_7397045_7397107;chr3R_7397284_7397336;chr3R_7397528_7397989 chr3R_7396749_7396834;chr3R_7396897_7397044;chr3R_7397108_7397283;chr3R_7397337_7397527 chr3R_7394972_7395556;chr3R_7397990_7399584 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 81.54 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention homer chr2L - chr2L_6720943_6720996 chr2L_6720942_6720943;chr2L_6720996_6720997 chr2L_6720527_6720942;chr2L_6720997_6721131 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.17 NA 1.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 K alternative_donor Gel,I_chr3R_63962_64024,I_chr3R_66533_66599 chr3R + chr3R_66437_66599 chr3R_66533_66599 chr3R_66600_66699;chr3R_66433_66436 2.52 1.95 3.24 3.83 3.69 2.79 2.51 1.18 2.53 2.63 3.95 3.23 4.32 1.13 2.52 2.47 2.53 2.31 1.89 2.62 2.88 3.82 2.33 2.70 2.56 2.03 3.06 4.08 5.82 1.94 2.45 2.63 1.13 2.74 2.33 1.47 4.72 2.73 2.27 1.88 1.64 1.82 2.53 2.63 1.60 1.54 2.14 2.01 2.22 3.00 3.30 3.88 1.98 2.34 1.65 1.77 2.95 1.28 K jcn_only_AD Shawn_Tyler,CG14213 chrX + chrX_19533110_19533177 chrX_19533117_19533177 chrX_19533178_19533426;chrX_19532929_19533109 14.29 NA NA 21.88 NA NA NA 19.23 25.93 NA NA 17.65 NA NA NA NA NA NA NA 24.00 4.76 25.00 21.43 12.50 NA NA NA NA NA NA 14.29 NA NA 6.67 NA NA 4.17 4.55 20.83 22.86 NA 28.00 NA 4.76 NA 10.00 NA NA 13.79 13.64 4.76 15.00 NA NA NA NA 13.04 NA K alternative_acceptor TepIV,EI_chr2L_19548696_19549582 chr2L + chr2L_19553916_19553969;chr2L_19553916_19553975 chr2L_19553916_19553978 chr2L_19553362_19553915;chr2L_19553979_19556092 1.92 4.88 6.15 0.90 1.75 0.00 3.09 1.49 4.46 4.08 1.37 1.61 1.05 1.47 4.11 0.78 1.56 0.00 2.53 3.41 3.08 2.67 0.81 1.14 0.00 1.75 1.18 2.21 2.35 2.15 1.20 4.94 1.92 0.93 1.85 8.22 2.70 1.89 1.18 4.10 0.83 2.37 3.28 2.11 2.65 2.05 3.37 3.01 2.13 1.94 1.22 1.69 1.79 4.08 3.80 1.39 0.74 1.35 K alternative_acceptor CG6697 chr3R + chr3R_18887542_18887603 chr3R_18887542_18887598 chr3R_18887241_18887541;chr3R_18887604_18888474 100.00 100.00 93.33 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 NA 91.67 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.45 100.00 NA 100.00 100.00 100.00 93.33 100.00 100.00 K jcn_only_AD CG11658,I_chr3L_11704048_11704107 chr3L - chr3L_11700672_11701407;chr3L_11700672_11701491 chr3L_11700672_11701507 chr3L_11700405_11700671;chr3L_11701508_11701663 90.03 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 84.62 NA NA NA 95.45 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_acceptor CG8067 chr2R + chr2R_9871329_9871394 chr2R_9871329_9871389 chr2R_9871150_9871328;chr2R_9871395_9871645 100.00 100.00 100.00 91.67 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 NA NA 100.00 100.00 NA NA 100.00 100.00 NA NA 100.00 100.00 100.00 90.00 100.00 100.00 NA NA 100.00 NA NA 100.00 NA 100.00 100.00 100.00 100.00 92.86 NA 100.00 NA 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 100.00 100.00 K intron_retention CG17838,I_chr3R_16625404_16631668 chr3R + chr3R_16628274_16631668 chr3R_16628273_16628274;chr3R_16631668_16631669 chr3R_16628255_16628273;chr3R_16631669_16631768 19.26 11.76 22.22 20.00 NA NA 27.78 42.86 14.29 6.25 NA 21.05 14.29 NA NA 21.43 NA 23.08 NA 23.08 NA NA 12.50 NA NA 23.53 12.50 30.77 11.76 21.43 33.33 NA 16.67 30.43 NA 5.00 0.00 NA 12.50 25.00 NA 21.05 NA 13.33 NA NA NA 16.67 18.52 NA 17.65 NA NA NA 25.00 NA NA 15.00 K cassette CG18317,RI_chr2L_1718492_1723881,I_chr2L_1718904_1718995,RI_chr2L_1718904_1724234 chr2L - chr2L_1718492_1723881 chr2L_1718492_1718739;chr2L_1718904_1723881 chr2L_1718740_1718903 chr2L_1718421_1718491;chr2L_1723882_1723981 97.44 96.88 100.00 87.50 100.00 100.00 100.00 94.44 97.14 96.43 100.00 93.55 100.00 90.00 100.00 100.00 91.67 100.00 100.00 94.87 100.00 90.62 100.00 97.73 100.00 90.91 100.00 97.14 96.15 100.00 100.00 93.33 97.30 95.00 100.00 100.00 100.00 97.30 98.00 96.55 100.00 96.55 80.00 100.00 96.77 96.30 97.44 100.00 96.43 96.77 100.00 100.00 96.30 96.67 94.12 100.00 100.00 93.75 K intron_retention CG7546 chr3L + chr3L_7504729_7504804 chr3L_7504728_7504729;chr3L_7504804_7504805 chr3L_7504611_7504728;chr3L_7504805_7505016 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.57 0.00 0.00 0.00 0.00 0.00 0.00 3.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD I_chr3L_18892015_18892405,RpL26,I_chr3L_18892244_18892405,I_chr3L_18892340_18892405,I_chr3L_18892434_18892499 chr3L + chr3L_18892240_18892405 chr3L_18892340_18892405 chr3L_18892406_18892433;chr3L_18892172_18892239 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.16 0.00 0.31 0.10 0.00 0.00 0.00 0.00 0.00 0.00 0.19 0.88 0.00 0.00 0.00 0.00 0.00 3.18 0.00 0.00 0.00 0.00 0.00 0.59 0.95 0.00 0.00 0.00 0.19 0.73 0.06 0.00 0.45 0.20 0.52 0.56 0.34 0.00 0.63 1.22 0.00 0.46 1.20 0.00 1.14 0.34 0.28 K jcn_only_AD Myb,RI_chrX_15752571_15753225 chrX - chrX_15751579_15751673;chrX_15751579_15751709;chrX_15751579_15751749 chrX_15751579_15751682 chrX_15749823_15751578;chrX_15751750_15751876 6.92 1.92 4.76 5.97 3.77 6.52 10.45 6.93 7.48 3.33 12.82 5.30 5.00 9.59 1.52 5.96 10.53 2.22 3.64 6.56 12.50 3.85 10.34 5.13 6.90 4.55 7.69 4.76 6.06 10.71 9.09 16.33 19.72 6.54 9.09 0.00 10.00 5.56 5.13 7.79 8.33 9.78 10.64 1.61 10.42 6.45 8.11 7.94 4.32 NA 8.33 10.53 5.56 18.18 4.05 10.71 10.34 6.96 K intron_retention alc chr2R - chr2R_5023211_5023269 chr2R_5023210_5023211;chr2R_5023269_5023270 chr2R_5023142_5023210;chr2R_5023270_5023364 0.82 0.00 1.52 0.00 0.00 1.87 1.68 1.36 2.06 0.00 0.00 1.59 0.00 0.00 0.00 0.00 0.00 1.89 1.92 0.43 2.04 0.00 0.82 0.80 2.15 0.00 1.54 2.35 1.06 0.00 0.00 1.54 0.00 1.42 0.00 1.83 1.32 0.00 0.92 1.07 0.00 1.79 0.00 0.00 0.82 0.99 0.54 1.14 1.03 0.88 1.57 0.00 0.00 0.00 1.65 0.00 1.06 0.40 N alternative_donor None chrU - chrU_7543786_7544888 chrU_7543786_7543849 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.25 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG1598 chr2R - chr2R_3426218_3426276 chr2R_3426217_3426218;chr2R_3426276_3426277 chr2R_3425719_3426217;chr2R_3426277_3426717 1.03 1.03 0.00 4.20 0.00 0.00 5.22 2.26 1.05 3.92 0.00 0.76 1.56 0.00 0.00 1.15 0.00 4.35 0.00 0.82 2.17 7.41 0.72 1.61 0.00 2.78 4.27 6.58 2.13 1.09 2.38 0.00 1.12 0.00 0.00 0.00 1.27 1.47 1.24 0.00 3.75 0.61 1.25 0.00 0.00 1.61 0.77 3.17 2.84 2.40 3.70 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA CG32016,I_chr4_972691_972763,I_chr4_972719_972763,I_chr4_974853_975546,I_chr4_978690_978939 chr4 - chr4_972704_972763;chr4_972719_972763 chr4_972691_972763 chr4_972764_972863;chr4_972619_972690 0.00 0.00 0.00 0.00 0.00 2.70 1.11 0.00 0.75 NA 3.85 0.00 0.00 0.00 1.82 0.00 0.00 0.00 0.00 0.72 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.17 0.00 2.17 0.00 0.00 0.00 0.75 0.00 0.00 0.00 0.00 3.08 0.00 0.00 0.00 2.86 0.00 0.00 1.82 2.33 0.00 0.00 1.19 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Mtch,RI_chr3L_184729_185366,I_chr3L_185367_185925 chr3L + chr3L_184682_184777 chr3L_184681_184682;chr3L_184777_184778 chr3L_184674_184681;chr3L_184778_184854 77.78 83.33 71.43 72.97 53.33 57.14 77.78 82.05 71.43 80.00 66.67 80.56 56.25 80.95 74.07 84.62 70.00 75.00 70.83 72.73 61.11 76.47 96.00 85.71 91.67 84.21 92.86 81.82 82.14 94.44 71.43 75.00 75.00 69.44 92.86 85.00 83.33 89.47 81.25 68.52 71.43 70.00 77.78 87.50 56.52 84.85 94.44 63.89 72.73 92.31 96.77 76.47 76.47 100.00 62.50 86.67 95.24 62.86 K intron_retention CG14614,REI_chrX_21856047_21856229,RI_chrX_21856896_21857109 chrX - chrX_21856896_21857109 chrX_21856895_21856896;chrX_21857109_21857110 chrX_21856796_21856895;chrX_21857110_21857209 100.00 97.67 97.67 100.00 100.00 100.00 100.00 98.25 98.67 100.00 96.97 97.30 100.00 97.50 100.00 100.00 96.88 100.00 100.00 100.00 97.67 94.74 100.00 100.00 100.00 100.00 100.00 100.00 96.55 100.00 100.00 100.00 100.00 98.11 100.00 97.50 100.00 100.00 98.15 100.00 100.00 98.65 96.97 100.00 100.00 97.06 96.97 100.00 98.41 96.00 97.96 100.00 94.12 100.00 100.00 100.00 100.00 100.00 K intron_retention klett chrX - chrX_21499782_21499870 chrX_21499781_21499782;chrX_21499870_21499871 chrX_21499389_21499781;chrX_21499871_21500596 36.60 60.00 33.33 46.15 40.00 46.15 28.57 36.36 43.75 NA NA 29.17 42.86 30.77 30.00 NA 41.67 46.15 36.84 37.50 NA 29.41 46.15 34.78 25.00 30.77 45.00 53.85 33.33 15.79 25.00 NA 26.67 36.84 46.15 47.62 29.41 33.33 35.71 29.55 NA 34.62 41.67 34.78 25.00 44.44 41.67 33.33 44.44 36.84 47.83 NA 63.64 50.00 42.11 35.00 35.71 28.57 K alternative_donor RpL8,I_chr3L_2587513_2587750,I_chr3L_2587600_2587750,RI_chr3L_2587690_2587750,I_chr3L_2589746_2592161 chr3L + chr3L_2587600_2587750;chr3L_2587690_2587750 chr3L_2587514_2587750 chr3L_2587751_2587850;chr3L_2587500_2587513 99.94 99.88 100.00 99.96 100.00 100.00 99.96 99.94 99.97 100.00 99.97 100.00 99.91 99.97 100.00 99.96 100.00 99.97 100.00 99.96 99.97 99.84 99.95 99.97 100.00 100.00 99.94 99.92 99.93 99.92 99.88 99.94 99.92 99.93 99.79 99.90 100.00 100.00 99.96 99.92 99.88 99.97 99.96 99.89 99.97 99.86 99.92 99.90 99.94 99.88 99.87 99.89 99.92 99.69 99.93 99.93 99.92 100.00 K intron_retention cic,RI_chr3R_16122222_16123529 chr3R + chr3R_16122222_16124105 chr3R_16122221_16122222;chr3R_16124105_16124106 chr3R_16122122_16122221;chr3R_16124106_16124254 1.72 0.00 0.00 3.35 0.00 1.22 1.82 2.55 1.83 0.00 1.41 0.95 2.67 2.63 0.76 2.78 2.25 1.61 2.41 0.46 1.02 18.18 1.64 0.81 3.54 5.75 1.05 5.81 3.45 5.49 0.00 0.00 4.72 1.47 2.60 9.02 2.06 1.72 1.68 2.03 4.35 0.93 0.00 2.94 8.57 2.35 2.56 3.60 0.00 0.00 2.34 0.00 0.00 0.00 0.00 0.00 4.44 0.00 K intron_retention CG12576,RI_chrX_21878289_21882347,I_chrX_21882735_21882809,I_chrX_21882735_21883407,I_chrX_21882735_21883467,I_chrX_21882735_21883620,I_chrX_21882735_21883714 chrX - chrX_21882735_21883750 chrX_21882734_21882735;chrX_21883750_21883751 chrX_21882635_21882734;chrX_21883751_21883814 0.00 0.00 0.00 4.55 0.00 0.00 6.94 2.29 0.00 0.00 0.00 0.00 0.00 0.00 3.33 4.35 1.54 0.00 2.78 1.17 0.00 1.08 0.00 0.00 0.00 0.00 1.96 5.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.96 2.35 0.00 0.00 0.00 0.00 2.42 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor eRF1,CG5618,I_chr3L_20346714_20347106,I_chr3L_20346738_20347058,I_chr3L_20348230_20348404 chr3L + chr3L_20341925_20342041;chr3L_20341636_20342041;chr3L_20341509_20342041;chr3L_20341865_20342041;chr3L_20341486_20342041;chr3L_20341522_20342041;chr3L_20341751_20342041;chr3L_20341530_20342041;chr3L_20341629_20342041;chr3L_20341759_20342041 chr3L_20341598_20342041 chr3L_20342042_20342306;chr3L_20341482_20341485 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD dwg,RI_chrX_2622297_2622355,RI_chrX_2622297_2622430,RI_chrX_2622435_2622577,RI_chrX_2627170_2627263 chrX + chrX_2622297_2622577 chrX_2622435_2622577 chrX_2622578_2622677;chrX_2622197_2622296 1.55 0.00 2.33 0.00 0.00 5.13 NA 0.00 1.72 0.00 0.00 1.33 0.00 5.00 0.00 2.17 0.00 0.00 2.56 1.19 0.00 NA 1.79 0.00 2.78 3.45 6.12 0.00 4.26 0.00 2.04 2.94 4.26 0.00 3.57 3.85 1.85 0.00 0.00 1.54 0.00 2.99 0.00 0.00 3.92 1.49 2.50 1.56 4.48 10.87 3.64 NA 2.13 0.00 2.70 0.00 2.38 0.00 K cassette CG12581,RI_chr3R_1914_9438,I_chr3R_9380_9438 chr3R + chr3R_1914_9438 chr3R_1914_7783;chr3R_8650_9438 chr3R_7784_8649 chr3R_1814_1913;chr3R_9439_9538 100.00 100.00 97.22 87.88 96.43 100.00 100.00 100.00 98.28 96.43 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.56 96.00 100.00 100.00 100.00 100.00 100.00 96.88 100.00 97.67 96.00 100.00 96.55 100.00 100.00 100.00 97.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.18 100.00 97.22 100.00 100.00 97.62 97.87 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.50 97.67 97.83 K intron_retention CG3209,I_chr2R_19957751_19959513,RI_chr2R_19957766_19960227,I_chr2R_19959163_19959513 chr2R + chr2R_19957766_19959513 chr2R_19957765_19957766;chr2R_19959513_19959514 chr2R_19957666_19957765;chr2R_19959514_19959528 25.81 33.33 23.81 40.00 31.58 25.93 44.44 26.19 28.33 26.67 25.00 25.81 70.00 36.00 27.59 19.51 21.21 7.14 29.03 17.32 23.40 61.54 27.03 22.00 38.46 19.51 35.00 34.78 30.43 35.00 19.15 23.08 22.50 37.50 36.84 21.88 21.74 33.33 30.77 19.23 17.24 22.95 38.10 23.68 10.00 21.21 21.21 24.24 25.00 45.00 35.29 30.00 13.79 25.00 30.00 20.00 17.65 9.09 K intron_retention Rab30,I_chr2L_7032178_7032236 chr2L - chr2L_7032178_7032310 chr2L_7032177_7032178;chr2L_7032310_7032311 chr2L_7032078_7032177;chr2L_7032311_7032336 0.00 0.00 0.00 0.00 NA 0.00 5.26 0.00 4.17 NA NA 0.00 NA NA NA 0.00 NA NA 0.00 0.00 0.00 23.53 0.00 NA NA NA NA NA 15.79 6.25 7.14 NA 8.33 6.67 NA 7.69 NA 0.00 NA 3.57 11.11 7.69 NA 0.00 9.09 0.00 NA 0.00 3.85 NA 0.00 NA NA NA NA NA NA 0.00 K intron_retention CG11198 chr2R - chr2R_3862127_3862194 chr2R_3862126_3862127;chr2R_3862194_3862195 chr2R_3861620_3862126;chr2R_3862195_3862329 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.67 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.70 5.19 0.00 0.00 0.00 0.00 0.00 0.68 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.43 0.00 0.00 0.00 0.00 0.00 0.79 0.00 0.00 0.00 K alternative_donor RpL35,I_chrX_5566913_5567030,I_chrX_5567168_5567220 chrX + chrX_5566913_5567030;chrX_5566909_5567030 chrX_5566556_5567030 chrX_5567031_5567130;chrX_5566554_5566555 12.11 8.95 12.46 11.69 15.72 15.68 8.76 11.56 12.30 13.55 14.88 13.80 11.43 11.29 15.27 7.46 12.53 12.21 10.50 12.09 12.82 13.33 8.26 8.82 10.08 12.63 5.46 20.29 7.70 17.28 8.28 16.75 36.09 10.09 14.61 8.65 12.11 12.13 15.79 43.83 9.55 14.60 10.82 23.23 17.61 8.13 9.74 12.35 11.99 7.53 5.54 10.73 28.94 6.23 12.24 8.46 8.73 17.61 N intron_retention I_chrX_16309561_16309689,hang,I_chrX_16328892_16329177,I_chrX_16335942_16337525 chrX + chrX_16323441_16323548 chrX_16323440_16323441;chrX_16323548_16323549 chrX_16323093_16323440;chrX_16323549_16323697 100.00 100.00 NA 100.00 100.00 NA 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 85.94 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 NA 100.00 100.00 NA 100.00 100.00 NA NA 100.00 NA NA 100.00 K intron_retention Gs1l,I_chr2L_4456517_4456723 chr2L - chr2L_4455739_4455856 chr2L_4455738_4455739;chr2L_4455856_4455857 chr2L_4455221_4455738;chr2L_4455857_4455924 10.53 15.62 21.88 16.36 0.00 16.67 30.00 21.88 13.79 16.67 10.53 18.75 10.53 14.29 8.33 12.50 8.70 0.00 23.08 18.46 20.00 50.00 10.45 12.50 9.09 34.62 8.82 9.26 11.76 15.38 7.59 10.26 9.76 9.68 7.69 9.26 8.33 3.57 7.41 19.05 10.53 5.36 13.64 5.26 12.07 11.11 6.67 18.75 17.39 4.44 3.92 17.86 0.00 3.77 25.00 6.67 5.00 12.12 K jcn_only_AD l(2)37Ce,RI_chr2L_19132432_19132483,I_chr2L_19134277_19143634,RI_chr2L_19145845_19146761 chr2L + chr2L_19132417_19132483 chr2L_19132432_19132483 chr2L_19132484_19132583;chr2L_19132357_19132416 0.00 0.00 0.00 0.00 0.00 0.00 1.31 0.00 0.46 0.00 2.78 0.00 1.39 2.47 0.00 0.00 0.00 0.00 2.67 0.96 1.56 9.09 0.00 0.00 0.00 0.00 0.00 NA 0.00 4.17 2.63 0.00 0.00 0.00 3.85 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 4.76 0.00 0.00 2.08 0.00 0.00 0.00 0.00 4.35 2.78 0.00 1.45 0.00 0.00 0.00 K jcn_only_AA Xpd chr2R + chr2R_17058572_17058625 chr2R_17058572_17058618 chr2R_17058531_17058571;chr2R_17058626_17059083 2.15 NA 4.65 0.00 0.00 0.00 1.89 1.79 2.60 NA 2.13 5.71 9.09 0.00 2.17 0.00 0.00 2.56 2.70 2.22 0.00 0.00 NA NA NA 2.78 NA NA 0.00 9.52 8.51 NA 2.08 0.00 NA 0.00 NA NA 3.57 0.00 NA 3.80 0.00 NA 4.44 9.09 NA 3.03 2.78 NA NA NA NA NA 2.63 NA NA 0.00 K intron_retention Cyp310a1 chr2L - chr2L_18652220_18652280 chr2L_18652219_18652220;chr2L_18652280_18652281 chr2L_18652038_18652219;chr2L_18652281_18652397 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA K intron_retention SF1,I_chr3R_13367524_13367576,I_chr3R_13367524_13367588,I_chr3R_13367524_13367760 chr3R + chr3R_13367524_13368136 chr3R_13367523_13367524;chr3R_13368136_13368137 chr3R_13367424_13367523;chr3R_13368137_13368212 8.57 9.52 11.90 0.00 4.26 6.12 8.57 10.81 9.38 16.67 16.13 11.39 20.00 14.00 7.81 20.00 11.63 9.30 11.54 12.36 5.71 8.33 8.33 13.24 11.54 0.00 8.54 14.29 1.64 10.34 7.94 5.26 1.92 14.77 13.56 0.00 11.11 9.72 7.81 9.62 1.56 9.43 6.38 5.63 0.00 9.52 7.41 5.10 8.28 7.87 9.17 7.27 6.90 5.36 6.35 8.70 9.52 5.56 K jcn_only_AD tna chr3L + chr3L_10851787_10863140 chr3L_10852155_10863140 chr3L_10863141_10863453;chr3L_10851215_10851786 0.00 NA NA 5.56 NA NA 0.00 3.23 1.96 NA NA 0.00 0.00 NA 0.00 3.03 0.00 NA 12.50 5.56 NA 0.00 0.00 0.00 NA NA NA NA NA NA NA NA NA 2.63 NA NA 0.00 0.00 NA NA NA 2.78 NA 19.05 NA NA NA NA 0.00 0.00 0.00 NA NA NA 0.00 NA NA NA N jcn_only_AD CG17760 chr2R + chr2R_8513731_8514257;chr2R_8513642_8514257 chr2R_8513482_8514257 chr2R_8514258_8514421;chr2R_8513465_8513481 0.00 NA NA 19.51 NA NA 0.00 0.00 0.00 NA NA 0.00 NA 0.00 NA 0.00 NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA N alternative_acceptor CG34140,CG34140_Mkp,noncoding_9561 chr3L - chr3L_184068_184131 chr3L_184073_184131 chr3L_184132_184197;chr3L_184008_184067 66.67 62.50 100.00 67.57 59.09 100.00 100.00 75.86 69.39 100.00 58.33 62.75 62.96 52.38 68.97 68.18 63.16 100.00 100.00 69.39 61.11 66.67 65.31 69.05 67.86 60.61 61.54 64.10 72.00 100.00 60.53 100.00 100.00 100.00 69.57 62.16 61.90 67.65 65.85 62.50 46.15 65.91 100.00 74.07 100.00 56.00 64.29 100.00 66.67 62.50 71.11 60.00 57.69 50.00 62.50 63.33 64.71 100.00 K intron_retention CaMKII,I_chr4_1069766_1069812,RI_chr4_1071236_1071315,I_chr4_1071489_1071884,RI_chr4_1071489_1071968,I_chr4_1071569_1071884,I_chr4_1071675_1071813,I_chr4_1071675_1071884 chr4 - chr4_1071675_1071884 chr4_1071674_1071675;chr4_1071884_1071885 chr4_1071575_1071674;chr4_1071885_1071899 100.00 100.00 100.00 100.00 NA 100.00 96.67 96.77 97.06 NA NA 100.00 94.12 94.12 100.00 96.88 100.00 100.00 100.00 100.00 100.00 NA 100.00 88.89 100.00 100.00 100.00 NA NA NA 100.00 NA NA 100.00 100.00 NA NA NA NA 90.00 NA 100.00 93.75 NA NA NA NA 100.00 96.97 NA 100.00 100.00 NA NA 100.00 NA NA 100.00 K jcn_only_AA RpL8,I_chr3L_2587513_2587750,I_chr3L_2587600_2587750,I_chr3L_2589746_2592161 chr3L + chr3L_2587514_2587717;chr3L_2587514_2587750 chr3L_2587514_2587575 chr3L_2587500_2587513;chr3L_2587751_2587850 0.09 0.08 0.16 0.04 0.04 0.02 0.16 0.12 0.09 0.11 0.02 0.09 0.27 0.12 0.02 0.11 0.08 0.12 0.08 0.06 0.07 0.42 0.07 0.11 0.10 0.14 0.02 0.08 0.19 0.16 0.33 0.23 0.25 0.14 0.00 0.00 0.11 0.06 0.02 0.07 0.22 0.09 0.08 0.08 0.10 0.24 0.12 0.14 0.22 0.08 0.09 0.08 0.09 0.22 0.05 0.05 0.04 0.27 K jcn_only_AD CG15365,I_chrX_8950375_8950458 chrX - chrX_8950375_8950479 chrX_8950375_8950458 chrX_8950275_8950374;chrX_8950480_8950558 21.37 NA NA NA NA NA NA 36.36 15.38 NA NA 20.00 NA NA NA NA NA NA NA 42.86 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 19.05 NA NA NA NA NA 22.73 NA NA NA NA NA NA NA NA NA NA K alternative_acceptor RpS11,snoRNA:Me28S-C3420a,I_chr2R_8087545_8087698,I_chr2R_8087747_8088193 chr2R - chr2R_8087093_8087338 chr2R_8087095_8087338 chr2R_8087339_8087544;chr2R_8086818_8087092 99.95 99.96 99.93 99.92 100.00 99.93 99.89 99.93 99.95 100.00 99.90 99.95 99.93 99.97 99.95 99.89 99.97 99.94 99.96 99.95 99.96 100.00 99.92 99.94 99.84 99.96 99.93 100.00 99.96 99.97 99.93 99.94 99.97 99.96 99.92 99.89 99.98 99.92 99.89 99.93 99.94 99.98 99.92 99.93 99.98 99.90 99.96 100.00 99.93 99.93 99.91 100.00 99.95 99.99 99.98 99.97 99.91 99.95 K alternative_acceptor CG5367 chr2L - chr2L_10355223_10355481 chr2L_10355227_10355481 chr2L_10355482_10355868;chr2L_10355066_10355222 100.00 100.00 100.00 100.00 100.00 95.45 100.00 96.88 96.88 100.00 100.00 97.62 100.00 100.00 100.00 97.44 100.00 100.00 95.65 92.31 100.00 100.00 100.00 100.00 100.00 95.00 96.15 100.00 97.06 100.00 96.15 96.67 100.00 100.00 100.00 100.00 93.33 NA 94.74 91.89 97.22 97.56 94.44 100.00 100.00 97.73 100.00 98.18 97.92 94.74 100.00 100.00 95.00 93.33 100.00 100.00 100.00 98.88 K alternative_acceptor bip2,RI_chr4_481674_482028,RI_chr4_481674_487126,RI_chr4_483144_483680,RI_chr4_486609_487126 chr4 - chr4_481478_482130 chr4_481674_482130 chr4_482131_482954;chr4_481340_481477 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.88 97.73 100.00 100.00 94.74 100.00 100.00 92.86 100.00 100.00 100.00 100.00 96.88 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 94.12 97.56 96.00 100.00 100.00 95.45 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG3680,Pka-R1 chr3L + chr3L_20804551_20804623 chr3L_20804550_20804551;chr3L_20804623_20804624 chr3L_20804081_20804550;chr3L_20804624_20805297 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.69 0.00 0.00 0.00 2.56 0.00 0.00 9.52 8.20 0.00 2.04 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Caki,I_chr3R_17645303_17645375 chr3R - chr3R_17644846_17645375 chr3R_17644845_17644846;chr3R_17645375_17645376 chr3R_17644740_17644845;chr3R_17645376_17645475 9.62 6.49 11.34 0.00 14.93 9.38 9.02 9.93 9.64 15.15 5.06 11.92 14.93 12.50 8.16 21.55 7.89 5.43 12.22 5.11 6.85 26.03 5.26 9.09 4.62 6.49 4.44 8.33 25.86 5.41 9.30 18.18 15.56 11.11 9.80 9.38 6.40 8.00 6.12 21.57 0.00 10.84 11.67 12.09 6.82 11.86 11.11 16.67 9.33 13.73 11.83 11.36 9.52 4.44 12.12 9.62 8.96 16.22 N jcn_only_AA CG7203,LKR,I_chr2L_7795654_7795717 chr2L - chr2L_7794769_7795509 chr2L_7795446_7795509 chr2L_7795510_7795653;chr2L_7794592_7794768 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.43 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CycG,I_chr3R_27425071_27425214,RE_chr3R_27427953_27436598 chr3R - chr3R_27425071_27426110 chr3R_27425070_27425071;chr3R_27426110_27426111 chr3R_27424971_27425070;chr3R_27426111_27426325 0.00 0.00 0.00 0.15 0.00 0.00 0.12 0.14 0.13 0.00 0.00 0.18 0.00 0.18 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.21 0.60 0.36 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.17 0.00 0.00 0.00 0.00 0.00 0.22 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor Cdep,I_chr3R_749200_749265 chr3R + chr3R_749200_749265 chr3R_749200_749253 chr3R_749100_749199;chr3R_749266_749365 100.00 100.00 100.00 97.37 100.00 95.24 100.00 97.73 100.00 100.00 94.12 97.62 100.00 100.00 100.00 98.04 100.00 96.67 92.86 100.00 95.00 95.65 100.00 96.55 95.24 100.00 97.06 100.00 100.00 100.00 96.77 100.00 97.06 100.00 100.00 95.83 100.00 100.00 100.00 97.87 100.00 97.87 100.00 100.00 100.00 100.00 100.00 95.00 100.00 100.00 97.50 100.00 100.00 100.00 96.55 100.00 100.00 100.00 K intron_retention CG8929 chr2R + chr2R_16214899_16214948 chr2R_16214898_16214899;chr2R_16214948_16214949 chr2R_16214792_16214898;chr2R_16214949_16215068 100.00 90.91 100.00 94.44 NA 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 92.31 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 90.91 91.67 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 K intron_retention sbr,RI_chrX_10731248_10731484 chrX - chrX_10728731_10728913 chrX_10728730_10728731;chrX_10728913_10728914 chrX_10728501_10728730;chrX_10728914_10728950 18.57 21.05 23.68 21.15 7.14 14.29 32.76 18.57 13.04 10.00 19.44 15.79 15.38 17.50 30.00 16.95 14.63 14.29 26.83 19.23 26.09 4.08 11.32 15.56 25.00 21.05 23.26 31.03 13.79 7.41 26.98 22.73 6.25 22.06 28.57 24.24 10.26 15.38 15.38 20.00 20.00 22.22 19.35 11.76 10.71 23.33 17.14 20.69 18.57 20.00 10.42 16.67 14.81 18.52 22.50 26.67 17.07 12.20 K multi_cassette CG11266,RI_chr2L_7033019_7033182,RI_chr2L_7033019_7034180,RI_chr2L_7033019_7034764,I_chr2L_7034274_7034764,I_chr2L_7034274_7035406,RI_chr2L_7034911_7035074,I_chr2L_7051093_7051366 chr2L + chr2L_7033019_7035406 chr2L_7033019_7034198;chr2L_7034274_7034483;chr2L_7034694_7034764;chr2L_7034913_7035406 chr2L_7034199_7034273;chr2L_7034484_7034693;chr2L_7034765_7034912 chr2L_7032919_7033018;chr2L_7035407_7035506 7.47 4.88 11.54 2.38 4.35 10.53 9.09 21.05 11.27 4.44 10.53 15.25 28.00 21.43 10.00 23.08 16.67 6.90 13.64 9.33 10.53 2.90 9.76 6.82 2.22 0.00 5.56 3.33 3.90 5.13 27.27 6.12 2.41 20.00 7.32 NA 3.92 6.25 8.89 7.00 3.61 8.86 21.05 10.81 1.98 6.10 4.65 7.63 17.31 5.56 8.33 8.57 0.00 6.25 23.81 8.11 2.94 5.97 K intron_retention CG1161,I_chr3R_1182079_1182146 chr3R + chr3R_1181959_1182146 chr3R_1181958_1181959;chr3R_1182146_1182147 chr3R_1181906_1181958;chr3R_1182147_1182246 100.00 100.00 93.75 100.00 100.00 100.00 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 NA 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 NA NA 100.00 NA 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 K alternative_donor Arp14D,RE_chrX_16445264_16446372 chrX - chrX_16443182_16443249;chrX_16443182_16443251 chrX_16443182_16443253 chrX_16442302_16443181;chrX_16443254_16443445 0.78 0.00 1.41 0.99 0.00 3.28 1.09 0.00 2.74 0.00 5.56 0.88 0.00 0.00 1.39 0.00 1.72 1.33 1.49 0.00 1.89 1.96 2.78 2.56 NA 1.49 0.00 0.00 0.00 0.00 1.06 0.00 0.00 0.00 0.00 0.00 2.86 4.17 0.00 0.78 1.12 0.79 0.00 NA 1.19 0.00 7.50 0.00 0.74 0.00 2.63 0.00 0.00 0.00 1.15 0.00 2.44 1.39 K intron_retention I_chr3R_17177101_17200781,mod(mdg4),I_chr3R_17181974_17182126,RI_chr3R_17182422_17182532,RI_chr3R_17183087_17183245,RI_chr3R_17183087_17183726,I_chr3R_17183481_17200781,I_chr3R_17183927_17184513,I_chr3R_17183927_17185306,RI_chr3R_17184319_17184513,I_chr3R_17184319_17185084,I_chr3R_17184319_17185284,noncoding_18168,RI_chr3R_17184792_17185306,F_chr3R_17187010_17200781,F_chr3R_17187861_17200781,RI_chr3R_17189607_17189988,I_chr3R_17190098_17190207,F_chr3R_17192467_17200781,F_chr3R_17193961_17200781,F_chr3R_17194785_17200781,F_chr3R_17195968_17200781,I_chr3R_17197790_17197863,RI_chr3R_17198778_17199052,RI_chr3R_17198803_17199019,RI_chr3R_17198803_17199052 chr3R - chr3R_17181974_17200781 chr3R_17181973_17181974;chr3R_17200781_17200782 chr3R_17181929_17181973;chr3R_17200782_17200881 14.29 NA NA NA NA NA NA 21.43 10.53 NA NA 11.11 NA 15.38 NA NA NA NA NA 3.85 NA NA NA 14.29 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 14.29 14.29 22.22 NA NA NA 6.67 NA 11.76 26.32 NA 14.29 NA NA NA NA NA NA 0.00 K intron_retention CG14438 chrX + chrX_6661156_6661216 chrX_6661155_6661156;chrX_6661216_6661217 chrX_6656169_6661155;chrX_6661217_6662371 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N alternative_acceptor cul-2,RI_chr2L_21657668_21657832,noncoding_4226,I_chr2L_21661637_21661945,I_chr2L_21662021_21662083 chr2L + chr2L_21656588_21658556 chr2L_21656588_21657832 chr2L_21656493_21656587;chr2L_21658557_21658854 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.57 100.00 100.00 98.28 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.21 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention sec71 chr2L + chr2L_13794629_13794895 chr2L_13794628_13794629;chr2L_13794895_13794896 chr2L_13793535_13794628;chr2L_13794896_13798821 0.00 0.00 0.00 10.64 0.00 0.00 2.13 4.17 1.49 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.33 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 5.26 NA 2.38 0.00 5.56 0.00 K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2389272_2395659 chrX_2389272_2389644;chrX_2389762_2392054;chrX_2392149_2392515;chrX_2392665_2393243;chrX_2393712_2395659 chrX_2389645_2389761;chrX_2392055_2392148;chrX_2392516_2392664;chrX_2393244_2393711 chrX_2389172_2389271;chrX_2395660_2395759 26.66 NA NA NA NA NA NA NA NA NA NA 33.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 20.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_acceptor CG10353,I_chrX_11775936_11778830,RI_chrX_11780885_11780988 chrX - chrX_11779138_11780988;chrX_11779315_11780988 chrX_11780885_11780988 chrX_11780989_11781085;chrX_11778831_11779137 75.00 100.00 50.00 100.00 NA NA 50.00 100.00 75.00 100.00 50.00 100.00 NA NA 50.00 25.00 NA 100.00 100.00 33.33 NA 66.67 100.00 50.00 50.00 NA NA 100.00 50.00 50.00 100.00 100.00 66.67 100.00 NA 100.00 100.00 NA 50.00 100.00 100.00 100.00 50.00 100.00 50.00 50.00 50.00 75.00 40.00 100.00 50.00 50.00 NA NA 100.00 100.00 50.00 66.67 K intron_retention CG5850,I_chr2L_9963013_9963451 chr2L - chr2L_9961615_9961728 chr2L_9961614_9961615;chr2L_9961728_9961729 chr2L_9961359_9961614;chr2L_9961729_9961775 29.41 33.33 16.22 39.58 40.00 41.67 24.24 45.00 29.79 38.46 25.00 20.00 17.65 34.62 29.17 37.04 26.67 28.00 31.82 19.72 23.08 65.69 43.18 37.14 25.00 37.50 39.39 39.39 36.00 28.57 19.35 26.47 26.87 33.33 37.50 21.05 34.43 26.47 46.15 29.55 27.27 26.79 29.41 40.00 18.00 24.32 35.48 26.67 20.00 22.73 37.84 34.78 19.35 29.03 36.36 35.00 26.47 23.68 K intron_retention CG16734,F_chr3R_5081035_5081083 chr3R + chr3R_5081032_5081083 chr3R_5081031_5081032;chr3R_5081083_5081084 chr3R_5080935_5081031;chr3R_5081084_5081183 5.50 NA NA 7.14 NA NA 6.25 4.76 18.18 NA NA 0.00 NA NA NA 12.50 0.00 NA NA 0.00 NA NA NA NA NA NA 7.69 NA NA NA 0.00 NA NA 10.53 NA NA NA NA NA 0.00 NA 4.17 NA NA NA 25.00 NA NA 21.05 NA NA NA NA NA NA 0.00 NA NA K jcn_only_AA RI_chr3L_19994894_19994949,CG7668,RI_chr3L_19995983_19996407 chr3L + chr3L_19996093_19996407 chr3L_19996093_19996402 chr3L_19995858_19996092;chr3L_19996408_19996507 84.95 84.62 79.55 80.60 85.42 84.62 79.38 85.06 84.56 88.46 89.47 88.37 76.19 76.00 91.38 80.00 78.38 87.10 87.10 83.08 93.33 91.67 83.58 90.91 85.19 88.68 86.27 89.47 89.29 94.00 78.38 96.30 88.10 82.35 90.32 87.88 85.37 78.79 79.41 90.00 84.85 87.18 73.68 83.93 86.21 84.62 86.49 78.05 83.10 88.89 94.23 80.70 NA 76.92 82.14 83.67 84.78 81.82 K jcn_only_AA cdi chr3R - chr3R_14875792_14875867 chr3R_14875795_14875867 chr3R_14875868_14875953;chr3R_14875539_14875791 66.55 61.29 75.00 67.31 80.77 64.86 65.00 62.26 64.38 65.00 NA 73.47 68.97 NA 67.57 77.14 56.00 NA 64.00 77.19 79.17 72.92 76.92 64.10 65.79 61.90 68.97 60.61 67.86 72.73 71.43 NA 60.00 76.47 57.58 75.00 69.39 50.00 61.76 56.82 NA 57.41 79.17 69.23 NA 52.38 47.62 NA 74.24 NA 72.46 58.33 NA NA 77.14 60.00 54.55 NA K cassette MESK2,RI_chr2R_17398771_17398908,I_chr2R_17401067_17401713 chr2R + chr2R_17389985_17398371;chr2R_17395228_17398371 chr2R_17395228_17397610,chr2R_17389985_17397610;chr2R_17397707_17398371 chr2R_17397611_17397706 chr2R_17389891_17389984;chr2R_17398372_17398565 96.77 94.74 96.77 100.00 93.10 96.67 100.00 100.00 94.03 95.83 100.00 100.00 100.00 100.00 100.00 96.77 100.00 97.14 95.83 96.77 95.83 92.96 98.15 90.91 97.06 95.65 97.73 97.78 82.50 96.67 100.00 95.24 96.30 97.67 95.83 82.93 94.12 89.80 95.52 94.34 94.44 98.18 94.44 97.22 88.89 96.77 100.00 95.24 100.00 100.00 100.00 95.00 96.00 97.22 100.00 96.77 97.78 100.00 K jcn_only_AD Ntf-2,I_chrX_20906749_20909772 chrX + chrX_20907492_20907565 chrX_20907498_20907565 chrX_20907566_20907664;chrX_20907429_20907491 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.84 100.00 100.00 99.76 99.61 100.00 99.67 100.00 99.60 100.00 100.00 100.00 100.00 100.00 99.74 100.00 100.00 99.70 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.70 100.00 99.72 100.00 100.00 100.00 100.00 100.00 99.78 100.00 99.63 99.81 100.00 99.72 100.00 99.10 100.00 100.00 99.78 100.00 99.69 K intron_retention cmet chr2L - chr2L_11267047_11267150 chr2L_11267046_11267047;chr2L_11267150_11267151 chr2L_11266982_11267046;chr2L_11267151_11268052 13.39 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 14.29 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 12.50 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA N intron_retention foi,I_chr3L_8524905_8524976 chr3L + chr3L_8523587_8523659 chr3L_8523586_8523587;chr3L_8523659_8523660 chr3L_8523525_8523586;chr3L_8523660_8524249 100.00 NA NA 100.00 NA NA NA 100.00 100.00 NA NA 100.00 NA NA 100.00 100.00 NA 29.41 100.00 100.00 NA 63.16 NA NA NA NA 100.00 NA 59.62 100.00 100.00 NA 41.67 100.00 100.00 52.63 NA NA NA 100.00 100.00 100.00 NA NA NA NA NA 65.22 100.00 NA 100.00 NA NA NA 100.00 NA NA 100.00 K mutually_exclusive B4,REI_chr2L_13509793_13534906,EI_chr2L_13513471_13534906,I_chr2L_13513474_13549131,CG15638,CG9263,I_chr2L_13547133_13549131,I_chr2L_13547162_13547692,I_chr2L_13547304_13549131 chr2L - chr2L_13509793_13534906,chr2L_13535027_13549131 chr2L_13509793_13512959,chr2L_13513474_13549131 chr2L_13534907_13535026 chr2L_13512960_13513473 chr2L_13509741_13509792;chr2L_13549132_13549231 90.67 88.89 86.36 69.23 83.33 91.18 94.12 60.87 93.42 97.18 96.00 90.00 81.25 87.50 89.47 89.74 84.62 100.00 80.00 91.11 96.67 96.90 95.06 91.49 90.00 82.61 89.29 91.18 94.29 98.00 96.77 94.74 99.61 89.36 93.75 87.50 88.89 95.45 90.62 85.71 97.87 82.35 94.44 83.33 96.72 90.00 94.03 98.43 90.74 92.11 82.61 76.47 89.29 97.67 90.00 84.62 90.67 97.83 K alternative_donor CG16936,RI_chr2R_20655101_20655166,I_chr2R_20660319_20660496 chr2R - chr2R_20655101_20655161;chr2R_20655101_20655620;chr2R_20655101_20655476 chr2R_20655101_20655166 chr2R_20655001_20655100;chr2R_20655621_20655665 0.00 1.45 0.00 0.00 0.00 0.00 0.00 0.81 0.00 1.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 14.29 0.00 0.00 0.00 5.56 0.00 0.00 0.00 0.00 0.00 0.00 3.70 3.45 0.00 0.00 1.61 0.00 2.22 8.33 0.00 0.00 1.37 0.00 0.00 0.73 0.00 0.98 1.20 2.13 0.00 1.89 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.35 0.00 0.99 K alternative_last_exon CrebB-17A,I_chrX_18261213_18269281,I_chrX_18265640_18266060,I_chrX_18265982_18266063 chrX + chrX_18266466_18269875 chrX_18266466_18267066 chrX_18269876_18271387 chrX_18267067_18267488 chrX_18266156_18266465 98.70 98.70 98.21 98.31 97.50 98.15 98.08 98.44 99.23 98.36 100.00 99.07 96.88 97.50 98.31 97.78 97.06 97.62 97.37 99.34 97.44 99.19 99.16 98.96 98.51 97.50 98.75 98.78 98.86 98.86 97.92 98.31 99.14 98.77 98.57 100.00 99.38 100.00 100.00 99.17 98.04 99.18 97.37 98.53 99.04 98.88 98.65 99.06 99.11 98.57 98.90 97.92 98.70 100.00 98.04 100.00 98.75 98.95 K alternative_acceptor Utx chr2L - chr2L_10274091_10274164 chr2L_10274106_10274164 chr2L_10274165_10274868;chr2L_10273966_10274090 41.38 42.86 35.29 46.43 63.64 50.00 39.29 45.71 46.15 NA 46.67 45.45 35.71 38.89 36.84 41.38 31.25 47.06 47.83 37.14 42.86 NA 25.93 48.00 35.71 26.32 55.00 NA 36.36 36.36 47.62 NA NA 41.46 50.00 75.00 36.36 NA 35.71 57.14 40.00 39.47 35.00 46.67 NA 35.71 50.00 25.00 44.44 25.81 50.00 35.71 NA NA 36.36 46.15 29.41 NA K jcn_only_AA shep,RI_chr3L_5163541_5194164,I_chr3L_5177084_5177314,I_chr3L_5193467_5212049 chr3L - chr3L_5155644_5156066;chr3L_5155732_5156066 chr3L_5155711_5156066 chr3L_5156067_5156229;chr3L_5155556_5155643 94.94 95.65 95.04 86.76 93.33 94.32 93.92 95.10 93.75 94.67 96.23 95.25 91.08 95.02 95.49 94.94 93.50 94.50 93.54 94.58 95.43 95.70 93.04 92.22 92.61 91.81 97.31 97.87 93.64 93.57 95.14 94.38 95.60 92.20 94.89 91.78 94.30 96.00 96.65 96.51 91.93 95.41 96.08 97.67 95.08 95.78 96.00 95.08 94.75 92.04 92.98 95.35 95.56 98.15 95.24 94.41 92.00 96.53 K intron_retention CG4774 chr3R - chr3R_21511223_21511288 chr3R_21511222_21511223;chr3R_21511288_21511289 chr3R_21510956_21511222;chr3R_21511289_21511424 0.00 0.00 2.94 0.00 0.00 0.00 2.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD kst,I_chr3L_3367008_3367514 chr3L + chr3L_3367216_3367514;chr3L_3366963_3367514;chr3L_3367008_3367514;chr3L_3366774_3367514 chr3L_3367011_3367514 chr3L_3367515_3367614 40.69 45.70 39.24 35.39 30.51 23.13 55.11 56.70 43.70 40.43 30.20 44.36 48.10 51.74 35.57 52.27 37.78 61.03 39.13 34.30 35.06 54.24 38.99 45.82 52.20 63.50 47.91 54.17 45.32 44.03 38.25 40.22 47.67 38.68 37.20 41.18 50.53 46.63 40.69 5.42 36.46 43.47 39.92 54.34 51.34 33.42 34.65 32.50 40.00 35.69 39.80 45.10 40.33 41.50 44.23 40.27 47.30 38.28 K alternative_acceptor CG11148,F_chr4_876482_880932,I_chr4_880982_881065,I_chr4_882005_882418,RI_chr4_886921_887162 chr4 - chr4_880982_881065 chr4_881008_881065 chr4_881066_881165;chr4_880961_880981 98.46 96.00 100.00 98.46 100.00 100.00 98.21 98.53 97.59 100.00 100.00 98.36 100.00 100.00 97.37 100.00 100.00 96.97 97.78 97.26 100.00 100.00 96.97 100.00 100.00 100.00 96.97 100.00 95.65 100.00 95.74 96.43 95.65 97.18 94.44 94.74 96.30 96.15 96.55 100.00 100.00 98.67 100.00 100.00 100.00 97.06 100.00 100.00 98.63 98.08 100.00 96.30 100.00 96.55 97.73 93.94 98.28 98.08 K intron_retention Ac3,I_chr2L_21635211_21637957,I_chr2L_21643253_21646594 chr2L + chr2L_21635036_21635091 chr2L_21635035_21635036;chr2L_21635091_21635092 chr2L_21634995_21635035;chr2L_21635092_21635210 48.53 NA NA NA NA NA 76.92 NA 47.06 NA NA NA NA NA NA 45.45 NA NA NA 38.46 NA 60.00 57.14 NA 54.55 NA 66.67 NA 86.67 NA 28.57 NA NA 36.36 NA NA 26.67 46.15 NA 17.65 NA 30.77 NA 70.59 NA 20.00 NA 60.00 53.33 NA NA 50.00 NA NA NA NA NA NA K intron_retention CG14614,REI_chrX_21856047_21856229,RI_chrX_21856896_21857109 chrX - chrX_21855265_21855326 chrX_21855264_21855265;chrX_21855326_21855327 chrX_21853919_21855264;chrX_21855327_21855508 0.00 0.00 0.00 0.81 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.76 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Hsc70-5 chr2R - chr2R_10140998_10141057 chr2R_10140997_10140998;chr2R_10141057_10141058 chr2R_10140857_10140997;chr2R_10141058_10142162 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.12 0.00 0.00 0.00 0.00 0.00 0.45 0.00 0.00 0.00 0.00 0.00 0.00 0.40 0.00 0.00 0.00 0.50 0.74 0.66 1.04 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.11 0.00 0.00 0.32 0.00 0.00 0.00 0.00 0.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG9328 chr2L + chr2L_20813358_20813432 chr2L_20813357_20813358;chr2L_20813432_20813433 chr2L_20813156_20813357;chr2L_20813433_20814050 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.40 0.36 0.00 0.00 0.41 0.00 0.00 0.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.76 1.48 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.64 0.00 0.00 0.00 0.00 0.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.72 0.00 0.00 0.00 1.51 0.00 0.00 0.00 K jcn_only_AD CG1646,I_chr3R_24640561_24640869,I_chr3R_24641816_24641874 chr3R + chr3R_24639729_24640869 chr3R_24640561_24640869 chr3R_24640870_24640969;chr3R_24639603_24639728 0.62 0.00 0.00 0.00 0.00 0.00 0.62 0.53 0.29 3.70 0.00 0.33 1.06 0.00 0.00 0.00 0.00 0.74 0.00 0.32 0.00 2.27 1.75 0.83 4.11 1.10 3.14 1.46 1.73 1.09 0.00 0.78 0.53 0.50 0.75 6.67 2.54 0.44 1.59 1.61 0.89 0.00 0.00 1.95 0.00 1.76 0.49 0.00 0.00 2.35 1.52 2.00 0.74 0.83 0.61 1.06 1.06 0.00 K intron_retention CG13567,I_chr2R_19932706_19933121 chr2R - chr2R_19924438_19924497 chr2R_19924437_19924438;chr2R_19924497_19924498 chr2R_19924206_19924437;chr2R_19924498_19924663 0.00 0.00 NA 5.41 NA NA 8.00 0.00 0.00 NA 0.00 6.25 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 6.45 NA NA 0.00 0.00 NA NA 7.41 0.00 NA 0.00 NA 0.00 0.00 NA 3.85 NA NA NA 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 3.23 NA K mutually_exclusive CRMP,I_chr3R_1401648_1403314 chr3R + chr3R_1401648_1402757,chr3R_1402982_1403314 chr3R_1401648_1401896,chr3R_1402136_1403314 chr3R_1402758_1402981 chr3R_1401897_1402135 chr3R_1401548_1401647;chr3R_1403315_1403414 20.00 16.67 40.00 5.88 NA NA 20.00 16.67 16.67 61.54 NA NA 25.00 NA NA NA 20.00 NA NA 10.00 NA 16.67 46.15 12.50 40.00 20.00 12.50 NA NA 16.67 33.33 25.00 25.00 NA 16.67 40.00 16.67 16.67 28.57 14.29 33.33 16.67 NA NA 12.50 28.57 NA 20.00 11.11 11.11 25.00 37.50 16.67 25.00 40.00 22.22 25.00 NA N intron_retention Trc8 chr3R - chr3R_25325222_25326440 chr3R_25325221_25325222;chr3R_25326440_25326441 chr3R_25325094_25325221;chr3R_25326441_25326615 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 77.27 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor vsg,I_chr3L_9707724_9708265 chr3L + chr3L_9707496_9707605 chr3L_9707500_9707605 chr3L_9707606_9707723;chr3L_9707406_9707495 93.00 93.27 93.64 94.59 91.49 93.71 94.35 92.44 94.08 92.16 94.57 92.14 93.84 89.94 90.87 93.52 92.73 94.57 92.61 92.04 95.20 92.92 91.25 93.55 92.75 90.37 95.24 92.45 90.79 92.16 93.81 91.23 91.45 93.68 90.00 90.38 94.62 96.49 94.81 90.91 92.66 92.58 92.06 95.18 93.26 92.47 93.55 89.33 94.39 95.51 93.33 96.77 91.67 96.88 91.19 93.00 95.35 93.97 K intron_retention Lasp,I_chr3L_16671761_16673911,R_chr3L_16672970_16673911,RI_chr3L_16674471_16704042 chr3L - chr3L_16673033_16673911 chr3L_16673032_16673033;chr3L_16673911_16673912 chr3L_16671908_16673032;chr3L_16673912_16674011 1.37 0.93 0.95 1.32 1.05 2.91 3.56 2.24 2.01 0.00 1.44 2.19 1.62 2.40 1.47 2.15 2.45 1.64 1.90 1.61 2.22 1.59 1.19 1.87 1.30 1.86 1.46 2.10 0.73 0.85 1.12 0.00 0.20 1.14 0.80 0.68 0.87 1.48 0.48 1.16 0.29 1.98 0.00 0.44 0.00 0.57 1.62 0.23 1.69 1.43 1.37 0.00 0.00 2.38 1.47 1.04 1.67 0.16 K intron_retention Fmr1,I_chr3R_5934794_5935245,I_chr3R_5934801_5935537 chr3R - chr3R_5929325_5929394 chr3R_5929324_5929325;chr3R_5929394_5929395 chr3R_5927298_5929324;chr3R_5929395_5929469 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.89 0.73 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.29 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention isopeptidase-T-3 chr2R + chr2R_15559747_15559798 chr2R_15559746_15559747;chr2R_15559798_15559799 chr2R_15559411_15559746;chr2R_15559799_15560102 17.45 19.05 20.00 24.24 14.29 NA 33.33 23.33 27.27 NA NA 16.13 33.33 NA NA 26.32 NA 14.29 19.05 11.43 0.00 0.00 0.00 NA 14.29 16.67 21.43 38.46 11.76 6.25 13.79 33.33 3.77 33.33 17.39 13.33 6.25 14.29 6.25 15.38 16.67 24.14 NA 18.18 16.00 17.50 29.41 25.00 29.17 30.77 11.11 NA NA 18.75 13.04 20.00 NA 17.65 K alternative_donor bowl,RI_chr2L_3772695_3773616 chr2L + chr2L_3771785_3772460;chr2L_3771755_3772460 chr2L_3771874_3772460 chr2L_3772461_3772694;chr2L_3771707_3771754 18.18 NA 20.00 22.22 NA NA 27.27 22.22 11.11 NA NA NA NA 14.29 NA 14.29 NA NA NA 18.18 NA 25.00 12.50 NA 40.00 NA NA 42.86 NA 14.29 NA NA 16.67 18.18 NA NA 33.33 NA NA 30.00 NA 12.50 NA NA NA NA NA NA 18.18 NA NA NA NA NA 16.67 NA NA 14.29 K cassette PMCA,I_chr4_371836_372509,I_chr4_373671_374568,I_chr4_376108_379519 chr4 - chr4_371836_372509 chr4_371836_372211;chr4_372454_372509 chr4_372212_372453 chr4_371736_371835;chr4_372510_372609 100.00 100.00 98.68 95.65 100.00 100.00 99.43 100.00 100.00 100.00 100.00 97.92 100.00 100.00 100.00 99.38 98.92 98.39 100.00 99.24 100.00 98.21 100.00 100.00 97.50 98.00 98.68 96.00 100.00 100.00 99.14 100.00 100.00 100.00 100.00 94.74 97.73 100.00 100.00 100.00 100.00 100.00 100.00 98.82 100.00 100.00 100.00 100.00 97.80 96.88 100.00 100.00 100.00 100.00 100.00 96.30 96.77 100.00 K cassette Nop60B,RI_chr2R_20063248_20063455,I_chr2R_20063248_20063949,F_chr2R_20073291_20073744 chr2R + chr2R_20063248_20063949 chr2R_20063248_20063455;chr2R_20063715_20063949 chr2R_20063456_20063714 chr2R_20063148_20063247;chr2R_20063950_20064049 100.00 100.00 100.00 98.87 100.00 100.00 99.69 99.72 99.69 100.00 99.57 100.00 100.00 100.00 99.67 100.00 100.00 99.62 99.59 99.58 100.00 99.77 99.84 99.82 100.00 100.00 100.00 100.00 100.00 100.00 99.62 100.00 99.72 100.00 100.00 99.68 100.00 99.82 99.86 100.00 99.57 100.00 99.50 99.73 99.71 100.00 100.00 99.58 99.83 99.81 100.00 99.65 99.86 100.00 100.00 100.00 100.00 99.68 K jcn_only_AD RpL15 chr3LHet + chr3LHet_2397859_2398127;chr3LHet_2397925_2398127;chr3LHet_2397992_2398127;chr3LHet_2398060_2398127;chr3LHet_2397841_2398127;chr3LHet_2398002_2398127;chr3LHet_2397820_2398127;chr3LHet_2398053_2398127 chr3LHet_2398018_2398127 chr3LHet_2398128_2398454;chr3LHet_2397802_2397819 2.08 10.81 1.39 0.54 6.25 4.35 7.69 0.81 4.23 3.12 2.86 1.75 2.38 9.38 1.54 3.92 0.00 5.45 0.74 1.11 2.56 0.00 14.29 4.35 22.73 4.26 18.52 1.29 3.29 1.79 0.00 0.93 0.00 1.43 0.00 5.81 8.00 NA 17.39 0.00 1.10 1.48 0.00 0.16 1.04 0.95 4.55 0.32 1.22 22.22 7.69 13.04 0.24 8.70 1.71 6.25 7.14 0.12 K alternative_acceptor mthl10 chr3L - chr3L_335170_335244 chr3L_335200_335244 chr3L_335245_335300;chr3L_335101_335169 1.81 3.45 1.59 1.79 0.00 1.54 2.56 4.31 4.35 6.25 0.00 3.88 3.92 2.17 1.67 1.64 2.70 3.70 1.82 2.02 0.00 0.00 0.00 NA NA 5.00 6.25 NA 0.00 0.00 2.15 0.00 0.00 4.12 3.85 0.00 0.00 0.00 6.90 2.38 0.00 3.16 2.27 6.98 2.04 0.00 0.00 1.09 0.91 NA 4.76 0.00 NA 5.00 3.17 0.00 0.00 1.54 K intron_retention CG7324,I_chr3L_21335553_21335702,I_chr3L_21340055_21342206 chr3L - chr3L_21335237_21335293 chr3L_21335236_21335237;chr3L_21335293_21335294 chr3L_21334675_21335236;chr3L_21335294_21335552 0.00 0.00 0.00 0.93 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 1.69 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 K intron_retention CG1598 chr2R - chr2R_3426920_3426982 chr2R_3426919_3426920;chr2R_3426982_3426983 chr2R_3426824_3426919;chr2R_3426983_3427133 0.00 0.00 0.00 3.03 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.44 1.92 0.00 0.00 0.00 0.00 0.00 1.57 0.00 2.63 0.00 0.00 0.00 0.00 1.56 0.00 0.00 0.00 0.00 2.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG5706,I_chr3R_20078025_20078083 chr3R - chr3R_20078025_20078087 chr3R_20078025_20078083 chr3R_20077925_20078024;chr3R_20078088_20078118 0.00 0.00 0.00 0.00 0.00 0.00 1.19 0.00 0.84 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.47 0.00 0.00 0.00 0.00 0.98 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.89 0.00 0.00 0.00 1.82 0.00 0.00 1.64 1.37 0.00 0.00 0.00 2.22 0.00 0.00 1.23 0.00 2.22 0.00 0.00 1.45 0.00 0.00 0.00 0.00 1.45 0.00 0.00 K intron_retention Keap1 chr3R - chr3R_12901109_12901224 chr3R_12901108_12901109;chr3R_12901224_12901225 chr3R_12900903_12901108;chr3R_12901225_12901907 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 NA 0.00 NA NA 0.00 0.00 NA 0.00 NA 0.00 NA 2.94 0.00 0.00 0.00 NA 0.00 6.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention RI_chrX_7172561_7252693,CG1677,I_chrX_7178792_7252693,unc-119,RI_chrX_7183298_7184274 chrX - chrX_7183712_7183777 chrX_7183711_7183712;chrX_7183777_7183778 chrX_7183539_7183711;chrX_7183778_7184428 0.00 0.00 0.00 5.56 NA 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 NA 0.00 4.35 0.00 NA 0.00 4.76 NA 0.00 0.00 6.45 0.00 0.00 0.00 5.88 NA NA NA NA NA 0.00 10.00 NA 0.00 NA 0.00 0.00 NA 0.00 NA NA NA 0.00 NA 0.00 0.00 0.00 0.00 NA NA NA NA 0.00 0.00 NA K alternative_last_exon RI_chr3R_5165997_5180143,CG33936,noncoding_15544,I_chr3R_5167726_5180143,RI_chr3R_5183458_5183705 chr3R + chr3R_5167726_5180143 chr3R_5167726_5167941 chr3R_5180144_5180805 chr3R_5167942_5168213 chr3R_5167626_5167725 91.94 92.59 89.19 95.33 90.00 93.75 97.17 98.91 97.47 90.00 95.12 98.35 96.92 97.64 90.00 98.50 95.38 95.00 95.56 94.32 80.00 71.43 92.96 91.43 87.10 95.89 80.00 56.52 91.67 93.62 88.61 71.43 70.27 97.35 91.94 93.62 44.44 68.75 55.56 91.82 86.76 91.11 97.83 92.59 79.17 95.95 86.96 95.24 98.18 85.29 93.59 94.74 85.00 72.00 94.52 82.14 66.67 91.67 K intron_retention CG3907,I_chr2R_19907866_19907906,I_chr2R_19909065_19909249,I_chr2R_19909692_19909755 chr2R - chr2R_19907845_19907906 chr2R_19907844_19907845;chr2R_19907906_19907907 chr2R_19907766_19907844;chr2R_19907907_19908006 1.04 1.12 3.33 2.98 0.00 1.32 0.71 0.52 1.04 0.00 1.32 1.32 0.00 2.22 0.00 2.94 1.23 0.00 0.00 1.27 2.27 0.00 2.44 2.35 3.85 3.81 3.92 2.70 4.00 0.00 1.61 0.00 3.33 1.91 0.00 0.00 0.00 0.00 0.00 0.88 0.00 1.42 1.33 0.00 0.00 0.00 0.00 0.00 2.17 1.92 0.95 1.47 0.00 0.00 1.80 0.00 0.00 1.61 K intron_retention glo,I_chr3R_7643675_7643727,REI_chr3R_7644679_7644932,RI_chr3R_7644683_7644880,I_chr3R_7647556_7647628 chr3R - chr3R_7643061_7643727 chr3R_7643060_7643061;chr3R_7643727_7643728 chr3R_7642916_7643060;chr3R_7643728_7643827 3.57 4.81 3.41 12.70 2.33 2.44 7.32 8.18 7.58 3.57 2.60 5.59 5.26 5.45 2.68 4.73 5.06 0.00 4.08 5.63 2.99 2.36 3.08 3.57 3.70 1.77 5.71 3.61 3.03 3.26 0.00 4.82 6.67 4.88 5.68 9.33 4.59 3.33 3.17 5.81 2.35 3.28 6.02 2.70 5.56 3.38 2.63 5.84 4.33 2.88 4.44 2.90 2.53 2.38 3.10 2.04 1.75 4.83 K alternative_donor Slh,CR_chr2L_2491440_2491508 chr2L - chr2L_2491443_2491518 chr2L_2491443_2491512 chr2L_2490733_2491442;chr2L_2491519_2491608 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 94.74 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG6805 chr2R + chr2R_12894564_12894637 chr2R_12894563_12894564;chr2R_12894637_12894638 chr2R_12894294_12894563;chr2R_12894638_12895109 80.00 77.97 82.61 84.42 80.00 73.02 87.01 84.21 76.97 63.16 72.22 85.16 53.85 84.91 78.87 87.10 85.00 87.10 82.81 84.57 64.56 56.67 80.28 79.71 84.09 87.32 79.41 78.95 78.38 77.78 87.27 80.43 82.35 82.11 69.57 85.48 73.85 80.00 75.95 76.47 80.00 79.82 83.02 71.43 77.55 86.59 75.71 91.89 85.00 68.75 78.08 70.00 83.87 80.00 82.02 74.60 79.55 82.05 K jcn_only_AA CG1407,RI_chr2R_5918919_5919093,I_chr2R_5918925_5919213,RI_chr2R_5918952_5919084,RI_chr2R_5918952_5919093 chr2R - chr2R_5918925_5919093 chr2R_5918952_5919093 chr2R_5919094_5919184;chr2R_5918852_5918924 75.83 71.43 70.73 58.50 83.91 79.37 74.80 70.16 77.48 80.95 83.33 79.37 89.53 70.13 72.00 73.94 80.00 68.38 78.23 74.77 77.32 86.11 73.96 70.09 77.78 84.91 72.32 87.50 78.79 75.47 71.90 62.50 78.38 75.56 81.63 94.00 79.67 73.20 66.67 79.02 70.00 76.82 79.22 69.00 82.22 61.63 68.48 86.36 75.83 71.29 68.48 77.01 69.57 66.67 81.34 70.00 81.74 84.62 K intron_retention Rab5,I_chr2L_2361586_2364794 chr2L - chr2L_2360570_2360632 chr2L_2360569_2360570;chr2L_2360632_2360633 chr2L_2360460_2360569;chr2L_2360633_2360801 0.00 0.00 0.00 0.29 0.00 0.00 0.00 0.00 0.00 0.00 0.66 0.21 0.50 0.00 0.00 0.27 0.00 0.00 0.40 0.27 0.00 1.86 0.27 0.28 1.02 3.14 0.55 0.00 4.71 0.00 0.00 0.00 0.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.69 0.44 0.00 0.00 0.00 0.19 0.00 0.28 0.00 0.34 0.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG31999,I_chr4_240711_240769,I_chr4_243657_244182 chr4 - chr4_244368_244443 chr4_244367_244368;chr4_244443_244444 chr4_244183_244367;chr4_244444_244512 94.12 97.83 91.84 94.81 96.97 97.62 97.26 96.33 94.83 71.43 96.00 95.15 93.85 91.23 98.28 95.18 92.16 92.31 94.59 95.54 97.14 84.09 89.74 92.45 94.12 100.00 98.28 100.00 85.71 91.11 78.26 92.86 96.97 98.00 96.15 70.83 89.66 95.83 90.91 91.67 85.00 99.03 92.98 90.24 92.86 93.48 87.10 94.87 96.92 88.89 92.59 85.71 96.43 94.44 97.14 89.47 93.18 95.65 K jcn_only_AA msps,I_chr3R_11877071_11877796 chr3R + chr3R_11885098_11885185;chr3R_11885098_11885182 chr3R_11885098_11885206 chr3R_11884965_11885097;chr3R_11885207_11885406 40.00 28.57 NA 40.00 NA NA 34.38 50.00 56.82 23.81 NA 36.36 NA NA 42.86 38.10 NA NA NA 50.00 39.13 34.21 37.68 33.33 28.00 NA 51.61 NA 40.00 50.00 NA NA 45.00 61.54 26.92 28.12 41.54 36.59 36.00 41.03 NA 50.00 NA 35.56 63.64 30.00 53.85 45.00 51.61 34.15 28.57 32.26 54.55 48.57 23.81 40.48 50.00 NA K mutually_exclusive CPTI,I_chr2R_6358255_6358734,I_chr2R_6358255_6359122,RI_chr2R_6358779_6358944,I_chr2R_6360956_6365128 chr2R - chr2R_6358255_6358944,chr2R_6359011_6359122 chr2R_6358255_6358718,chr2R_6358779_6359122 chr2R_6358945_6359010 chr2R_6358719_6358778 chr2R_6358234_6358254;chr2R_6359123_6359222 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 92.45 100.00 97.62 95.65 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.15 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor CG1407,RI_chr2R_5918919_5919093,I_chr2R_5918925_5919213,RI_chr2R_5918952_5919084,RI_chr2R_5918952_5919093 chr2R - chr2R_5918925_5919093 chr2R_5918925_5919084 chr2R_5918852_5918924;chr2R_5919094_5919184 25.00 20.83 23.53 15.49 23.08 25.00 35.29 19.61 26.53 25.00 29.41 30.00 NA 19.05 20.00 20.59 42.86 18.18 33.33 28.57 27.27 21.43 28.00 17.86 41.67 25.00 42.11 66.67 NA 30.77 24.24 NA NA 23.81 36.36 NA 33.33 24.00 25.00 15.38 36.36 24.49 25.00 21.43 NA 7.69 25.00 NA 22.92 12.50 27.59 30.00 28.57 26.32 21.74 5.56 31.82 NA K intron_retention homer chr2L - chr2L_6722431_6723192 chr2L_6722430_6722431;chr2L_6723192_6723193 chr2L_6722142_6722430;chr2L_6723193_6723254 4.88 9.09 0.00 0.00 4.55 NA 0.00 0.00 0.00 0.00 10.00 0.00 0.00 0.00 0.00 15.15 7.41 0.00 10.53 0.00 4.76 16.00 0.00 0.00 0.00 9.52 6.67 6.67 5.56 9.09 4.55 NA 12.50 2.78 5.26 15.00 5.00 6.06 2.94 7.41 NA 6.25 5.88 0.00 NA 6.25 NA NA 7.32 5.56 6.45 0.00 NA NA 0.00 0.00 6.67 NA K jcn_only_AD kst,I_chr3L_3367008_3367514 chr3L + chr3L_3367216_3367514;chr3L_3366963_3367514;chr3L_3367011_3367514;chr3L_3366774_3367514 chr3L_3367008_3367514 chr3L_3367515_3367614 0.53 1.95 0.00 0.52 0.00 0.65 0.73 1.29 0.48 0.71 0.50 0.92 0.00 0.39 0.29 0.20 0.37 0.47 0.93 0.00 0.00 0.85 1.26 1.09 0.00 1.46 0.00 1.04 1.48 0.37 0.40 0.37 0.00 0.85 0.00 1.60 0.53 0.56 0.32 0.00 1.56 0.16 1.14 0.91 0.60 0.74 0.44 1.25 0.17 0.74 1.34 1.31 0.00 1.00 0.27 1.01 0.00 0.66 K alternative_donor CG11790,CG11791 chr3R + chr3R_20876091_20876902;chr3R_20876340_20876902 chr3R_20875669_20876902 chr3R_20876903_20877278;chr3R_20875600_20875668 20.59 26.47 7.89 20.59 28.57 9.68 18.00 10.00 15.38 32.00 7.41 11.86 26.83 5.71 11.43 10.71 7.14 28.57 15.22 8.42 3.70 16.13 28.57 20.00 12.50 10.00 12.50 28.57 30.77 22.22 8.51 28.00 22.58 8.82 23.08 19.05 34.29 24.00 20.59 36.07 45.16 13.43 10.34 34.15 42.11 32.56 30.00 46.51 6.76 35.56 30.56 18.52 48.39 18.18 19.57 33.33 37.78 60.32 K alternative_acceptor CG4829,I_chrX_16717240_16717547 chrX + chrX_16717240_16717547;chrX_16717240_16717889 chrX_16717240_16717619 chrX_16717140_16717239;chrX_16717890_16718151 96.13 95.43 97.31 98.43 72.81 67.51 95.73 96.91 96.61 88.43 96.73 95.16 94.63 96.40 94.69 97.76 97.03 95.63 96.94 97.26 95.53 95.11 95.02 94.89 94.21 93.47 92.51 85.71 96.83 97.49 92.51 97.63 95.94 97.95 94.30 98.47 96.47 96.18 96.93 93.36 95.19 97.29 96.63 96.84 94.52 95.96 95.47 96.33 96.66 93.01 94.23 95.18 97.51 97.06 97.19 96.13 97.57 98.39 K alternative_acceptor CG6838,I_chr3L_22708171_22708254,I_chr3L_22709306_22709668 chr3L - chr3L_22708171_22708254 chr3L_22708190_22708254 chr3L_22708255_22708354;chr3L_22708071_22708170 98.90 97.06 97.62 100.00 97.62 100.00 98.28 98.33 99.06 100.00 100.00 97.50 97.73 100.00 98.28 100.00 100.00 100.00 100.00 98.25 100.00 100.00 97.78 95.18 98.00 100.00 98.80 96.67 96.77 100.00 97.30 100.00 98.11 98.25 100.00 100.00 98.90 98.55 98.95 98.97 100.00 97.98 100.00 97.18 98.57 100.00 98.90 97.62 96.59 100.00 98.72 100.00 100.00 98.51 98.00 100.00 97.16 100.00 K intron_retention mav,RI_chr4_645290_646129 chr4 - chr4_644240_644301 chr4_644239_644240;chr4_644301_644302 chr4_643850_644239;chr4_644302_645289 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.43 98.77 100.00 100.00 100.00 100.00 100.00 96.30 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.83 100.00 100.00 100.00 100.00 100.00 97.22 98.89 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.37 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AA CG42550 chr3R - chr3R_3826590_3826647 chr3R_3826595_3826647 chr3R_3826648_3826710;chr3R_3826527_3826589 100.00 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 NA NA 100.00 100.00 NA 100.00 97.96 NA 100.00 100.00 97.96 NA NA 100.00 100.00 NA 100.00 100.00 NA NA NA 100.00 NA NA 100.00 NA NA NA NA 100.00 100.00 NA 100.00 100.00 NA NA 100.00 100.00 NA 100.00 100.00 100.00 100.00 NA 100.00 97.06 NA 100.00 NA K intron_retention Pkc98E chr3R + chr3R_24870160_24870221 chr3R_24870159_24870160;chr3R_24870221_24870222 chr3R_24870089_24870159;chr3R_24870222_24871440 3.33 NA NA NA NA NA NA NA 6.67 NA NA NA NA NA 30.77 NA NA NA NA 0.00 NA 16.67 NA NA NA 21.43 NA NA NA NA 0.00 NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA K jcn_only_AA CycA,RE_chr3L_11825347_11826111 chr3L - chr3L_11825344_11825973 chr3L_11825347_11825973 chr3L_11825974_11826431;chr3L_11825247_11825343 85.04 88.72 81.06 84.53 92.17 87.50 88.50 88.59 81.88 84.35 83.48 84.19 84.87 85.71 85.38 87.50 90.00 87.50 83.33 86.25 86.49 84.31 85.42 85.88 86.75 84.62 85.03 70.97 88.42 87.18 85.19 91.76 83.01 81.60 85.32 86.76 80.00 84.09 81.30 79.31 84.38 85.04 86.54 78.91 82.26 84.80 83.91 87.11 86.41 80.00 89.63 86.79 79.49 82.95 87.74 84.62 75.00 85.80 K mutually_exclusive Gs1l,I_chr2L_4456517_4456723 chr2L - chr2L_4455739_4456113,chr2L_4456333_4456385 chr2L_4455739_4455856,chr2L_4456076_4456385 chr2L_4456114_4456332 chr2L_4455857_4456075 chr2L_4455221_4455738;chr2L_4456386_4456516 31.43 24.62 32.53 48.91 23.08 30.95 15.09 26.79 22.56 34.69 25.61 20.32 20.27 22.86 21.55 47.17 27.03 26.58 25.97 24.26 29.17 38.27 36.42 30.97 24.76 27.27 48.94 48.57 29.69 39.05 35.10 36.67 41.03 26.36 31.46 52.38 32.69 31.51 30.73 29.28 33.82 24.74 31.43 29.03 40.21 33.70 33.33 36.62 26.24 40.19 33.79 27.71 35.16 33.33 20.87 33.33 35.51 40.83 K intron_retention Adk3 chr3R - chr3R_6714066_6714787 chr3R_6714065_6714066;chr3R_6714787_6714788 chr3R_6713005_6714065;chr3R_6714788_6715357 0.00 NA NA 0.00 NA NA NA 0.00 10.53 NA NA 0.00 NA NA NA 0.00 NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA 0.00 NA 0.00 NA NA NA 0.00 NA NA NA 0.00 NA K alternative_donor CG4552,I_chr2L_1129503_1129818 chr2L + chr2L_1129503_1129818 chr2L_1129506_1129818 chr2L_1129819_1129918;chr2L_1129403_1129502 98.63 98.00 100.00 100.00 96.43 100.00 98.33 100.00 98.81 100.00 97.14 98.68 96.55 100.00 97.96 98.36 100.00 100.00 98.00 100.00 100.00 98.00 98.28 97.62 96.97 100.00 96.49 97.44 100.00 100.00 97.44 97.14 100.00 98.44 100.00 100.00 97.50 97.50 97.26 98.63 100.00 100.00 94.12 100.00 97.44 100.00 97.14 100.00 97.62 100.00 100.00 100.00 97.14 100.00 100.00 97.22 98.21 98.04 N alternative_donor sxc,I_chr2R_1203985_1205289,I_chr2R_1208121_1213310,I_chr2R_1213177_1213308 chr2R + chr2R_1194858_1194977;chr2R_1194919_1194977 chr2R_1194785_1194977 chr2R_1194978_1195157;chr2R_1194775_1194784 0.00 NA NA 0.00 NA NA NA 11.11 0.00 NA NA 0.00 NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 12.50 NA NA NA NA NA NA NA NA NA N alternative_donor mth chr3L - chr3L_345886_346102 chr3L_345886_346098 chr3L_345375_345885;chr3L_346103_346245 28.96 NA NA NA NA NA 40.00 NA 26.67 NA NA NA NA NA NA 31.25 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 23.08 NA NA NA NA NA NA NA NA NA K intron_retention CG12034 chr3L + chr3L_3219345_3219430 chr3L_3219344_3219345;chr3L_3219430_3219431 chr3L_3219092_3219344;chr3L_3219431_3220938 5.26 9.52 7.14 8.33 0.00 0.00 0.00 6.06 11.43 NA 11.76 10.26 0.00 0.00 6.06 0.00 0.00 0.00 10.71 8.51 NA 26.67 0.00 0.00 30.77 33.33 16.67 NA 5.26 8.33 3.57 0.00 2.86 0.00 5.26 16.67 8.00 11.11 11.11 0.00 10.53 0.00 NA 5.26 0.00 2.63 12.50 0.00 10.26 8.00 7.41 NA 0.00 0.00 4.35 0.00 0.00 2.38 K jcn_only_AA RI_chr2R_12912984_12913058,RhoGEF2 chr2R + chr2R_12922514_12922850;chr2R_12922514_12923159 chr2R_12922514_12923162 chr2R_12922340_12922513;chr2R_12923163_12923912 0.00 0.00 0.00 0.00 0.00 6.45 0.00 0.00 0.00 0.00 NA 1.69 0.00 0.00 0.00 0.00 2.44 0.00 0.00 2.00 NA 1.12 0.00 0.00 0.00 0.00 2.44 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 2.33 0.00 0.00 1.02 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.16 0.00 0.00 1.67 4.55 0.00 NA 0.00 NA 0.00 2.44 K intron_retention Reps,I_chr2L_11105525_11105656 chr2L - chr2L_11106012_11106066 chr2L_11106011_11106012;chr2L_11106066_11106067 chr2L_11105657_11106011;chr2L_11106067_11106618 0.00 0.00 0.00 5.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 9.52 3.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.27 0.00 0.00 NA 0.00 0.00 0.00 0.00 K intron_retention CG11376,I_chr2L_100704_100835 chr2L + chr2L_99347_99658 chr2L_99346_99347;chr2L_99658_99659 chr2L_98527_99346;chr2L_99659_99723 100.00 100.00 100.00 95.24 NA NA 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 88.24 100.00 100.00 100.00 100.00 NA 100.00 93.75 100.00 100.00 100.00 100.00 NA NA 96.15 100.00 93.75 NA NA 88.89 100.00 100.00 100.00 100.00 100.00 NA 100.00 NA 100.00 100.00 NA 100.00 100.00 NA NA 100.00 NA 100.00 100.00 K jcn_only_AD Fas1,E_chr3R_12458491_12460799,I_chr3R_12458491_12460807,I_chr3R_12460976_12461267 chr3R + chr3R_12460105_12461267;chr3R_12460817_12461267 chr3R_12458491_12461267 chr3R_12461268_12461367 100.00 NA 90.48 NA 100.00 NA NA NA 97.06 NA NA NA NA NA NA NA NA NA NA 97.30 NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA 100.00 NA 100.00 NA NA NA NA NA NA 100.00 NA NA NA NA NA 100.00 NA NA NA K alternative_acceptor Pka-R2,I_chr2R_5911755_5913333,I_chr2R_5911755_5913354,I_chr2R_5911803_5913333 chr2R - chr2R_5911708_5913333;chr2R_5911755_5913333 chr2R_5911803_5913333 chr2R_5913334_5913352;chr2R_5911703_5911707 50.00 18.18 45.45 55.56 60.00 50.00 57.14 40.00 54.55 28.57 38.46 53.85 71.43 66.67 53.33 52.94 41.67 66.67 40.00 50.00 50.00 50.00 50.00 NA NA 85.71 62.50 NA NA 50.00 47.37 NA NA 58.82 50.00 71.43 38.46 NA 75.00 28.57 NA 52.38 54.55 38.46 NA NA NA 30.00 60.87 NA 50.00 42.86 NA NA 64.29 NA NA NA K jcn_only_AA CG5261,I_chr2L_7428611_7428877 chr2L + chr2L_7428680_7428778;chr2L_7428680_7428877 chr2L_7428680_7428925 chr2L_7428612_7428679;chr2L_7428926_7428977 1.35 0.68 2.36 1.78 0.00 2.83 0.62 0.61 0.74 1.35 0.81 0.48 1.43 1.33 1.91 0.00 0.00 0.00 1.27 1.20 0.89 2.36 0.60 2.55 2.41 2.20 1.48 3.19 1.71 1.59 0.76 4.26 1.83 1.28 1.30 0.81 1.45 0.65 1.46 0.76 0.00 1.92 0.00 0.92 4.24 0.88 1.40 2.99 1.69 2.02 0.65 1.69 1.77 4.85 0.79 0.00 2.33 2.60 K intron_retention CG18094,swm chr2L + chr2L_19493383_19493665 chr2L_19493382_19493383;chr2L_19493665_19493666 chr2L_19493252_19493382;chr2L_19493666_19493957 19.52 NA NA 19.05 NA NA 19.05 14.29 25.00 NA NA 15.15 NA NA NA 15.38 36.36 NA NA 20.69 NA 20.00 15.38 NA NA NA 0.00 26.32 NA 26.09 14.29 NA 41.67 25.00 0.00 15.00 11.11 20.00 NA 25.00 33.33 19.05 NA 30.77 NA 12.50 23.53 25.00 24.14 18.75 12.50 23.53 NA NA NA NA 14.29 NA K jcn_only_AA CG17331,RI_chr2L_16731891_16731942 chr2L - chr2L_16731869_16731942 chr2L_16731891_16731942 chr2L_16731943_16732042;chr2L_16731791_16731868 0.17 0.00 0.00 0.00 0.43 0.00 0.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.46 0.33 0.24 0.00 0.00 0.55 0.21 0.47 0.00 0.23 0.80 0.00 0.48 0.40 0.00 0.34 0.00 0.46 0.00 0.00 0.65 0.00 0.41 0.37 0.17 0.44 0.98 0.70 0.54 0.00 0.87 0.00 0.89 0.23 0.00 0.44 0.66 0.00 0.82 0.18 0.00 K jcn_only_AD Rab5,I_chr2L_2361586_2364444,RI_chr2L_2361586_2364627,I_chr2L_2361586_2364794 chr2L - chr2L_2361586_2364640;chr2L_2361586_2364480;chr2L_2361586_2365060;chr2L_2361586_2364302;chr2L_2361586_2364594;chr2L_2361586_2364312;chr2L_2361586_2364889 chr2L_2361586_2364836 chr2L_2361486_2361585;chr2L_2365061_2365065 0.31 0.00 1.55 1.37 1.76 0.00 1.59 1.36 1.49 1.02 1.14 0.00 0.00 0.00 0.00 0.31 0.54 1.69 0.89 0.52 0.00 0.00 0.00 0.69 0.00 0.99 0.00 0.00 0.00 0.56 0.48 1.18 1.57 0.56 0.00 1.47 0.00 0.00 0.00 0.91 1.81 0.25 2.74 0.00 0.00 0.00 0.00 0.00 1.08 0.00 0.00 0.00 0.99 0.00 0.46 0.00 0.48 0.50 K cassette CG9795 chr3R + chr3R_147770_148952 chr3R_147770_148069;chr3R_148218_148952 chr3R_148070_148217 chr3R_147567_147769;chr3R_148953_149344 0.00 0.00 0.00 2.94 0.00 NA 4.00 0.00 0.00 4.17 NA 2.94 6.67 0.00 0.00 0.00 0.00 NA 0.00 2.50 NA 2.04 5.00 3.45 0.00 0.00 0.00 4.55 0.00 0.00 0.00 0.00 1.27 0.00 0.00 3.33 0.00 0.00 0.00 1.16 0.00 0.00 0.00 0.00 0.00 2.04 0.00 0.00 0.00 2.70 4.76 0.00 0.00 0.00 0.00 0.00 4.00 0.00 K intron_retention Trf,I_chr2L_8073126_8073167 chr2L + chr2L_8073126_8073196 chr2L_8073125_8073126;chr2L_8073196_8073197 chr2L_8073026_8073125;chr2L_8073197_8073267 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.85 0.00 0.00 0.00 10.71 0.00 2.17 4.44 0.00 0.00 0.00 2.47 0.00 0.00 1.49 0.00 0.00 0.00 0.00 5.63 1.32 0.00 5.88 0.00 0.00 0.00 0.00 2.78 1.56 0.00 0.00 1.43 0.00 0.00 0.00 0.00 1.59 0.00 0.00 1.49 0.00 0.00 0.00 2.78 0.00 0.00 0.00 0.00 0.00 1.98 K intron_retention CG31997,I_chr4_175592_176390 chr4 - chr4_175774_176390 chr4_175773_175774;chr4_176390_176391 chr4_175653_175773;chr4_176391_176490 0.00 0.00 0.00 0.53 0.00 0.00 1.53 1.20 0.27 0.00 0.00 2.80 0.00 0.00 0.00 0.68 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.76 0.00 0.00 0.00 2.63 0.00 0.00 0.00 0.00 0.00 0.35 0.00 0.00 0.00 0.00 0.00 1.12 0.00 0.00 0.00 1.25 0.00 0.00 0.00 2.04 0.00 0.77 2.26 0.00 0.00 0.87 0.00 0.79 1.92 0.00 K alternative_donor RhoGAPp190,I_chrX_17544272_17544863,I_chrX_17546225_17546531 chrX - chrX_17536864_17537055 chrX_17536864_17537046 chrX_17536811_17536863;chrX_17537056_17537280 94.28 94.12 89.47 100.00 100.00 93.33 94.12 93.75 96.77 100.00 92.31 96.55 100.00 91.67 92.86 100.00 90.91 90.91 100.00 93.75 100.00 95.45 96.30 94.74 NA 100.00 92.31 88.89 93.75 100.00 100.00 100.00 95.65 90.00 91.67 100.00 100.00 100.00 100.00 87.88 94.74 93.75 92.86 93.75 94.44 92.86 94.12 92.31 96.30 100.00 95.24 92.31 88.89 90.00 100.00 90.00 100.00 93.75 K cassette CG1021,I_chr3R_2217711_2231099,I_chr3R_2217711_2231390,RI_chr3R_2217711_2231463,I_chr3R_2217742_2219453,I_chr3R_2218465_2231390,RI_chr3R_2218465_2231463,I_chr3R_2218682_2231463,I_chr3R_2219634_2231390,I_chr3R_2231383_2231463 chr3R - chr3R_2218465_2231463;chr3R_2217711_2231099;chr3R_2217711_2231463;chr3R_2218682_2231463 chr3R_2217711_2219453,chr3R_2218682_2219453,chr3R_2218465_2219453;chr3R_2219634_2231099,chr3R_2219634_2231463 chr3R_2219454_2219633 chr3R_2217642_2217710;chr3R_2231464_2231490 84.00 90.00 89.29 88.24 85.71 92.31 80.00 91.67 85.42 85.71 85.71 75.56 82.35 90.00 92.31 74.29 94.74 81.82 84.62 87.30 92.00 77.01 84.75 92.50 87.10 75.00 79.25 76.47 72.22 80.00 84.62 73.33 61.54 80.85 85.71 90.91 77.78 88.24 84.09 76.47 75.00 80.33 88.89 81.25 66.04 78.00 89.74 72.62 81.25 86.67 84.00 84.00 72.58 75.00 75.68 90.62 80.65 86.73 N cassette Dscam,F_chr2R_3219886_3228832,F_chr2R_3226043_3235353,F_chr2R_3227948_3235353,F_chr2R_3228738_3235353,FI_chr2R_3229124_3235353,FI_chr2R_3236481_3242386,I_chr2R_3244812_3249222,FI_chr2R_3249373_3251385,FI_chr2R_3251554_3255892 chr2R - chr2R_3219886_3235353;chr2R_3232857_3235353 chr2R_3232857_3232989,chr2R_3219886_3232989;chr2R_3233281_3235353 chr2R_3232990_3233280 chr2R_3219786_3219885;chr2R_3235354_3235453 100.00 61.11 65.00 41.67 100.00 100.00 63.64 58.82 100.00 100.00 100.00 100.00 50.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 21.05 100.00 100.00 100.00 100.00 100.00 100.00 40.00 100.00 100.00 100.00 40.74 100.00 100.00 100.00 100.00 100.00 100.00 61.29 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 75.00 100.00 55.56 100.00 100.00 NA 69.23 50.00 100.00 100.00 K intron_retention lt,I_chr2L_22817840_22817968,RI_chr2L_22820498_22823377,RI_chr2L_22823579_22823640,I_chr2L_22831575_22832085,I_chr2L_22832038_22832092,RI_chr2L_22832567_22832623 chr2L + chr2L_22820498_22831505 chr2L_22820497_22820498;chr2L_22831505_22831506 chr2L_22820398_22820497;chr2L_22831506_22831546 2.63 4.35 4.84 17.95 0.00 1.89 6.60 6.82 6.56 0.00 8.70 4.65 0.00 7.27 6.38 7.22 6.06 0.00 2.38 2.25 0.00 6.12 4.92 6.12 6.90 0.00 4.76 22.73 11.54 0.00 0.00 0.00 2.00 3.25 3.92 2.63 0.00 0.00 2.70 2.90 0.00 4.63 2.99 0.00 0.00 0.00 0.00 6.02 3.40 0.00 2.74 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor ird5,CG10185 chr3R - chr3R_11873877_11873963 chr3R_11873902_11873963 chr3R_11873964_11874533;chr3R_11873080_11873876 92.31 90.00 92.31 100.00 100.00 70.00 84.21 95.00 96.00 NA 100.00 93.33 90.91 87.50 91.67 93.33 100.00 100.00 91.67 92.31 81.82 100.00 91.67 88.89 NA 100.00 100.00 NA 77.78 NA 92.31 90.91 88.89 95.00 100.00 100.00 81.82 90.00 100.00 100.00 87.50 95.83 83.33 100.00 91.67 92.31 100.00 83.33 88.46 90.00 91.67 NA 100.00 87.50 100.00 100.00 90.91 94.74 K jcn_only_AA shep,RI_chr3L_5163541_5194164,I_chr3L_5177084_5177314,I_chr3L_5193467_5212049 chr3L - chr3L_5155732_5156066;chr3L_5155711_5156066 chr3L_5155644_5156066 chr3L_5156067_5156229;chr3L_5155556_5155643 0.00 0.00 0.00 0.00 0.61 0.00 0.26 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.35 0.00 0.19 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.49 0.00 0.00 0.26 0.00 0.00 0.00 0.88 0.41 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Nup153,I_chrX_16495232_16495296 chrX + chrX_16501033_16501965 chrX_16501032_16501033;chrX_16501965_16501966 chrX_16500895_16501032;chrX_16501966_16502033 2.15 3.80 1.56 4.00 0.00 0.00 5.26 3.66 3.12 0.00 3.39 2.94 4.44 3.57 0.00 4.92 4.88 0.00 5.66 1.25 3.92 2.15 4.44 3.77 2.50 0.00 5.61 4.60 1.00 1.48 0.00 0.00 2.44 4.60 2.22 3.88 0.00 2.90 1.32 0.46 0.76 3.01 0.00 1.90 0.48 1.49 1.72 1.11 3.54 0.00 4.63 1.82 2.04 1.60 2.94 1.75 3.42 1.14 K intron_retention Mtor chr2R + chr2R_7747377_7747434 chr2R_7747376_7747377;chr2R_7747434_7747435 chr2R_7747045_7747376;chr2R_7747435_7747568 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.64 0.00 0.00 0.00 0.00 0.00 3.95 4.35 0.00 0.00 0.00 1.20 0.00 0.00 0.00 0.00 0.00 0.00 0.58 2.73 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG10080 chr2R + chr2R_17517589_17517991 chr2R_17517588_17517589;chr2R_17517991_17517992 chr2R_17517568_17517588;chr2R_17517992_17518052 95.99 92.86 100.00 100.00 88.89 93.33 88.24 91.67 95.00 100.00 NA 95.24 90.00 92.86 100.00 91.67 90.00 100.00 90.00 100.00 91.67 88.89 95.24 93.75 100.00 100.00 93.33 100.00 96.15 100.00 100.00 96.15 96.15 88.89 93.33 100.00 94.74 100.00 100.00 100.00 100.00 96.15 100.00 94.74 95.83 100.00 93.33 97.22 95.24 94.44 100.00 91.67 100.00 93.33 100.00 100.00 93.33 100.00 K alternative_acceptor Tif-IA,RI_chr2L_22250854_22257652 chr2L + chr2L_22253333_22253424;chr2L_22253333_22253386 chr2L_22253333_22253421 chr2L_22253256_22253332;chr2L_22253425_22253685 59.14 55.70 54.29 54.17 48.57 57.38 63.36 59.87 61.94 54.55 62.86 62.04 60.00 56.41 60.49 58.79 55.38 61.36 57.73 60.75 56.82 59.38 59.14 57.14 56.52 54.55 60.00 55.56 53.85 56.52 63.56 62.16 53.66 62.89 60.87 57.41 61.11 60.94 57.14 60.00 54.39 60.31 60.53 61.97 57.14 61.63 56.52 58.49 59.73 60.56 57.89 62.30 54.55 61.36 56.32 59.42 60.26 50.75 K intron_retention Mgat1 chr2R - chr2R_16448259_16448318 chr2R_16448258_16448259;chr2R_16448318_16448319 chr2R_16448154_16448258;chr2R_16448319_16448749 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.45 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 8.70 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 K intron_retention foxo,RI_chr3R_9883151_9883462,I_chr3R_9907161_9907218 chr3R + chr3R_9882747_9883462 chr3R_9882746_9882747;chr3R_9883462_9883463 chr3R_9882717_9882746;chr3R_9883463_9883562 90.91 NA NA 90.91 NA NA 90.91 92.86 96.00 NA NA 68.18 100.00 90.00 NA 77.78 86.67 80.00 90.91 100.00 NA NA 87.50 NA NA NA NA NA NA NA NA NA NA 100.00 NA NA 88.89 NA NA NA NA 93.33 NA NA NA NA NA NA 78.57 NA NA NA NA NA 100.00 NA NA NA K jcn_only_AA tefu,I_chr3R_11060517_11060585 chr3R - chr3R_11060517_11060585 chr3R_11060522_11060585 chr3R_11060586_11060685;chr3R_11060417_11060516 98.59 97.78 100.00 98.55 97.06 100.00 97.47 97.89 98.63 NA 100.00 98.55 100.00 100.00 100.00 98.44 95.92 100.00 100.00 100.00 100.00 100.00 97.67 98.04 100.00 100.00 93.88 NA NA 100.00 98.11 95.45 100.00 96.00 86.36 100.00 96.55 100.00 100.00 98.28 NA 99.01 100.00 NA NA 96.77 97.30 100.00 96.72 100.00 100.00 96.43 96.30 NA 97.06 96.15 97.83 100.00 K intron_retention RpS5a,I_chrX_17037805_17038646,I_chrX_17037805_17039048,I_chrX_17037805_17040830,snoRNA:Psi28S-1192d,snoRNA:Psi28S-1192c,snoRNA:Psi28S-1192b,snoRNA:Psi28S-1192a,I_chrX_17038786_17039048,snoRNA:Psi28S-2876,snoRNA:Psi18S-1854c,snoRNA:Psi28S-1135f,snoRNA:Psi18S-1854b,snoRNA:Psi28S-1135e,snoRNA:Psi18S-1854a,snoRNA:Psi28S-1135d,snoRNA:Psi28S-1135c,snoRNA:Psi28S-1135b,snoRNA:Psi28S-1135a chrX - chrX_17037805_17039048 chrX_17037804_17037805;chrX_17039048_17039049 chrX_17037705_17037804;chrX_17039049_17039148 26.79 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 5.06 60.00 NA NA NA NA NA 28.57 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 25.00 NA NA NA NA NA NA NA NA K intron_retention CG9715 chr3L + chr3L_16842873_16842934 chr3L_16842872_16842873;chr3L_16842934_16842935 chr3L_16842735_16842872;chr3L_16842935_16845499 0.00 0.00 0.00 4.00 0.00 0.00 3.92 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.20 0.00 0.00 0.00 0.00 0.00 0.00 8.51 7.55 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor CG4511,RI_chr3R_6680759_6681015 chr3R + chr3R_6680755_6681015 chr3R_6680759_6681015 chr3R_6681016_6681115;chr3R_6680659_6680754 1.01 0.95 0.83 0.55 0.00 0.83 1.40 1.99 0.74 2.00 2.02 1.60 1.49 1.12 0.64 0.79 0.91 1.10 2.94 1.01 0.00 1.27 0.93 0.00 0.00 0.78 0.90 1.27 1.20 1.28 2.01 1.18 0.76 1.62 0.00 1.43 0.83 0.00 0.90 2.05 0.00 1.56 1.10 1.14 0.00 1.82 1.43 0.95 0.43 1.11 1.04 0.00 1.72 1.52 1.65 0.98 0.81 0.75 K jcn_only_AD CG2017 chr3R - chr3R_1686127_1687891;chr3R_1686127_1688092;chr3R_1686127_1687510 chr3R_1686127_1687468 chr3R_1685454_1686126;chr3R_1688093_1688097 18.00 13.85 19.44 30.65 17.24 14.29 21.54 32.26 13.74 10.29 23.91 23.48 18.00 22.81 25.00 30.77 22.45 25.76 23.88 16.55 15.52 12.14 11.03 15.97 20.00 23.75 15.62 12.77 23.28 9.09 24.19 22.22 15.75 17.58 22.47 19.63 10.73 7.83 15.52 16.00 16.67 18.46 24.44 20.16 9.21 20.63 12.64 18.35 32.63 30.28 23.77 10.00 20.00 16.85 17.39 13.39 9.52 9.30 K intron_retention Nplp2,I_chr3L_13349726_13349896 chr3L + chr3L_13349947_13350107 chr3L_13349946_13349947;chr3L_13350107_13350108 chr3L_13349897_13349946;chr3L_13350108_13350349 98.49 98.20 98.70 98.47 98.38 98.87 97.41 98.72 98.21 97.52 99.04 98.19 98.76 97.92 98.18 98.11 98.67 98.84 98.87 97.98 99.21 99.50 98.68 97.48 98.67 98.90 96.57 94.25 98.52 97.98 98.63 98.54 98.57 99.02 98.90 98.32 96.27 98.93 98.63 98.98 96.53 99.16 98.63 97.89 99.16 98.49 98.84 99.31 98.82 98.19 98.47 95.93 97.98 98.37 98.47 98.01 98.17 98.35 K intron_retention borr chr2L - chr2L_9252351_9252634 chr2L_9252350_9252351;chr2L_9252634_9252635 chr2L_9251942_9252350;chr2L_9252635_9253116 0.00 2.99 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA 5.88 0.00 0.00 4.76 0.00 0.00 4.11 0.00 6.98 1.20 0.00 3.85 0.00 3.92 0.00 0.00 5.13 0.00 0.00 0.00 0.00 2.63 2.38 0.00 0.00 2.47 3.39 0.00 0.00 0.00 8.33 0.00 3.85 3.23 6.25 0.00 0.00 0.00 0.00 3.92 2.53 0.00 3.12 6.12 0.00 K alternative_acceptor Sin3A,RI_chr2R_8468118_8468706,I_chr2R_8473578_8480185,RI_chr2R_8479951_8480233 chr2R - chr2R_8468118_8468706 chr2R_8468136_8468706 chr2R_8468707_8468806;chr2R_8468018_8468117 81.63 81.82 88.89 80.28 77.78 88.24 43.48 88.33 85.88 86.49 70.00 82.19 88.24 77.78 82.93 74.07 82.14 89.47 81.40 75.61 74.36 87.84 71.70 82.09 89.58 72.97 86.96 83.33 61.22 69.23 80.56 86.21 75.00 86.11 78.72 91.84 85.29 68.09 91.25 86.49 77.42 81.63 82.86 75.86 60.53 74.58 76.60 69.44 86.84 85.71 84.00 70.59 82.93 70.59 75.56 81.67 80.00 73.33 K alternative_acceptor mav,RI_chr4_645290_646129 chr4 - chr4_645563_645616 chr4_645568_645616 chr4_645617_646242;chr4_645398_645562 100.00 100.00 NA 100.00 NA NA 94.12 94.44 95.45 NA NA 91.67 100.00 90.00 NA 100.00 100.00 NA 100.00 94.44 NA NA 100.00 NA NA NA NA NA NA NA 100.00 NA NA 100.00 NA NA NA NA NA 90.00 NA 100.00 100.00 90.00 NA 88.89 NA NA 100.00 NA 93.75 NA NA NA 100.00 NA NA NA K alternative_acceptor RFI_chr2L_3030576_3030666,GABPI chr2L + chr2L_3031894_3032009 chr2L_3031894_3031953 chr2L_3031000_3031893;chr2L_3032010_3032255 100.00 98.82 98.44 98.88 100.00 100.00 100.00 99.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.75 100.00 98.51 100.00 99.38 98.33 100.00 100.00 100.00 100.00 98.28 98.65 100.00 100.00 100.00 98.70 98.91 100.00 100.00 100.00 100.00 99.08 100.00 98.97 100.00 99.01 100.00 100.00 100.00 100.00 99.30 98.88 99.13 99.12 98.92 99.01 98.25 98.51 100.00 98.61 100.00 100.00 100.00 K intron_retention CG18815 chr3L + chr3L_11622699_11623566 chr3L_11622698_11622699;chr3L_11623566_11623567 chr3L_11622681_11622698;chr3L_11623567_11623845 94.74 93.75 80.00 94.87 93.75 88.89 100.00 96.67 97.14 100.00 92.86 100.00 100.00 93.75 83.33 86.21 90.00 94.44 88.89 86.00 81.25 89.47 96.00 94.74 100.00 100.00 100.00 NA 92.31 100.00 95.24 86.96 88.57 82.05 100.00 100.00 95.00 100.00 95.83 96.67 94.74 95.56 81.25 91.67 91.18 93.75 94.74 100.00 90.62 100.00 87.50 94.44 100.00 94.74 95.00 94.44 96.15 88.89 K intron_retention CG32479,CG34056,CG34057 chr3L + chr3L_891777_891834 chr3L_891776_891777;chr3L_891834_891835 chr3L_891548_891776;chr3L_891835_893534 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.15 1.19 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Eb1,I_chr2R_2642491_2642549 chr2R + chr2R_2642350_2642403 chr2R_2642349_2642350;chr2R_2642403_2642404 chr2R_2642210_2642349;chr2R_2642404_2642486 0.95 0.73 1.32 0.20 0.90 0.99 1.42 1.24 1.26 0.00 2.02 0.72 1.60 0.00 1.33 1.30 0.62 0.34 1.61 0.00 1.83 1.80 2.37 0.96 4.19 6.21 4.12 4.64 15.49 0.00 1.36 1.55 0.00 0.76 0.90 0.00 0.40 0.66 0.62 0.47 4.13 1.75 0.36 0.91 0.00 1.33 1.55 1.04 0.95 0.38 1.47 0.00 0.00 0.00 1.09 0.00 0.29 0.93 K intron_retention CG8121,RI_chr3R_5183458_5183705 chr3R + chr3R_5161562_5161621 chr3R_5161561_5161562;chr3R_5161621_5161622 chr3R_5161423_5161561;chr3R_5161622_5161751 0.00 0.00 2.38 1.47 0.00 0.00 6.90 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.11 0.00 0.00 2.38 0.00 5.26 6.90 0.00 0.00 0.00 0.00 5.00 0.00 0.00 0.00 0.00 9.76 0.00 0.00 1.27 0.00 10.34 2.53 0.00 0.83 0.00 0.00 0.00 0.00 4.00 1.64 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG17508,RI_chr2R_1496995_1497120 chr2R + chr2R_1496337_1496517;chr2R_1496341_1496517;chr2R_1496303_1496517 chr2R_1496288_1496517 chr2R_1496518_1496994;chr2R_1496153_1496287 0.00 0.00 0.00 0.00 0.00 0.00 1.46 0.48 0.00 0.00 0.00 0.84 0.00 0.00 0.00 0.40 1.47 3.41 1.18 0.48 0.00 0.00 0.00 1.92 1.30 0.79 1.02 0.00 0.00 0.00 0.00 0.00 0.00 0.45 0.00 0.00 0.00 0.00 1.61 0.00 0.00 0.00 0.88 0.00 1.39 0.00 0.00 0.00 1.13 0.00 0.81 0.00 0.00 0.00 0.79 0.00 0.00 0.00 K intron_retention KrT95D,I_chr3R_19825840_19825904 chr3R - chr3R_19825840_19825901 chr3R_19825839_19825840;chr3R_19825901_19825902 chr3R_19825740_19825839;chr3R_19825902_19826502 0.91 0.00 1.80 5.06 0.00 0.00 1.32 2.50 0.92 1.77 4.44 2.14 0.00 1.41 1.57 0.00 0.00 0.91 0.00 1.08 0.00 1.14 1.46 0.00 0.69 0.00 3.05 5.62 1.01 0.50 1.57 0.00 0.84 1.56 1.16 1.31 1.47 0.00 0.72 1.51 1.53 1.68 0.00 0.00 0.85 1.61 0.66 0.44 0.00 0.93 2.03 0.00 0.00 1.63 0.00 0.00 0.00 0.00 K intron_retention CG8735,noncoding_5214 chr2R - chr2R_4487207_4487315 chr2R_4487206_4487207;chr2R_4487315_4487316 chr2R_4486977_4487206;chr2R_4487316_4487363 0.00 0.00 7.41 0.00 NA 3.23 0.00 0.00 7.84 0.00 NA 3.28 7.41 0.00 3.85 0.00 NA 0.00 0.00 2.50 6.67 0.00 0.00 0.00 0.00 4.55 3.57 1.82 14.63 0.00 7.32 0.00 7.14 6.67 0.00 4.84 1.72 0.00 1.54 3.12 6.12 4.44 0.00 1.72 2.08 2.35 0.00 2.86 0.00 0.00 1.39 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD Klc,I_chr3L_12741779_12743062,I_chr3L_12741783_12742943,I_chr3L_12741838_12743062 chr3L - chr3L_12741783_12743132 chr3L_12741783_12743062 chr3L_12741738_12741782;chr3L_12743133_12743162 98.47 99.22 99.39 98.12 98.41 95.96 98.45 97.67 99.08 100.00 98.70 100.00 98.29 99.28 99.30 98.47 97.20 98.44 100.00 99.12 98.78 100.00 98.24 98.00 97.67 98.28 97.73 100.00 97.53 95.24 98.65 98.61 98.00 98.86 98.78 98.10 98.31 100.00 98.29 97.64 97.87 97.90 100.00 97.97 100.00 99.33 98.16 97.73 99.17 99.18 97.44 98.40 100.00 98.61 99.41 100.00 98.79 97.73 K intron_retention tra2,REFI_chr2R_10491644_10491701 chr2R - chr2R_10491629_10491701 chr2R_10491628_10491629;chr2R_10491701_10491702 chr2R_10491620_10491628;chr2R_10491702_10491801 17.65 NA 23.08 18.18 NA NA 4.55 24.00 3.85 NA NA 17.86 26.67 30.77 25.00 8.70 NA 12.50 NA 14.63 6.67 22.22 26.32 40.00 NA 19.05 53.85 42.86 NA NA 14.29 13.33 NA NA 18.75 17.65 NA NA 13.33 16.67 20.00 13.04 23.08 NA 6.25 16.67 21.05 14.29 18.52 NA 10.53 NA NA NA 14.29 14.29 17.65 14.29 K jcn_only_AD CG4389,I_chr2L_9576230_9576665 chr2L - chr2L_9576230_9576665;chr2L_9576230_9576517 chr2L_9576230_9576635 chr2L_9576130_9576229;chr2L_9576666_9576755 0.00 0.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.75 0.00 0.00 K multi_cassette CG1021,I_chr3R_2217711_2231099,I_chr3R_2217711_2231390,RI_chr3R_2217711_2231463,I_chr3R_2217742_2218601,I_chr3R_2217742_2219453,I_chr3R_2218465_2231390,RI_chr3R_2218465_2231463,I_chr3R_2218682_2231463,I_chr3R_2219634_2231390,RI_chr3R_2231206_2231270,I_chr3R_2231271_2231390,I_chr3R_2231285_2231463,I_chr3R_2231383_2231463 chr3R - chr3R_2218465_2231463 chr3R_2218465_2218601;chr3R_2218682_2219453;chr3R_2219634_2231463 chr3R_2218602_2218681;chr3R_2219454_2219633 chr3R_2218365_2218464;chr3R_2231464_2231490 75.00 NA NA NA NA NA NA 80.00 NA NA NA NA NA NA NA 60.00 NA NA NA NA NA 50.00 60.00 NA NA NA 100.00 100.00 50.00 NA 60.00 NA 75.00 100.00 75.00 NA 100.00 NA NA 80.00 50.00 80.00 NA 75.00 NA 80.00 NA 42.86 50.00 75.00 80.00 NA NA NA NA 75.00 NA 50.00 K alternative_donor Hsc70Cb chr3L + chr3L_14030212_14030577 chr3L_14030237_14030577 chr3L_14030578_14030850;chr3L_14030158_14030211 87.50 89.29 82.76 82.35 66.67 94.12 97.14 89.83 85.06 94.12 80.00 92.00 88.89 83.33 79.31 91.18 78.95 72.00 78.05 87.67 80.00 87.50 86.67 95.00 100.00 94.74 100.00 91.67 94.64 76.67 75.00 80.65 88.24 86.00 96.00 96.00 94.74 75.00 81.82 97.37 96.00 83.33 86.11 87.50 87.88 84.38 70.83 90.91 87.50 85.71 79.31 100.00 94.12 92.86 80.00 94.74 82.61 90.24 K intron_retention CG42518,F_chr2R_14055227_14055470 chr2R + chr2R_14055644_14055712 chr2R_14055643_14055644;chr2R_14055712_14055713 chr2R_14055278_14055643;chr2R_14055713_14055885 1.89 1.23 2.44 5.17 0.00 0.00 3.39 5.10 1.33 2.99 3.51 2.54 1.45 0.00 3.49 0.00 0.00 3.28 2.22 1.26 0.00 2.70 3.41 0.00 0.00 3.75 5.06 2.86 12.90 4.00 3.09 1.89 0.00 0.00 3.28 6.06 1.32 1.47 1.16 2.36 3.45 2.45 1.47 2.30 0.00 5.04 1.12 1.94 1.32 1.82 5.63 1.96 0.00 0.00 1.09 0.00 0.00 0.87 K intron_retention mud chrX + chrX_14150134_14150517 chrX_14150133_14150134;chrX_14150517_14150518 chrX_14150034_14150133;chrX_14150518_14150790 0.00 2.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 3.51 0.00 3.85 0.00 2.44 0.00 5.56 0.00 2.78 0.00 0.00 2.82 4.44 0.00 0.00 12.50 NA 8.70 11.11 0.00 0.00 0.00 2.70 0.00 3.57 2.00 0.00 3.57 0.00 2.38 0.00 0.00 2.38 0.00 0.00 2.13 2.33 0.00 2.50 0.00 6.25 3.12 4.55 0.00 4.44 0.00 0.00 K intron_retention endoA chr3R + chr3R_14732743_14732921 chr3R_14732742_14732743;chr3R_14732921_14732922 chr3R_14732332_14732742;chr3R_14732922_14734172 0.00 0.00 0.00 0.00 0.00 0.00 2.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.08 0.00 0.00 0.00 0.00 1.18 0.00 0.00 4.00 0.00 0.00 0.00 2.94 6.67 0.00 2.38 2.13 0.00 1.14 0.00 0.00 0.00 0.00 0.00 3.45 4.76 0.00 0.00 0.00 0.00 0.00 2.33 0.00 2.78 2.90 0.00 0.00 0.00 0.00 NA 5.00 0.00 0.00 0.00 K intron_retention CG31523,I_chr3R_294322_304799,RI_chr3R_298911_304354 chr3R - chr3R_294127_294185 chr3R_294126_294127;chr3R_294185_294186 chr3R_293936_294126;chr3R_294186_294321 0.00 0.00 0.28 0.34 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.20 0.00 0.00 0.59 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.83 0.00 0.37 2.41 0.00 0.83 0.00 0.00 0.00 0.00 0.18 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.33 0.37 0.00 0.00 0.32 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention I_chr3R_17846331_17846423,noncoding_18278 chr3R - chr3R_17849634_17849713 chr3R_17849633_17849634;chr3R_17849713_17849714 chr3R_17849419_17849633;chr3R_17849714_17849945 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.11 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention MB8.chr3R.pasa.66,CG1091,I_chr3R_2910029_2910096,RI_chr3R_2910490_2910686,RI_chr3R_2911041_2911135,RI_chr3R_2946518_2946663 chr3R - chr3R_2910029_2910096 chr3R_2910028_2910029;chr3R_2910096_2910097 chr3R_2909929_2910028;chr3R_2910097_2910162 100.00 92.31 100.00 92.86 90.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 90.91 100.00 92.31 100.00 NA 100.00 100.00 96.00 90.91 NA 100.00 93.33 NA NA 100.00 90.91 92.86 92.86 100.00 100.00 100.00 94.74 90.91 100.00 100.00 100.00 94.12 94.12 91.67 95.24 100.00 91.67 100.00 100.00 100.00 80.00 93.75 100.00 93.33 100.00 100.00 NA 100.00 100.00 100.00 88.89 K intron_retention pit,RI_chr3R_17861471_17861539 chr3R + chr3R_17861471_17861539 chr3R_17861470_17861471;chr3R_17861539_17861540 chr3R_17861465_17861470;chr3R_17861540_17861639 95.34 100.00 90.91 95.24 NA 100.00 92.31 95.45 89.66 NA 88.89 100.00 91.67 91.67 92.86 95.65 100.00 NA 93.33 90.00 NA 92.86 92.86 100.00 100.00 100.00 100.00 94.44 100.00 94.12 100.00 92.31 95.24 100.00 90.91 100.00 90.91 NA 100.00 85.71 100.00 100.00 NA 90.00 100.00 95.45 92.86 95.45 96.88 100.00 100.00 100.00 92.31 NA 90.91 93.75 94.74 95.83 K intron_retention CG17528,I_chr2R_706735_711443,I_chr2R_707374_711443 chr2R - chr2R_705236_705289 chr2R_705235_705236;chr2R_705289_705290 chr2R_704947_705235;chr2R_705290_705439 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.92 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.43 0.00 2.94 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG4709,RI_chr2L_9954545_9954595 chr2L + chr2L_9954535_9954595 chr2L_9954534_9954535;chr2L_9954595_9954596 chr2L_9954445_9954534;chr2L_9954596_9954601 16.91 NA NA NA NA NA NA NA 7.14 NA NA NA NA NA NA 26.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CG5991 chr3R + chr3R_19876703_19877411;chr3R_19876703_19877421 chr3R_19876703_19877425 chr3R_19876688_19876702;chr3R_19877426_19877477 0.00 NA NA 0.00 NA NA 3.23 1.85 0.00 NA NA 0.00 NA NA 0.00 0.00 0.00 NA 0.00 0.00 NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 0.00 NA 0.00 NA NA NA 0.00 4.35 0.00 0.00 NA NA 0.00 NA 0.00 0.00 NA 0.00 NA NA NA 0.00 NA NA 0.00 K jcn_only_AD osa,I_chr3R_13542657_13542834,I_chr3R_13542657_13543500,I_chr3R_13542657_13543662,I_chr3R_13542657_13543668 chr3R - chr3R_13542657_13543968;chr3R_13542657_13543500;chr3R_13542657_13543662;chr3R_13542657_13543668;chr3R_13542657_13543677 chr3R_13542657_13542834 chr3R_13542557_13542656;chr3R_13543969_13544017 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.65 0.45 0.00 1.09 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.89 0.56 0.00 0.00 0.00 0.00 1.30 0.00 0.00 0.00 0.00 2.01 0.00 1.41 0.87 0.00 0.00 1.11 0.43 0.00 0.60 0.00 0.79 0.00 0.00 3.03 3.45 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor tsh,I_chr2L_21829859_21830276 chr2L + chr2L_21829859_21833370 chr2L_21829859_21830276 chr2L_21829759_21829858;chr2L_21833371_21833470 4.26 2.00 4.44 4.44 2.94 2.94 5.41 4.62 3.53 5.88 3.23 4.92 8.00 5.26 2.27 3.77 2.86 8.33 2.38 2.94 3.45 6.45 4.62 1.72 3.57 2.44 6.38 22.73 6.67 4.44 3.33 4.35 7.69 4.48 4.88 5.00 3.39 1.67 4.00 2.94 5.26 2.94 2.86 4.44 0.00 2.50 4.17 8.82 4.71 3.12 3.37 4.26 2.94 0.00 4.26 5.26 4.35 6.25 K intron_retention CG12163,I_chr3R_1068862_1077145,RI_chr3R_1069977_1077139 chr3R - chr3R_1069977_1077145 chr3R_1069976_1069977;chr3R_1077145_1077146 chr3R_1069877_1069976;chr3R_1077146_1077239 67.86 71.43 64.52 86.36 77.78 84.62 86.21 73.08 77.19 52.38 77.78 53.33 58.33 94.12 78.38 78.95 83.33 93.75 93.33 70.83 50.00 89.19 64.29 62.50 76.47 68.18 70.59 50.00 59.38 65.38 67.86 10.53 47.92 76.47 67.86 24.49 73.08 62.07 56.25 42.86 20.00 75.00 85.00 60.00 16.13 17.86 NA 54.72 82.93 NA 74.07 65.00 29.41 NA 87.50 40.00 NA 30.00 K alternative_donor Unc-76,RI_chrX_1983640_1985001,I_chrX_2002576_2003165 chrX + chrX_1975693_1985001 chrX_1983640_1985001 chrX_1985002_1985100;chrX_1974778_1975692 0.71 0.83 0.63 0.49 0.83 0.74 1.28 0.49 0.69 0.81 0.97 1.04 1.05 0.81 0.68 0.65 0.95 0.94 0.71 1.10 0.75 0.65 0.50 0.68 0.81 0.85 1.38 6.25 1.05 0.45 0.70 0.70 0.48 0.96 0.65 0.73 0.60 0.78 0.47 0.67 0.54 0.81 0.90 0.53 0.43 0.50 0.99 0.69 0.87 0.71 0.66 0.98 0.00 0.00 0.60 0.98 0.00 0.31 K alternative_donor DMAP1,I_chr2R_16531774_16531833,I_chr2R_16532870_16532932 chr2R + chr2R_16532870_16532932 chr2R_16532874_16532932 chr2R_16532933_16533032;chr2R_16532770_16532869 96.30 95.00 94.44 95.83 94.74 100.00 94.12 100.00 100.00 100.00 100.00 96.67 100.00 92.31 94.12 93.33 100.00 93.33 93.75 96.00 100.00 100.00 96.67 96.30 100.00 93.75 92.00 95.24 100.00 94.12 92.86 100.00 95.83 100.00 100.00 92.86 91.30 100.00 100.00 92.00 95.24 90.00 91.67 92.31 95.83 96.30 96.77 100.00 100.00 97.06 96.00 100.00 95.24 100.00 100.00 96.00 100.00 100.00 K intron_retention msps,I_chr3R_11877071_11877796 chr3R + chr3R_11882514_11883015 chr3R_11882513_11882514;chr3R_11883015_11883016 chr3R_11882014_11882513;chr3R_11883016_11883111 9.52 NA 0.00 NA 0.00 NA NA 12.50 0.00 NA NA 14.29 NA NA NA 15.79 15.38 NA NA 4.08 NA 0.00 20.00 NA NA NA NA NA NA NA 10.00 NA NA 9.52 NA 3.23 14.29 NA NA NA NA 0.00 NA NA NA NA 0.00 0.00 14.29 NA 20.00 NA NA NA NA NA NA NA N jcn_only_AD Fpps chr2R - chr2R_7194465_7194765 chr2R_7194465_7194535 chr2R_7194370_7194464;chr2R_7194766_7195007 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 34.72 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor Cctgamma chr3R + chr3R_12473318_12473557;chr3R_12473479_12473557;chr3R_12473420_12473557;chr3R_12473424_12473557;chr3R_12473464_12473557 chr3R_12473409_12473557 chr3R_12473558_12473651;chr3R_12473311_12473317 0.00 3.57 4.00 0.00 4.35 0.00 2.78 0.00 1.59 0.00 0.00 3.03 5.56 4.00 7.41 3.23 4.17 0.00 0.00 0.00 0.00 0.00 0.00 3.85 7.14 5.26 3.70 0.00 0.00 0.00 3.70 0.00 0.00 2.78 0.00 7.69 0.00 4.55 4.76 0.00 10.00 2.63 0.00 0.00 0.00 5.56 0.00 0.00 0.00 4.17 0.00 0.00 0.00 0.00 3.33 0.00 0.00 0.00 K intron_retention ens,I_chr3L_4130719_4131120 chr3L - chr3L_4128974_4129650 chr3L_4128973_4128974;chr3L_4129650_4129651 chr3L_4128946_4128973;chr3L_4129651_4129788 6.28 NA NA NA NA NA 14.29 NA 9.52 NA NA 2.13 NA NA NA 6.67 NA 0.00 NA 0.00 NA NA 0.00 14.29 NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA 15.00 NA 6.67 NA NA NA NA NA 30.77 5.88 NA NA NA NA NA NA NA NA NA N jcn_only_AD Hcf,I_chr4_391984_392875 chr4 + chr4_380985_381212;chr4_380911_381212;chr4_380646_381212;chr4_380607_381212 chr4_380602_381212 chr4_381213_381632;chr4_380600_380601 0.00 NA NA 0.00 NA NA 0.00 0.00 0.00 NA NA 0.00 NA 0.00 NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA K jcn_only_AD CG2249,RI_chr2R_5937150_5937205,I_chr2R_5937410_5937470 chr2R + chr2R_5937405_5937464 chr2R_5937410_5937464 chr2R_5937465_5937533;chr2R_5937341_5937404 79.37 80.18 84.39 86.29 79.21 81.25 79.23 79.29 75.78 81.82 80.49 81.97 73.91 74.81 85.26 84.02 77.17 80.51 82.64 80.17 85.11 78.26 78.89 74.80 79.00 86.49 77.97 79.58 77.60 80.30 81.94 81.99 73.48 84.38 78.83 79.53 78.81 78.40 77.20 75.94 76.36 86.32 77.92 76.00 78.40 79.89 80.03 76.92 81.16 78.85 79.51 75.00 78.60 79.95 84.82 77.88 79.37 82.58 K alternative_donor bl,I_chr2R_16481586_16483061,mir-7 chr2R + chr2R_16493357_16493948 chr2R_16493382_16493948 chr2R_16493949_16494359;chr2R_16493187_16493356 1.64 0.78 0.91 1.19 0.98 0.89 0.76 2.45 1.92 1.49 2.60 1.96 1.23 2.42 2.17 2.29 1.98 0.81 3.23 3.36 2.22 0.71 1.84 3.00 0.89 2.26 1.37 1.49 4.04 0.93 1.85 1.64 1.82 1.64 0.85 2.50 2.33 0.81 1.79 0.57 1.83 2.06 1.10 1.96 1.48 2.50 2.21 1.55 1.17 2.17 1.07 0.84 0.90 2.23 1.26 0.59 1.13 0.62 K intron_retention Upf2,I_chrX_7969268_7969358,I_chrX_7969312_7969358 chrX - chrX_7969312_7969358 chrX_7969311_7969312;chrX_7969358_7969359 chrX_7969212_7969311;chrX_7969359_7969458 91.67 NA NA 91.67 NA 88.89 91.67 94.12 100.00 NA NA 92.86 NA NA 81.82 100.00 NA 90.00 91.67 93.33 NA 88.89 100.00 100.00 NA 91.67 100.00 NA NA NA 90.00 NA NA 100.00 NA NA NA NA NA 91.67 NA 90.91 100.00 NA NA NA NA NA 93.33 NA NA NA NA NA 90.91 NA NA NA K jcn_only_AD bbc,REI_chr2R_9379401_9381986 chr2R - chr2R_9379401_9382398 chr2R_9379401_9381755 chr2R_9379301_9379400;chr2R_9382399_9382462 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.84 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG5245,Pros25 chr3R + chr3R_8257945_8258008 chr3R_8257944_8257945;chr3R_8258008_8258009 chr3R_8257789_8257944;chr3R_8258009_8258353 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.32 0.00 0.00 0.00 0.57 0.00 0.00 0.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.19 0.00 0.00 0.00 0.00 0.00 0.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.49 0.00 0.33 0.00 0.00 0.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.25 0.00 0.00 K alternative_donor CG8080,REI_chr2R_4979159_4979234,I_chr2R_4979276_4979936 chr2R - chr2R_4979159_4979936 chr2R_4979159_4979234 chr2R_4979059_4979158;chr2R_4979937_4980036 8.33 8.70 13.33 11.11 6.67 5.56 36.36 9.52 12.50 7.69 12.50 13.33 27.78 9.09 8.70 8.33 11.11 7.14 9.52 11.76 22.22 33.33 4.76 6.67 14.29 10.00 17.65 10.00 NA 7.69 5.56 10.00 4.76 12.90 7.69 12.50 7.14 5.26 6.67 6.67 11.11 10.81 5.56 4.00 10.00 3.57 7.14 6.67 8.89 5.56 7.41 5.00 0.00 NA 6.90 5.56 7.41 3.03 K cassette bol,RI_chr3L_9117011_9118271 chr3L - chr3L_9106588_9118266;chr3L_9106588_9118271 chr3L_9106588_9116715;chr3L_9117011_9118271,chr3L_9117011_9118266 chr3L_9116716_9117010 chr3L_9106512_9106587;chr3L_9118272_9118272 100.00 NA 80.00 100.00 NA 80.00 100.00 88.89 92.31 NA 80.00 100.00 85.71 100.00 100.00 100.00 NA NA 87.50 71.43 100.00 NA 100.00 NA NA NA NA NA NA NA 80.00 NA NA 100.00 NA NA NA NA NA NA NA 90.00 100.00 NA NA NA NA NA 100.00 NA NA NA NA NA 100.00 NA NA NA K alternative_donor SD23414,CG9132,I_chrX_16693612_16694097,I_chrX_16693612_16694529,I_chrX_16696492_16696589 chrX - chrX_16693612_16694097;chrX_16693612_16696171 chrX_16693612_16694558 chrX_16693512_16693611;chrX_16696172_16696233 98.59 98.78 98.59 97.47 98.15 98.41 98.59 98.88 98.53 98.21 97.87 99.16 97.96 97.96 98.65 98.44 97.87 98.48 100.00 99.33 98.28 98.51 99.06 99.04 100.00 100.00 97.33 96.08 98.57 98.68 98.53 96.51 98.26 98.85 98.44 98.59 99.24 98.92 99.26 99.14 97.14 99.25 97.73 98.59 98.35 98.48 97.89 97.98 99.13 98.90 98.81 98.21 98.89 99.03 98.65 99.10 99.22 97.78 K intron_retention lack chr2R + chr2R_13489853_13489908 chr2R_13489852_13489853;chr2R_13489908_13489909 chr2R_13487767_13489852;chr2R_13489909_13490108 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.09 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention wds,egh,mit(1)15 chrX + chrX_2480583_2480793 chrX_2480582_2480583;chrX_2480793_2480794 chrX_2480025_2480582;chrX_2480794_2481419 0.00 0.00 0.00 2.78 4.76 0.00 0.00 6.67 5.26 NA 0.00 0.00 0.00 4.35 0.00 3.70 0.00 0.00 5.00 8.00 5.00 0.00 0.00 0.00 0.00 0.00 6.67 9.09 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 7.14 2.70 9.09 0.00 5.88 0.00 0.00 0.00 12.50 0.00 5.26 7.27 0.00 0.00 NA 0.00 0.00 0.00 0.00 7.69 0.00 K jcn_only_AA CG8632,CG8646 chr2R + chr2R_8540633_8540691 chr2R_8540633_8540686 chr2R_8540334_8540632;chr2R_8540692_8541563 96.72 93.10 96.00 94.23 NA 100.00 100.00 97.44 98.15 NA NA 96.15 NA 100.00 96.43 100.00 NA 88.89 95.65 94.92 100.00 96.43 94.74 95.12 92.86 97.44 95.56 NA 100.00 94.87 96.55 100.00 96.00 94.87 NA 100.00 94.12 97.44 89.74 98.73 100.00 100.00 100.00 100.00 100.00 97.87 96.67 96.72 96.36 95.00 100.00 100.00 90.91 100.00 96.77 100.00 NA 92.59 K intron_retention Bub3,I_chr3R_25500779_25500838 chr3R - chr3R_25500786_25500838 chr3R_25500785_25500786;chr3R_25500838_25500839 chr3R_25499716_25500785;chr3R_25500839_25500938 0.00 0.00 0.62 0.00 1.32 0.00 0.63 0.00 0.56 0.00 0.00 0.00 0.00 0.00 0.00 0.59 0.00 0.00 0.00 0.67 0.00 0.00 0.00 0.00 0.00 0.00 1.21 2.00 1.99 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.51 0.42 0.65 1.08 1.76 0.64 0.83 0.00 0.00 1.65 0.00 0.00 0.80 0.00 0.94 0.00 1.03 0.55 0.00 0.00 0.40 0.82 K jcn_only_AD Vps20 chr2R + chr2R_18496124_18496188 chr2R_18496135_18496188 chr2R_18496189_18496298;chr2R_18496038_18496123 0.45 0.00 0.00 1.05 0.00 0.00 0.00 0.46 0.23 0.73 0.00 0.72 0.00 1.06 0.00 1.03 0.00 0.00 0.00 0.18 0.00 0.65 0.60 0.38 0.00 1.54 0.52 0.45 0.52 0.00 3.17 0.00 0.69 1.04 0.62 0.00 0.85 0.00 0.49 0.00 0.79 0.29 1.79 1.56 0.85 0.68 0.85 0.00 1.13 0.00 1.35 0.63 0.32 0.28 0.00 0.58 0.35 0.57 K jcn_only_AD CG10365,I_chr3R_19549381_19554106,I_chr3R_19554176_19554388 chr3R + chr3R_19549425_19554388;chr3R_19549381_19554388 chr3R_19549452_19554388 chr3R_19554389_19554488;chr3R_19549281_19549380 3.23 3.33 8.11 2.38 0.00 0.00 4.35 3.33 3.39 0.00 8.70 2.86 NA 0.00 8.33 7.14 0.00 4.35 0.00 5.66 4.35 NA 0.00 0.00 3.85 0.00 0.00 NA 4.17 2.38 5.88 4.55 2.44 3.03 0.00 NA 3.03 0.00 2.70 6.35 6.98 4.62 0.00 5.56 2.70 8.77 5.41 4.23 5.17 0.00 2.63 0.00 NA 2.70 5.41 3.23 NA 7.14 K intron_retention I_chr2L_822032_822857,dock chr2L + chr2L_831920_832994 chr2L_831919_831920;chr2L_832994_832995 chr2L_831714_831919;chr2L_832995_833208 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.80 100.00 100.00 100.00 100.00 100.00 100.00 98.44 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.43 100.00 100.00 100.00 100.00 96.67 100.00 100.00 100.00 100.00 100.00 98.08 100.00 100.00 100.00 100.00 98.15 100.00 97.73 97.62 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.87 100.00 100.00 100.00 K intron_retention pod1 chrX + chrX_6703171_6703406 chrX_6703170_6703171;chrX_6703406_6703407 chrX_6703097_6703170;chrX_6703407_6703439 0.00 0.00 0.00 0.00 NA NA 0.00 2.78 0.00 NA 0.00 6.06 0.00 4.35 0.00 6.25 0.00 0.00 NA 4.44 0.00 0.00 NA 6.25 NA NA 0.00 6.25 0.00 13.33 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 9.09 NA 0.00 0.00 0.00 NA 7.69 NA 4.55 4.35 NA 0.00 NA NA NA 0.00 NA 0.00 NA K alternative_acceptor CG5871,NELF-A chr3R + chr3R_17047473_17047538 chr3R_17047473_17047531 chr3R_17047048_17047472;chr3R_17047539_17048572 100.00 93.33 94.12 100.00 91.67 100.00 100.00 94.12 85.71 NA 84.62 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 95.00 100.00 100.00 100.00 94.44 100.00 100.00 100.00 100.00 88.89 92.86 100.00 100.00 100.00 100.00 100.00 100.00 95.65 100.00 100.00 100.00 100.00 96.30 100.00 100.00 92.86 100.00 100.00 100.00 95.65 92.31 100.00 88.89 100.00 100.00 100.00 100.00 100.00 90.00 N intron_retention CG3287,I_chr2R_2700203_2700285 chr2R + chr2R_2701259_2702564 chr2R_2701258_2701259;chr2R_2702564_2702565 chr2R_2700678_2701258;chr2R_2702565_2703029 2.08 0.00 0.00 6.25 4.55 0.00 2.86 4.44 3.17 NA 12.50 7.50 6.25 0.00 0.00 6.38 0.00 0.00 5.88 2.74 11.76 2.08 1.72 5.71 0.00 2.94 3.70 NA 18.92 0.00 0.00 NA 0.00 12.20 0.00 0.00 5.41 0.00 5.00 0.00 11.11 0.00 0.00 6.67 NA 12.50 0.00 5.41 3.51 0.00 4.55 0.00 0.00 0.00 0.00 0.00 10.53 0.00 K intron_retention CG31612,E_chr2L_21775447_21821182 chr2L - chr2L_21766161_21772999 chr2L_21766160_21766161;chr2L_21772999_21773000 chr2L_21765963_21766160;chr2L_21773000_21773178 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 K alternative_acceptor CG30344,I_chr2R_5033478_5033544,RI_chr2R_5033951_5034150,I_chr2R_5036518_5036570 chr2R + chr2R_5033478_5034150 chr2R_5033478_5033544 chr2R_5033378_5033477;chr2R_5034151_5034250 5.26 8.00 10.00 4.55 6.25 3.57 8.93 5.77 6.35 9.09 7.14 5.71 14.29 4.00 2.70 6.12 6.25 3.45 5.88 5.56 10.00 9.09 5.45 2.56 3.70 4.55 5.26 4.35 4.00 3.57 6.90 5.56 4.35 8.70 3.85 3.45 8.33 3.45 2.27 4.17 4.55 7.27 8.00 3.85 15.38 2.78 2.94 8.33 8.20 3.45 3.39 3.70 6.90 4.00 3.70 4.76 4.44 5.56 K intron_retention CG6498,I_chr3L_15561224_15561305 chr3L + chr3L_15567572_15567635 chr3L_15567571_15567572;chr3L_15567635_15567636 chr3L_15567256_15567571;chr3L_15567636_15568528 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.00 4.44 2.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.70 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.41 0.00 K intron_retention mthl10 chr3L - chr3L_333641_334974 chr3L_333640_333641;chr3L_334974_334975 chr3L_333522_333640;chr3L_334975_335169 60.00 NA NA 35.29 NA NA 100.00 53.85 87.50 NA NA NA 33.33 NA NA NA NA NA 60.00 66.67 NA NA 45.45 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 63.64 NA NA NA NA NA NA 58.33 NA 70.00 NA NA NA NA NA NA NA K intron_retention r-l chr3R - chr3R_16897547_16898210 chr3R_16897546_16897547;chr3R_16898210_16898211 chr3R_16896552_16897546;chr3R_16898211_16898727 3.45 5.06 0.00 10.71 4.26 0.00 4.17 3.92 1.92 0.00 2.00 1.61 0.00 0.00 3.28 8.33 0.00 2.56 0.00 0.72 0.00 31.71 8.25 4.08 3.92 7.14 5.56 4.21 2.22 6.98 0.00 2.70 2.75 0.00 5.66 0.00 5.34 2.80 4.04 3.66 3.85 1.74 0.00 4.00 3.49 6.45 3.12 7.46 1.90 3.57 4.48 5.45 0.00 3.64 4.17 2.22 3.45 0.00 K intron_retention CycT,I_chr3L_17548631_17550687 chr3L - chr3L_17549520_17549595 chr3L_17549519_17549520;chr3L_17549595_17549596 chr3L_17549474_17549519;chr3L_17549596_17550817 18.27 15.25 18.31 40.51 20.63 23.21 16.25 33.33 18.37 15.79 21.31 35.54 16.00 14.06 24.36 25.81 19.57 15.52 29.79 14.58 25.00 23.38 16.36 13.10 27.78 24.00 32.77 47.56 31.67 16.67 18.42 12.12 16.92 18.48 22.22 12.68 14.38 12.99 11.92 18.27 29.17 19.47 17.86 16.46 10.81 12.20 10.26 21.31 18.42 17.02 14.29 12.77 13.89 21.05 21.88 12.77 12.50 17.86 K alternative_acceptor CG2064 chr2R + chr2R_3553522_3553627;chr2R_3553522_3553650 chr2R_3553522_3553619 chr2R_3553444_3553521;chr2R_3553651_3553914 0.30 0.00 0.00 0.33 0.00 0.00 0.75 0.00 0.87 0.00 0.00 0.30 0.00 0.00 0.00 0.00 0.00 0.84 0.00 0.27 0.00 0.70 0.62 0.40 0.59 0.00 0.78 0.96 1.58 0.68 0.42 0.00 0.68 0.39 0.00 0.96 0.66 0.57 0.49 0.45 1.74 0.00 0.00 1.22 1.86 0.40 0.00 1.56 0.00 0.89 0.00 0.00 0.00 0.00 0.00 0.00 0.62 0.56 K cassette gish chr3R + chr3R_12115562_12118445 chr3R_12115562_12118197;chr3R_12118273_12118445 chr3R_12118198_12118272 chr3R_12115353_12115561;chr3R_12118446_12118556 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.55 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention snama chr2R + chr2R_19977229_19977288 chr2R_19977228_19977229;chr2R_19977288_19977289 chr2R_19977079_19977228;chr2R_19977289_19977582 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.44 0.00 4.26 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention cv-c,RI_chr3R_10258928_10265129,RI_chr3R_10301040_10306363,RI_chr3R_10306635_10307255 chr3R - chr3R_10218612_10218673 chr3R_10218611_10218612;chr3R_10218673_10218674 chr3R_10217416_10218611;chr3R_10218674_10218853 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.40 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.85 0.00 0.00 1.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor Pka-R1,CG3288 chr3L + chr3L_20826758_20826832 chr3L_20826758_20826829 chr3L_20826383_20826757;chr3L_20826833_20826969 59.09 55.56 59.09 37.50 70.59 75.00 65.00 68.18 53.12 50.00 66.67 65.52 40.00 60.00 50.00 54.55 63.64 58.82 43.75 67.86 53.33 71.79 63.33 55.00 58.82 53.33 51.85 68.18 61.29 59.09 69.23 52.63 62.16 52.00 60.00 46.15 62.50 73.08 58.82 53.85 56.52 59.46 41.18 61.11 64.00 57.69 60.71 62.79 51.85 59.09 63.64 35.71 61.90 50.00 55.00 57.14 57.14 78.12 K intron_retention CG14741 chr3R - chr3R_7897251_7898007 chr3R_7897250_7897251;chr3R_7898007_7898008 chr3R_7897104_7897250;chr3R_7898008_7898194 1.11 0.00 1.18 4.85 0.00 0.64 1.32 1.95 1.75 0.95 0.00 1.36 6.71 2.58 0.00 1.83 2.13 0.98 0.00 2.12 1.18 0.66 2.72 2.61 2.35 0.97 1.32 3.57 1.92 0.00 0.92 0.00 0.29 1.39 0.00 2.07 2.47 0.00 1.44 1.11 0.00 1.11 0.00 0.00 1.46 0.00 2.78 0.00 1.87 2.74 1.47 0.00 0.00 0.00 0.91 0.00 2.22 0.00 K alternative_acceptor tsh,I_chr2L_21836642_21836821 chr2L + chr2L_21836642_21836821 chr2L_21836642_21836816 chr2L_21836542_21836641;chr2L_21836822_21836921 98.48 100.00 100.00 98.33 100.00 95.65 97.73 98.11 98.28 100.00 100.00 100.00 96.55 100.00 100.00 98.41 100.00 97.44 97.06 100.00 96.30 95.65 97.92 100.00 96.15 100.00 96.43 94.44 96.77 100.00 98.21 98.31 97.96 98.33 100.00 100.00 100.00 100.00 100.00 98.31 100.00 98.53 96.55 97.78 97.06 98.95 98.31 97.01 100.00 96.88 100.00 100.00 96.43 100.00 100.00 98.48 100.00 100.00 K alternative_donor CG7414,I_chr3L_21819515_21819581 chr3L + chr3L_21819853_21820193 chr3L_21820136_21820193 chr3L_21820194_21820958;chr3L_21819575_21819852 28.72 27.18 24.60 29.72 23.72 25.54 39.18 30.67 28.46 32.12 32.99 29.14 22.73 24.08 25.00 24.03 25.14 29.17 30.11 25.18 32.14 33.33 20.33 27.08 30.43 27.03 22.48 17.53 27.97 28.69 32.48 35.74 42.77 30.93 31.72 25.91 26.22 24.37 29.53 33.51 39.34 28.76 27.27 29.27 35.93 32.27 23.62 46.61 28.61 24.19 29.04 25.13 30.69 28.92 28.72 27.19 25.05 45.86 K jcn_only_AD Pk61C,CE_chr3L_129889_141769,I_chr3L_132531_133824,I_chr3L_133962_134014 chr3L + chr3L_129889_135457 chr3L_129909_135457 chr3L_135458_135842;chr3L_129840_129888 0.00 2.04 0.00 1.10 3.51 1.79 0.00 1.77 1.27 0.00 0.00 3.26 1.89 0.00 0.00 0.00 0.00 4.00 1.52 0.00 0.00 0.00 1.82 0.00 0.00 0.00 1.56 0.00 6.67 1.23 0.00 0.00 1.35 1.04 1.61 1.96 1.37 0.00 0.00 0.00 3.23 1.49 5.26 1.72 0.00 0.00 0.00 0.90 3.60 NA 0.00 0.00 0.00 0.00 1.47 0.00 NA 1.82 K jcn_only_AD Treh,I_chr2R_16972565_16972702,I_chr2R_16975359_16975442,RI_chr2R_16975359_16975842,I_chr2R_16975364_16975842 chr2R + chr2R_16974443_16975285 chr2R_16974918_16975285 chr2R_16975286_16975358;chr2R_16974405_16974442 73.68 71.43 71.43 78.63 89.71 73.91 88.80 88.71 80.71 80.00 86.00 77.68 91.43 88.33 87.18 83.78 89.09 81.82 78.79 77.09 81.48 59.26 62.50 63.24 71.88 83.33 72.31 91.89 67.65 44.23 81.11 58.93 59.26 75.00 69.23 73.68 64.00 57.41 66.67 54.93 51.61 78.99 85.42 69.74 61.96 48.19 58.93 44.83 79.84 90.32 57.14 76.32 54.35 57.14 75.90 52.50 45.76 37.37 K alternative_acceptor Atg18,I_chr3L_8182683_8182941 chr3L + chr3L_8180294_8180578;chr3L_8180294_8180586 chr3L_8180294_8180540 chr3L_8180118_8180293;chr3L_8180587_8180676 5.88 5.71 7.50 5.17 3.70 6.67 14.63 3.77 4.29 5.88 3.70 6.90 0.00 6.67 4.55 5.26 3.12 6.67 2.86 7.94 2.86 14.47 5.17 6.52 8.11 7.50 8.51 12.50 7.41 2.50 6.00 5.00 1.69 2.22 3.33 25.58 5.00 2.13 6.00 6.90 16.67 5.88 4.00 4.76 7.69 6.06 2.63 7.89 4.76 8.57 6.12 4.35 6.45 6.06 5.88 9.09 4.35 0.00 K multi_cassette Ppn,F_chr3R_24347009_24347078 chr3R - chr3R_24348983_24351592 chr3R_24348983_24349501;chr3R_24349697_24349755;chr3R_24349940_24349995;chr3R_24351030_24351592 chr3R_24349502_24349696;chr3R_24349756_24349939;chr3R_24349996_24351029 chr3R_24348417_24348982;chr3R_24351593_24351772 100.00 100.00 NA 40.00 100.00 NA 100.00 100.00 100.00 100.00 NA 100.00 100.00 NA 50.00 100.00 NA 50.00 100.00 75.00 NA 100.00 100.00 100.00 NA 100.00 100.00 NA NA NA NA 100.00 NA 100.00 NA 100.00 100.00 100.00 66.67 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA K intron_retention Rrp42,RI_chr2R_11902769_11902844 chr2R + chr2R_11903011_11903064 chr2R_11903010_11903011;chr2R_11903064_11903065 chr2R_11902845_11903010;chr2R_11903065_11903593 0.00 0.00 NA NA NA 0.00 NA NA 0.00 NA NA 0.00 NA NA 0.00 11.76 NA NA NA 0.00 NA 3.57 0.00 0.00 NA NA 6.90 4.35 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 9.68 0.00 0.00 NA 0.00 0.00 0.00 2.50 0.00 0.00 0.00 2.94 NA 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Mipp2 chrX - chrX_5977824_5977886 chrX_5977823_5977824;chrX_5977886_5977887 chrX_5976692_5977823;chrX_5977887_5978087 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA NA 0.00 4.55 0.00 0.00 0.00 0.00 NA 0.00 0.00 11.36 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG2219,I_chr4_199813_199889,RI_chr4_202143_202194 chr4 - chr4_199813_199889;chr4_199822_199889 chr4_199838_199889 chr4_199890_199942;chr4_199758_199812 91.43 96.55 86.67 85.71 100.00 100.00 88.33 93.48 93.22 85.71 93.33 90.00 90.62 89.66 100.00 91.04 84.62 87.50 90.91 90.70 84.62 85.71 94.59 93.10 94.74 83.33 92.31 94.12 92.31 100.00 91.43 92.00 85.71 86.27 90.48 95.00 93.33 89.47 94.12 91.43 83.33 83.33 84.38 95.65 78.57 91.43 100.00 94.74 88.33 87.50 91.89 93.75 100.00 89.47 92.59 95.45 93.55 93.94 K intron_retention CG11267 chr3L + chr3L_13009619_13009686 chr3L_13009618_13009619;chr3L_13009686_13009687 chr3L_13009457_13009618;chr3L_13009687_13010007 0.27 0.44 0.94 1.19 0.00 0.00 0.00 1.48 0.58 0.00 0.00 0.87 0.00 0.00 0.00 1.11 0.00 0.64 0.00 1.08 0.00 0.00 1.03 0.64 0.40 0.00 1.18 3.56 3.50 0.00 0.00 0.61 0.22 0.75 0.00 0.76 0.56 0.00 0.34 0.22 0.00 0.50 0.00 0.00 0.22 0.97 0.00 0.00 0.30 0.41 0.25 0.00 0.30 0.27 1.05 0.65 0.61 0.00 K multi_cassette CG40263,F_chr2RHet_1265687_1293040,RI_chr2RHet_1324541_1328409 chr2RHet - chr2RHet_1324541_1335781 chr2RHet_1324541_1333289;chr2RHet_1333469_1335106;chr2RHet_1335333_1335781 chr2RHet_1333290_1333468;chr2RHet_1335107_1335332 chr2RHet_1324446_1324540;chr2RHet_1335782_1335833 7.42 4.35 5.88 6.67 10.53 7.14 2.38 2.78 3.66 NA 81.82 11.76 NA 5.88 6.25 5.26 4.55 14.29 3.45 7.69 27.27 NA 20.00 10.00 NA 0.00 0.00 33.33 33.33 18.18 5.56 NA NA 1.85 10.00 NA NA 10.00 NA 19.05 NA 2.22 0.00 15.00 NA 36.36 0.00 NA 2.50 NA 5.88 8.70 20.00 10.00 8.33 0.00 12.50 42.86 K jcn_only_AA RpS26 chr2L - chr2L_18443071_18443152 chr2L_18443074_18443152 chr2L_18443153_18443237;chr2L_18442505_18443070 1.15 1.00 1.10 1.08 1.20 1.24 1.10 1.00 1.01 1.56 1.04 1.06 1.05 1.04 1.07 1.17 0.97 1.14 1.27 1.18 1.11 1.28 0.99 1.13 1.34 0.98 0.99 1.27 1.59 1.61 1.15 2.22 2.16 1.19 1.40 1.23 1.19 1.12 1.09 1.32 1.87 1.12 1.23 1.18 1.54 1.79 0.97 2.36 1.02 0.99 0.99 1.19 1.19 0.95 1.04 1.09 1.15 2.10 K intron_retention I_chr3R_4807909_4807960,CG11967 chr3R + chr3R_4807890_4807960 chr3R_4807889_4807890;chr3R_4807960_4807961 chr3R_4807823_4807889;chr3R_4807961_4808060 7.69 NA NA NA NA NA NA NA 5.56 NA NA NA NA NA NA 41.18 NA NA NA 14.29 NA NA NA NA NA NA NA NA NA NA NA NA NA 7.69 NA NA NA NA NA 7.69 NA NA NA NA NA NA NA NA 7.14 NA NA NA NA NA NA NA NA NA K cassette lark,noncoding_11093,REI_chr3L_7332718_7333975,RI_chr3L_7334219_7334452 chr3L + chr3L_7332718_7333061 chr3L_7332718_7332967;chr3L_7333009_7333061 chr3L_7332968_7333008 chr3L_7332618_7332717;chr3L_7333062_7333870 23.84 14.29 30.00 NA 6.67 NA NA 30.77 20.83 27.27 NA 29.41 NA 50.00 12.50 NA NA NA NA 45.00 NA 14.29 21.88 13.33 20.00 NA 20.00 NA 26.32 12.00 NA 31.25 25.81 35.29 29.41 10.00 15.38 14.29 11.76 34.38 37.50 32.00 NA NA 21.43 28.57 16.67 50.00 27.78 15.00 30.00 NA 13.04 46.15 NA 19.05 12.00 28.57 K jcn_only_AA RanBPM chr2R + chr2R_6317289_6318384 chr2R_6317289_6318038 chr2R_6317228_6317288;chr2R_6318385_6319420 4.55 7.50 3.77 9.40 3.77 3.77 3.70 4.35 5.74 17.39 2.27 11.46 3.70 2.38 1.43 18.46 5.45 7.69 5.08 9.26 0.00 10.81 2.27 3.45 0.00 4.08 NA 4.55 14.81 NA 4.62 0.00 8.33 4.40 NA NA 3.08 0.00 4.76 16.67 NA 2.88 4.55 7.69 0.00 6.90 6.67 2.38 5.77 3.33 12.82 2.50 8.82 NA 5.71 3.33 20.00 11.11 K intron_retention He,I_chr2L_13975880_13975977 chr2L - chr2L_13972612_13972790 chr2L_13972611_13972612;chr2L_13972790_13972791 chr2L_13972094_13972611;chr2L_13972791_13972964 0.22 0.00 0.46 0.78 0.00 0.51 0.27 0.66 0.34 0.00 0.00 0.41 0.26 0.54 0.23 0.52 0.35 0.15 0.22 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.28 0.00 0.20 0.00 0.00 0.56 0.53 0.00 0.00 0.00 0.00 0.25 0.00 0.28 0.42 0.29 0.32 0.00 0.39 0.11 0.54 0.38 0.00 0.71 0.00 0.26 0.22 0.00 0.26 0.21 K intron_retention E(bx),I_chr3L_239186_239264,I_chr3L_246324_246699 chr3L - chr3L_235515_235578 chr3L_235514_235515;chr3L_235578_235579 chr3L_235410_235514;chr3L_235579_236074 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 10.00 NA 0.00 0.00 0.00 0.00 1.54 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 3.45 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention mu2,I_chr3L_1945382_1945647 chr3L - chr3L_1945592_1945647 chr3L_1945591_1945592;chr3L_1945647_1945648 chr3L_1945437_1945591;chr3L_1945648_1945655 0.00 NA NA 4.00 NA NA 0.00 3.70 2.94 NA NA 0.00 12.50 NA NA 0.00 0.00 NA NA 0.00 NA NA 0.00 NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA 0.00 0.00 NA 4.17 NA NA NA NA NA NA 0.00 NA NA NA NA NA 0.00 NA NA NA K alternative_donor kek5,noncoding_24742 chrX + chrX_19247617_19256999 chrX_19247687_19256999 chrX_19257000_19257050;chrX_19247500_19247616 53.34 NA NA NA NA NA NA NA 40.00 NA NA NA NA NA NA NA NA NA NA 66.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG8334,I_chr3L_19870731_19870822 chr3L + chr3L_19864555_19866860 chr3L_19864554_19864555;chr3L_19866860_19866861 chr3L_19864486_19864554;chr3L_19866861_19867095 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 10.71 9.52 2.27 0.00 NA 0.00 0.00 NA 0.00 0.00 NA 14.29 0.00 0.00 NA 0.00 2.70 0.00 0.00 0.00 0.00 0.00 5.71 NA 2.00 0.00 5.56 NA NA NA NA 0.00 NA 0.00 0.00 NA NA 0.00 NA NA NA N multi_cassette RpL11,I_chr2R_15330246_15330292,I_chr2R_15330603_15330817,snoRNA:Psi28S-2444 chr2R + chr2R_15330246_15330817 chr2R_15330246_15330317;chr2R_15330604_15330664;chr2R_15330745_15330817 chr2R_15330318_15330603;chr2R_15330665_15330744 chr2R_15330177_15330245;chr2R_15330818_15330917 100.00 100.00 NA 30.00 100.00 62.50 100.00 70.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 68.97 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 66.67 66.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention TepIV,EI_chr2L_19548696_19549582 chr2L + chr2L_19548696_19549858 chr2L_19548695_19548696;chr2L_19549858_19549859 chr2L_19548596_19548695;chr2L_19549859_19549928 81.06 85.95 90.70 76.17 77.91 79.44 67.16 74.47 78.29 78.87 93.10 87.28 91.67 81.06 83.92 82.17 77.36 92.68 78.15 92.04 84.73 62.16 84.21 78.20 67.90 76.11 73.03 64.18 70.53 73.40 83.93 84.44 83.87 79.82 71.00 72.18 75.81 78.85 83.55 81.69 76.32 80.42 82.35 75.00 91.67 87.23 86.27 84.62 84.97 64.65 72.50 70.27 89.71 85.71 83.11 88.10 82.17 90.74 K intron_retention Lac,I_chr2R_8341560_8351848,RE_chr2R_8341564_8351844,I_chr2R_8348603_8351844 chr2R + chr2R_8341560_8351844 chr2R_8341559_8341560;chr2R_8351844_8351845 chr2R_8341464_8341559;chr2R_8351845_8351944 0.00 0.00 0.00 0.43 0.00 0.62 0.59 0.00 1.52 0.00 0.00 0.77 1.64 0.00 0.00 1.47 0.00 1.43 0.00 0.29 0.00 0.00 0.00 0.40 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.53 0.00 0.00 0.27 0.00 0.00 0.00 0.00 0.65 0.00 0.58 0.00 0.42 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD Rab5,I_chr2L_2361586_2364444,RI_chr2L_2361586_2364627,I_chr2L_2361586_2364794 chr2L - chr2L_2361586_2364640;chr2L_2361586_2364836;chr2L_2361586_2365060;chr2L_2361586_2364302;chr2L_2361586_2364594;chr2L_2361586_2364312;chr2L_2361586_2364889 chr2L_2361586_2364480 chr2L_2361486_2361585;chr2L_2365061_2365065 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.75 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG8176,I_chr3R_5348614_5348964 chr3R + chr3R_5352166_5352227 chr3R_5352165_5352166;chr3R_5352227_5352228 chr3R_5351936_5352165;chr3R_5352228_5352964 0.00 0.00 0.68 0.67 0.00 0.00 0.00 0.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.94 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.35 2.25 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG14749 chr2R + chr2R_4517048_4517115 chr2R_4517047_4517048;chr2R_4517115_4517116 chr2R_4515382_4517047;chr2R_4517116_4517691 100.00 100.00 100.00 95.83 100.00 100.00 100.00 100.00 96.88 100.00 100.00 97.06 93.75 100.00 100.00 100.00 92.86 94.44 100.00 100.00 92.86 100.00 100.00 96.30 100.00 100.00 95.45 100.00 92.86 92.86 92.86 100.00 100.00 100.00 93.75 100.00 96.00 100.00 100.00 96.88 100.00 97.22 100.00 95.24 100.00 100.00 96.15 100.00 96.55 96.97 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor scu,RhoGAP16F chrX + chrX_17988131_17989117;chrX_17987638_17989117;chrX_17988127_17989117 chrX_17987656_17989117 chrX_17989118_17990486;chrX_17987544_17987637 0.00 20.00 0.00 0.00 0.00 0.00 6.67 0.00 3.45 0.00 0.00 4.76 0.00 0.00 14.29 5.00 7.69 10.00 8.33 0.00 0.00 0.00 0.00 0.00 10.00 0.00 0.00 0.00 11.11 0.00 2.86 0.00 8.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 9.09 0.00 0.00 0.00 0.00 0.00 0.00 6.67 0.00 0.00 0.00 0.00 0.00 10.00 0.00 K alternative_donor Imp,I_chrX_10699490_10700695,RI_chrX_10699665_10700501,RI_chrX_10699665_10700695 chrX - chrX_10699665_10700501;chrX_10699665_10700695 chrX_10699665_10700474 chrX_10699565_10699664;chrX_10700696_10700795 22.22 40.00 28.57 28.57 NA 33.33 12.00 15.38 13.79 NA 25.00 31.58 20.00 18.18 11.11 12.50 7.14 22.22 42.86 18.18 40.00 NA 40.00 NA NA 42.86 14.29 NA NA NA 0.00 NA NA 26.09 NA NA NA NA NA NA NA 27.27 20.00 NA NA NA NA 40.00 13.04 NA 20.00 NA NA NA 28.57 NA NA NA K jcn_only_AD CG11984,I_chr3R_4837327_4837766,I_chr3R_4845450_4845598 chr3R - chr3R_4839215_4839561;chr3R_4839215_4839851;chr3R_4839215_4839728;chr3R_4839215_4839889;chr3R_4839215_4839799 chr3R_4839215_4839655 chr3R_4839038_4839214;chr3R_4839890_4839901 0.00 0.00 0.00 3.33 NA NA NA 0.00 0.00 NA NA 0.00 NA NA NA NA NA NA 0.00 0.00 NA 0.00 0.00 NA NA 0.00 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA 0.00 NA 0.00 NA 0.00 NA 4.55 NA NA 0.00 0.00 NA NA NA NA NA NA 0.00 0.00 K alternative_acceptor CG18811,I_chr3L_18664520_18664589,I_chr3L_18664773_18665233 chr3L - chr3L_18664520_18664589 chr3L_18664535_18664589 chr3L_18664590_18664689;chr3L_18664420_18664519 99.15 100.00 98.25 99.00 100.00 98.28 100.00 100.00 99.07 100.00 97.83 99.14 100.00 100.00 100.00 98.81 97.96 97.73 98.04 99.15 100.00 100.00 98.73 100.00 97.50 100.00 100.00 98.25 98.15 98.11 98.46 100.00 98.73 98.95 97.78 100.00 100.00 100.00 100.00 98.91 98.04 98.21 97.92 100.00 100.00 100.00 97.78 98.86 100.00 97.14 100.00 100.00 100.00 100.00 98.48 100.00 100.00 98.36 K cassette CG41099,R_chr3RHet_1688501_1702556,I_chr3RHet_1688505_1705884,RI_chr3RHet_1703294_1705884 chr3RHet - chr3RHet_1688505_1705901;chr3RHet_1688505_1705884 chr3RHet_1688505_1702560;chr3RHet_1703294_1705884,chr3RHet_1703294_1705901 chr3RHet_1702561_1703293 chr3RHet_1688405_1688504;chr3RHet_1705902_1705984 100.00 100.00 100.00 98.25 100.00 100.00 100.00 98.85 100.00 100.00 100.00 100.00 100.00 97.30 97.30 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.15 100.00 100.00 97.73 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.30 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.30 100.00 K jcn_only_AD eIF-1A,I_chr3R_14106104_14107415,I_chr3R_14106955_14107415 chr3R + chr3R_14106104_14107415;chr3R_14100864_14107415 chr3R_14106955_14107415 chr3R_14107416_14107515;chr3R_14100759_14100863 0.00 0.18 0.16 0.00 0.00 0.00 0.00 0.33 0.00 0.23 0.00 0.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.16 0.18 0.00 0.17 0.21 0.00 0.00 0.00 0.00 0.00 0.24 0.18 0.00 0.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.16 0.00 0.00 0.00 0.00 0.00 0.14 0.60 0.17 0.00 0.00 0.39 0.00 0.00 K alternative_acceptor EndoGI,CG4935 chr2L + chr2L_16257766_16258039 chr2L_16257766_16258036 chr2L_16257697_16257765;chr2L_16258040_16258179 100.00 NA NA 100.00 NA NA 100.00 100.00 100.00 NA NA 100.00 NA NA 100.00 100.00 NA NA 100.00 100.00 NA NA NA NA NA 100.00 NA NA NA NA 100.00 NA NA 100.00 NA NA NA NA NA NA NA 93.33 NA NA NA NA NA NA 100.00 NA NA NA NA NA 100.00 NA NA NA K intron_retention CG32163 chr3L + chr3L_16580506_16580609 chr3L_16580505_16580506;chr3L_16580609_16580610 chr3L_16580472_16580505;chr3L_16580610_16580996 100.00 100.00 100.00 100.00 92.86 100.00 97.44 96.77 98.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.45 94.12 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 94.12 100.00 100.00 97.22 100.00 K alternative_acceptor CG2316,I_chr4_208796_210623,I_chr4_209150_214298,I_chr4_209369_210623,I_chr4_209875_210055,I_chr4_209875_210628,I_chr4_209875_213969,RI_chr4_209875_214450,I_chr4_210688_211303,RI_chr4_210688_211927,I_chr4_210688_213991,I_chr4_210688_214019,I_chr4_210688_214049,RI_chr4_210688_214450 chr4 - chr4_209369_210623 chr4_209875_210623 chr4_210624_210636;chr4_209269_209368 100.00 100.00 100.00 98.94 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.39 100.00 100.00 100.00 100.00 100.00 97.83 100.00 100.00 97.22 100.00 100.00 100.00 96.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.26 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.15 K intron_retention CG12918,E_chr2R_5938650_5939342 chr2R - chr2R_5939207_5939306 chr2R_5939206_5939207;chr2R_5939306_5939307 chr2R_5939039_5939206;chr2R_5939307_5939769 3.17 2.11 0.00 6.03 0.00 0.00 4.44 3.05 3.07 3.57 4.17 1.18 2.38 2.41 3.51 1.63 1.08 2.53 0.00 2.88 4.82 11.94 2.24 1.38 3.50 1.41 3.92 4.35 10.11 5.26 9.43 5.36 10.64 3.17 3.45 13.33 3.72 2.03 3.49 2.41 10.53 2.62 4.69 2.24 3.61 4.24 3.42 4.08 2.76 4.13 3.23 2.74 2.30 2.45 0.72 1.97 1.32 4.82 K jcn_only_AD CG42533,EI_chr2L_7473200_7473297,RI_chr2L_7473200_7473419,F_chr2L_7476906_7476978 chr2L - chr2L_7473200_7473656;chr2L_7473200_7473770;chr2L_7473200_7473419 chr2L_7473200_7473297 chr2L_7473100_7473199;chr2L_7473771_7473889 37.50 47.06 47.37 48.00 NA 53.57 53.06 56.00 55.68 11.11 66.67 57.14 61.90 82.05 22.22 34.04 46.43 56.00 51.16 34.88 56.52 34.04 25.58 39.39 37.50 38.10 42.86 NA 16.33 51.43 26.56 30.00 22.45 47.37 31.25 14.63 29.41 45.00 37.50 28.77 32.73 35.90 39.39 31.11 21.74 27.63 37.50 20.20 44.44 53.06 47.62 37.50 19.05 39.13 38.46 22.58 30.00 25.24 K intron_retention growl chr3R + chr3R_230362_230422 chr3R_230361_230362;chr3R_230422_230423 chr3R_230191_230361;chr3R_230423_231141 0.12 0.35 0.25 0.26 0.00 0.00 0.21 0.00 0.15 0.00 0.00 0.16 0.00 0.00 0.38 0.11 0.38 0.00 0.28 0.07 0.00 0.10 0.22 0.00 0.38 0.39 1.43 1.62 0.31 0.00 0.12 0.00 0.00 0.00 0.00 0.42 0.27 0.18 0.12 0.32 0.13 0.15 0.19 0.00 0.00 0.41 0.00 0.00 0.29 0.00 0.26 0.41 0.00 0.00 0.24 0.00 0.00 0.00 K cassette capu,I_chr2L_3884519_3902594,I_chr2L_3887896_3888648 chr2L - chr2L_3884519_3893261 chr2L_3884519_3886983;chr2L_3887557_3893261 chr2L_3886984_3887556 chr2L_3884419_3884518;chr2L_3893262_3893604 98.70 98.63 100.00 98.89 100.00 100.00 98.68 100.00 100.00 97.30 98.28 99.15 98.31 100.00 98.59 98.48 100.00 98.44 98.25 99.23 100.00 98.08 99.10 98.99 98.33 96.49 98.91 100.00 98.75 98.75 96.97 97.87 98.94 100.00 98.61 98.73 99.19 98.70 99.12 97.04 100.00 99.21 100.00 98.63 98.11 98.75 98.59 96.49 99.19 98.59 100.00 98.18 98.21 97.87 98.65 98.33 98.44 97.50 K intron_retention CG7145,I_chr3L_21832928_21833150,I_chr3L_21832932_21833106 chr3L - chr3L_21832932_21833198 chr3L_21832931_21832932;chr3L_21833198_21833199 chr3L_21832832_21832931;chr3L_21833199_21833206 78.89 NA NA 81.82 NA NA 90.00 87.50 56.25 NA NA 80.00 NA NA 87.50 63.64 NA NA NA 88.24 NA 60.00 NA NA NA NA NA NA 66.67 77.78 NA 60.00 90.48 NA NA NA NA NA NA 63.16 63.64 90.91 NA NA 88.89 90.91 NA 68.18 63.64 NA 100.00 NA NA NA NA NA NA 76.47 K intron_retention ftz-f1,I_chr3L_18790575_18790636 chr3L - chr3L_18747734_18748233 chr3L_18747733_18747734;chr3L_18748233_18748234 chr3L_18747677_18747733;chr3L_18748234_18748604 3.45 7.69 0.00 7.41 NA 9.09 8.00 5.56 9.80 0.00 NA 0.00 10.53 0.00 21.05 3.23 15.00 0.00 10.53 3.85 NA 2.99 3.92 3.45 0.00 0.00 3.03 0.00 3.57 9.09 3.45 0.00 2.60 8.00 3.45 3.45 0.00 0.00 4.65 1.92 5.71 2.86 5.26 3.85 6.25 2.27 0.00 3.31 7.02 NA 0.00 0.00 0.00 NA 5.71 0.00 NA 0.00 K jcn_only_AD Pvr,I_chr2L_8226604_8228082,I_chr2L_8229012_8229080,I_chr2L_8230332_8238998 chr2L - chr2L_8227151_8227669 chr2L_8227151_8227651 chr2L_8227095_8227150;chr2L_8227670_8227720 67.35 NA 62.86 NA 85.00 65.00 46.67 66.67 62.07 45.83 NA 72.83 NA 80.77 65.52 52.63 53.33 65.71 65.38 69.84 NA NA 67.35 65.62 76.00 52.38 NA NA NA NA 75.44 NA 72.41 69.57 61.90 45.16 67.65 81.82 67.57 69.77 NA 71.70 NA 50.00 NA 77.14 NA 65.00 69.23 NA 68.75 60.87 68.97 NA 77.78 62.50 NA 82.61 K jcn_only_AA Taf6 chr3L + chr3L_19594248_19594309 chr3L_19594248_19594296 chr3L_19594013_19594247;chr3L_19594310_19594484 8.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 8.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 7.41 NA 18.18 NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CG7971,I_chr3L_1659363_1659845,I_chr3L_1667736_1667806 chr3L - chr3L_1664787_1664917 chr3L_1664845_1664917 chr3L_1664918_1664986;chr3L_1664532_1664786 100.00 100.00 98.98 100.00 100.00 100.00 100.00 98.98 99.45 100.00 100.00 99.55 98.63 98.28 100.00 100.00 100.00 97.06 100.00 98.49 100.00 98.00 100.00 100.00 100.00 100.00 98.97 98.98 98.46 98.21 98.92 100.00 99.42 99.12 98.78 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.52 100.00 97.85 98.31 99.47 98.77 99.36 100.00 98.21 100.00 100.00 99.17 99.07 99.46 K alternative_donor NaCP60E,RI_chr2R_20791702_20791803,I_chr2R_20805053_20805170 chr2R + chr2R_20788579_20791803 chr2R_20791702_20791803 chr2R_20791804_20791903;chr2R_20788367_20788578 100.00 100.00 99.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.66 99.81 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Pvr,I_chr2L_8229012_8229080,I_chr2L_8230332_8238998 chr2L - chr2L_8228258_8228493 chr2L_8228257_8228258;chr2L_8228493_8228494 chr2L_8228176_8228257;chr2L_8228494_8229011 4.94 3.07 3.74 6.80 3.23 4.03 3.85 6.38 4.19 5.88 4.14 5.88 5.65 5.95 4.46 5.51 4.52 8.00 4.66 5.28 3.41 5.26 3.43 5.00 5.50 3.59 6.40 4.17 6.25 4.67 5.92 6.56 6.03 4.88 3.31 7.63 3.53 3.75 4.08 5.16 6.12 4.12 5.33 5.63 4.44 4.94 3.80 8.22 5.82 4.04 5.13 5.63 3.28 3.70 4.33 6.32 1.85 6.67 K intron_retention lsn,Cby,CG31431 chr3R + chr3R_17693884_17694036 chr3R_17693883_17693884;chr3R_17694036_17694037 chr3R_17693725_17693883;chr3R_17694037_17694328 95.12 NA NA 92.86 NA 100.00 100.00 94.12 95.24 NA 87.50 92.31 NA NA 100.00 90.91 NA NA NA 91.30 NA 95.45 100.00 90.91 100.00 100.00 93.33 95.45 92.86 91.67 100.00 88.89 100.00 100.00 80.00 NA 92.31 NA 92.86 100.00 80.00 95.65 NA NA NA 90.00 100.00 100.00 95.00 100.00 100.00 100.00 NA NA 91.67 NA 90.91 NA K intron_retention nxf2,I_chr3L_16573041_16573135 chr3L - chr3L_16572692_16572751 chr3L_16572691_16572692;chr3L_16572751_16572752 chr3L_16572236_16572691;chr3L_16572752_16572985 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention Thd1,RI_chr4_574364_578068 chr4 - chr4_577984_578068 chr4_577983_577984;chr4_578068_578069 chr4_577874_577983;chr4_578069_578121 6.90 NA NA NA NA NA 4.35 7.14 18.52 NA NA 0.00 NA NA NA 16.67 NA NA NA 5.26 NA NA NA NA NA 15.38 NA NA NA NA NA NA NA 12.50 NA NA NA NA NA 6.67 NA 18.18 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA K jcn_only_AA Sec16,I_chrX_12501913_12502010,I_chrX_12502899_12502973 chrX + chrX_12502899_12502973;chrX_12502899_12502967 chrX_12502899_12502970 chrX_12502799_12502898;chrX_12502974_12503073 8.82 5.77 14.06 10.48 9.76 16.67 9.46 10.64 8.00 12.31 16.22 6.36 7.55 7.55 8.82 7.22 6.06 9.62 13.41 7.44 0.00 9.33 9.09 4.08 6.82 4.35 15.79 7.84 7.89 4.40 8.33 8.75 11.67 11.11 17.02 3.85 5.45 20.00 10.53 10.49 9.30 7.56 5.26 13.70 5.88 7.43 5.41 9.00 9.09 14.29 10.00 8.00 8.57 5.00 13.95 15.25 13.16 6.37 K cassette HDAC4,F_chrX_13159070_13159174,I_chrX_13170581_13179235,I_chrX_13178996_13179235 chrX - chrX_13170581_13178924;chrX_13170581_13179235 chrX_13170581_13176198;chrX_13176263_13179235,chrX_13176263_13178924 chrX_13176199_13176262 chrX_13170481_13170580;chrX_13179236_13179281 96.97 98.41 98.48 96.63 95.74 98.39 90.62 96.38 96.62 96.97 100.00 99.05 96.49 91.43 98.53 95.40 96.83 98.11 95.95 96.61 98.08 94.64 95.45 98.41 97.44 92.19 94.74 100.00 91.84 97.26 94.52 97.14 97.26 99.10 93.22 90.91 98.70 98.18 98.46 98.44 90.48 96.85 98.08 96.97 90.32 96.43 97.78 96.81 97.71 97.67 93.98 95.65 94.59 96.55 97.65 97.14 100.00 97.44 K jcn_only_AA CG2225,Ef2b,I_chr2L_21681559_21681721,I_chr2L_21681559_21682037,I_chr2L_21681559_21737600,I_chr2L_21681561_21682041,I_chr2L_21681805_21682038 chr2L - chr2L_21681559_21682038 chr2L_21681805_21682038 chr2L_21682039_21682137;chr2L_21681461_21681558 0.01 0.00 0.02 0.02 0.00 0.03 0.00 0.00 0.01 0.00 0.00 0.01 0.02 0.02 0.00 0.03 0.00 0.02 0.00 0.01 0.00 0.04 0.01 0.01 0.00 0.00 0.01 0.03 0.02 0.00 0.00 0.00 0.00 0.00 0.00 0.02 0.01 0.00 0.00 0.01 0.00 0.04 0.05 0.02 0.00 0.03 0.02 0.00 0.02 0.00 0.03 0.00 0.02 0.03 0.02 0.00 0.00 0.00 K intron_retention hppy,I_chr2R_15066378_15066915,I_chr2R_15105700_15106080,I_chr2R_15106144_15108248 chr2R + chr2R_15066304_15067003 chr2R_15066303_15066304;chr2R_15067003_15067004 chr2R_15066297_15066303;chr2R_15067004_15067015 100.00 100.00 100.00 96.67 100.00 100.00 97.14 96.88 95.92 100.00 100.00 96.00 100.00 100.00 100.00 100.00 100.00 91.67 94.44 100.00 92.86 94.74 100.00 100.00 92.31 100.00 100.00 NA 100.00 100.00 95.83 100.00 100.00 100.00 100.00 100.00 92.31 100.00 NA 100.00 100.00 100.00 92.31 100.00 NA 100.00 NA 100.00 97.22 NA 100.00 100.00 100.00 NA 95.00 NA NA 92.86 K jcn_only_AD Cctgamma chr3R + chr3R_12473409_12473557;chr3R_12473318_12473557;chr3R_12473420_12473557;chr3R_12473424_12473557;chr3R_12473464_12473557 chr3R_12473479_12473557 chr3R_12473558_12473651;chr3R_12473311_12473317 3.00 1.53 5.71 2.40 3.96 1.67 1.84 4.95 4.24 6.98 3.00 5.70 1.11 4.59 3.70 1.99 4.46 4.55 2.06 4.11 6.19 0.48 1.29 1.55 1.61 2.78 0.76 0.00 0.00 3.33 4.35 5.00 11.11 3.36 4.35 3.39 0.70 0.00 0.94 0.00 9.09 3.23 3.41 0.00 3.17 7.32 0.00 7.69 6.01 0.88 0.77 0.00 2.94 1.61 3.15 0.00 1.42 3.39 K jcn_only_AD Abi,RI_chr3R_9946195_9946332 chr3R - chr3R_9947835_9948084 chr3R_9947835_9947999 chr3R_9947468_9947834;chr3R_9948085_9948101 99.34 98.68 99.04 100.00 100.00 100.00 100.00 99.34 99.10 100.00 100.00 98.58 100.00 100.00 94.92 99.41 98.90 98.97 98.82 99.38 100.00 100.00 99.39 98.10 100.00 96.39 100.00 97.62 97.81 100.00 98.55 100.00 99.68 99.34 99.11 100.00 99.32 99.13 97.32 99.64 100.00 98.50 98.53 100.00 99.58 100.00 96.00 99.75 98.84 96.09 98.59 94.52 98.35 100.00 98.10 98.77 99.16 99.76 K jcn_only_AA CG5850,I_chr2L_9963013_9963451 chr2L - chr2L_9961615_9961728 chr2L_9961618_9961728 chr2L_9961729_9961775;chr2L_9961359_9961614 72.73 75.23 66.92 66.67 77.19 77.38 73.28 72.48 75.41 78.85 71.59 70.39 72.22 72.29 76.92 75.51 76.92 75.73 70.42 75.78 74.77 64.44 69.91 75.21 72.22 79.10 74.31 63.01 77.78 75.89 67.29 64.21 59.88 78.17 72.73 60.38 70.43 68.75 79.58 72.08 73.17 72.86 74.24 75.58 71.36 68.60 69.57 68.69 73.08 64.71 73.33 64.41 67.59 73.50 79.17 74.29 71.67 72.60 K intron_retention CG16710,CG18754 chr3R + chr3R_19508301_19508491 chr3R_19508300_19508301;chr3R_19508491_19508492 chr3R_19508225_19508300;chr3R_19508492_19509099 0.00 0.00 0.00 8.57 0.00 0.00 0.00 2.44 0.00 NA 0.00 0.00 0.00 0.00 0.00 2.70 0.00 0.00 0.00 0.00 0.00 0.00 6.67 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA K jcn_only_AD CG11771 chr3R + chr3R_20757959_20758015 chr3R_20757963_20758015 chr3R_20758016_20760641;chr3R_20757811_20757958 0.00 0.00 0.00 1.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.63 1.79 4.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.90 2.00 0.00 0.00 1.28 0.00 3.03 0.00 0.00 0.00 2.82 0.00 1.67 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 3.64 NA 1.15 0.00 0.00 0.00 0.00 3.77 0.00 0.00 1.39 0.00 K cassette shot,I_chr2R_9762249_9762363,I_chr2R_9771216_9771599,I_chr2R_9782813_9788941,I_chr2R_9791078_9791208 chr2R - chr2R_9753001_9753565 chr2R_9753001_9753323;chr2R_9753411_9753565 chr2R_9753324_9753410 chr2R_9752056_9753000;chr2R_9753566_9753631 0.41 0.62 0.65 0.35 0.00 0.00 0.81 0.41 0.21 0.98 0.00 0.33 0.83 0.75 0.63 0.56 0.56 0.00 0.68 0.27 0.00 0.66 0.39 0.50 0.00 0.83 1.05 1.04 0.00 0.00 0.56 0.00 0.73 0.39 0.00 0.93 0.33 0.00 0.00 0.53 0.00 0.70 0.00 0.00 1.50 0.00 1.00 1.23 0.34 0.00 0.00 0.00 0.00 0.93 0.51 0.52 0.49 1.33 K jcn_only_AD RI_chrX_2622435_2622577,CG2712,RI_chrX_2627170_2627263,RI_chrX_2627204_2627246 chrX + chrX_2627170_2627263 chrX_2627204_2627263 chrX_2627264_2627326;chrX_2627104_2627169 71.92 NA NA 73.08 NA NA NA 72.41 75.00 NA NA 70.00 NA NA 80.00 NA NA NA NA 83.87 NA NA 75.00 NA NA NA NA NA 46.43 NA 51.22 51.61 81.25 78.26 NA NA NA NA 78.26 59.09 53.33 69.57 NA 82.61 63.64 67.35 NA 59.62 57.14 NA 71.43 NA NA 60.00 NA 90.91 82.61 76.36 K intron_retention CG8372,RI_chr2L_8212717_8212766,RI_chr2L_8212802_8212867 chr2L - chr2L_8212693_8212766 chr2L_8212692_8212693;chr2L_8212766_8212767 chr2L_8212617_8212692;chr2L_8212767_8212801 45.24 44.74 41.03 57.78 45.45 41.03 37.84 44.44 43.33 33.33 48.28 50.75 52.94 48.15 52.08 52.08 44.00 45.16 56.67 46.91 52.00 33.85 45.45 42.86 64.52 61.29 53.70 65.00 74.14 50.00 34.09 37.50 63.16 40.00 33.33 40.00 43.86 40.54 43.75 46.48 44.83 45.61 46.43 45.24 48.89 36.51 32.79 41.18 47.06 55.00 46.67 35.71 40.35 39.53 54.84 46.81 44.26 37.50 K intron_retention heph,I_chr3R_27699822_27771343,I_chr3R_27707594_27801169,I_chr3R_27801288_27801596 chr3R - chr3R_27801688_27805244 chr3R_27801687_27801688;chr3R_27805244_27805245 chr3R_27801597_27801687;chr3R_27805245_27805341 7.28 6.67 0.00 0.00 NA NA NA 8.11 16.67 NA 0.00 4.08 NA NA 6.67 13.33 NA 0.00 10.53 7.41 NA NA NA NA NA 7.14 NA NA NA NA 10.53 NA NA 5.88 NA NA NA NA NA 0.00 NA 11.76 NA NA NA 13.33 NA 9.52 8.82 NA NA NA NA NA 0.00 NA NA 12.50 K intron_retention CG34124,CG34125,CG3756 chr2L + chr2L_4965823_4965881 chr2L_4965822_4965823;chr2L_4965881_4965882 chr2L_4965692_4965822;chr2L_4965882_4966400 0.00 0.00 0.00 2.13 0.00 0.00 0.00 0.00 0.95 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.66 1.09 0.00 0.00 0.00 2.90 0.00 1.83 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.66 0.00 0.00 0.00 0.00 0.00 2.94 0.91 0.00 0.00 0.00 0.00 N intron_retention JhI-26,I_chr2R_12177114_12177266 chr2R + chr2R_12178379_12178432 chr2R_12178378_12178379;chr2R_12178432_12178433 chr2R_12178433_12178520 50.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 50.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CG42553,I_chr3L_834336_834491 chr3L + chr3L_834336_834491 chr3L_834336_834391 chr3L_834236_834335;chr3L_834492_834591 96.53 89.47 97.50 100.00 95.45 100.00 99.12 100.00 97.44 84.00 95.00 96.83 100.00 93.10 97.44 98.78 96.30 100.00 100.00 98.11 95.24 88.46 100.00 90.00 96.97 100.00 94.12 97.56 97.06 91.43 92.00 96.30 92.59 98.44 94.44 90.57 100.00 95.83 87.50 91.67 98.28 100.00 96.30 96.00 91.18 97.40 96.77 94.23 100.00 95.83 94.00 90.00 NA 93.55 100.00 93.02 96.88 97.50 K intron_retention CG30090,RI_chr2R_11577574_11577625 chr2R + chr2R_11577570_11577625 chr2R_11577569_11577570;chr2R_11577625_11577626 chr2R_11577474_11577569;chr2R_11577626_11577671 3.74 2.56 5.66 8.33 0.00 0.00 8.82 3.31 4.92 NA 6.52 2.82 5.88 0.00 0.00 4.88 2.27 5.08 9.09 4.35 1.85 7.69 12.50 3.70 7.69 7.14 12.90 NA 11.11 7.14 5.56 0.00 3.23 0.00 0.00 25.00 0.00 0.00 0.00 10.71 13.33 3.74 5.41 0.00 3.03 4.35 0.00 0.00 4.85 5.00 2.70 0.00 2.27 0.00 4.26 0.00 1.19 6.25 K jcn_only_AA dah,I_chrX_15223901_15223968,I_chrX_15232958_15233665 chrX + chrX_15222986_15223051 chrX_15222986_15223042 chrX_15222858_15222985;chrX_15223052_15223900 100.00 100.00 NA NA NA NA NA 92.86 100.00 NA NA 96.67 NA NA NA 100.00 NA NA NA 100.00 NA NA 100.00 100.00 NA NA 95.24 NA NA NA 100.00 NA 92.59 100.00 NA NA 100.00 NA 100.00 97.06 NA 100.00 NA NA 95.45 NA 96.77 100.00 93.33 95.83 NA 95.65 NA NA NA NA NA NA K intron_retention CG7849 chr2R + chr2R_1964879_1964927 chr2R_1964878_1964879;chr2R_1964927_1964928 chr2R_1964666_1964878;chr2R_1964928_1965538 0.00 0.00 NA NA NA NA NA NA 9.52 NA NA NA NA NA NA NA NA NA NA 0.00 NA 0.00 0.00 0.00 NA NA NA 0.00 NA NA NA NA NA NA NA NA 0.00 0.00 NA NA NA 0.00 NA 0.00 NA NA 0.00 NA NA 0.00 0.00 NA 0.00 0.00 NA NA 0.00 NA K intron_retention VhaPPA1-1,I_chr3R_10728476_10728933,RI_chr3R_10728613_10728929,I_chr3R_10728645_10728933 chr3R - chr3R_10728613_10728929 chr3R_10728612_10728613;chr3R_10728929_10728930 chr3R_10728545_10728612;chr3R_10728930_10729029 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD yellow-h,CG1674,F_chr4_252231_252560,F_chr4_258186_259747,R_chr4_261460_261560,I_chr4_263840_263891,I_chr4_264634_265805 chr4 + chr4_252227_252560;chr4_252254_252560 chr4_251522_252560 chr4_252561_252603;chr4_251483_251521 0.00 NA NA NA NA NA NA 0.00 4.55 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD Cctgamma chr3R + chr3R_12473409_12473557;chr3R_12473318_12473557;chr3R_12473479_12473557;chr3R_12473420_12473557;chr3R_12473424_12473557 chr3R_12473464_12473557 chr3R_12473558_12473651;chr3R_12473311_12473317 0.00 0.76 0.00 0.00 0.00 0.00 1.84 0.99 0.00 2.33 0.00 0.00 0.00 0.92 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.65 0.00 0.00 1.39 0.00 1.04 0.00 0.00 0.87 1.67 0.00 0.00 1.45 0.00 0.00 0.90 0.00 0.00 0.00 0.65 1.14 2.41 1.59 0.00 2.33 0.00 1.09 0.00 0.00 0.00 0.00 0.00 0.00 0.93 0.00 0.00 K jcn_only_AA CG31998,I_chr4_225419_226294 chr4 - chr4_225201_225265 chr4_225219_225265 chr4_225266_225418;chr4_225086_225200 10.00 NA NA 6.52 NA NA 11.90 17.24 10.00 NA NA 13.64 NA 23.08 NA 10.00 NA NA 9.38 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 12.00 NA NA NA NA NA NA NA 5.26 9.52 NA NA NA NA NA 6.12 NA NA NA NA NA 17.39 NA NA NA K jcn_only_AA CG1599,RI_chr2R_5728855_5728907,I_chr2R_5728977_5729044,I_chr2R_5729744_5729805 chr2R - chr2R_5728977_5729044 chr2R_5728981_5729044 chr2R_5729045_5729112;chr2R_5728914_5728976 99.44 99.36 99.19 100.00 100.00 100.00 100.00 99.02 99.23 98.67 100.00 100.00 99.18 100.00 99.44 100.00 98.94 98.58 100.00 99.68 99.20 100.00 98.90 98.66 98.99 100.00 99.41 98.55 100.00 97.98 98.48 100.00 99.07 98.99 100.00 100.00 98.48 97.35 100.00 99.11 98.71 99.61 97.03 100.00 100.00 98.61 99.49 99.27 100.00 100.00 99.39 100.00 100.00 100.00 100.00 100.00 99.39 99.32 K alternative_donor CG13367 chrX + chrX_539947_540022 chrX_539951_540022 chrX_540023_540419;chrX_538794_539946 0.00 0.00 NA 6.25 NA NA NA 0.00 0.00 NA NA 0.00 NA NA 0.00 0.00 NA NA NA 0.00 NA 0.00 3.23 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 NA 5.56 0.00 0.00 NA 0.00 3.33 NA 0.00 0.00 0.00 K alternative_donor Rab30,I_chr2L_7032178_7032236 chr2L - chr2L_7032178_7032244;chr2L_7032178_7032310;chr2L_7032178_7032321 chr2L_7032178_7032236 chr2L_7032078_7032177;chr2L_7032322_7032336 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 13.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 7.69 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 K cassette CG42555 chr2L + chr2L_16896358_16897487 chr2L_16896358_16896808;chr2L_16896905_16897487 chr2L_16896809_16896904 chr2L_16896237_16896357;chr2L_16897488_16898037 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.52 NA NA 1.75 0.00 2.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.38 0.00 NA 0.00 0.00 0.00 NA 0.00 3.57 0.00 NA 0.00 1.47 3.57 5.56 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 NA NA NA 0.00 0.00 NA 0.00 NA NA NA 0.00 NA NA NA K intron_retention mRpS17 chr2R - chr2R_20061719_20061782 chr2R_20061718_20061719;chr2R_20061782_20061783 chr2R_20061187_20061718;chr2R_20061783_20061938 0.00 0.00 0.00 0.98 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.19 5.08 5.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.92 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.15 0.00 0.00 K alternative_acceptor Mocs1 chr3L + chr3L_11065511_11065569;chr3L_11065511_11065549 chr3L_11065511_11065661 chr3L_11064659_11065510;chr3L_11065662_11066454 31.58 40.91 27.27 25.81 9.09 27.78 22.86 43.33 32.43 42.86 46.15 27.59 46.15 30.77 38.89 14.81 9.09 17.65 35.00 35.14 53.33 31.82 27.91 33.33 22.22 38.89 40.48 34.48 44.62 21.88 33.33 32.43 14.29 25.00 28.00 45.16 24.00 33.33 28.12 30.00 34.69 26.47 20.00 25.64 37.74 39.53 28.57 36.36 37.50 25.00 34.29 22.22 26.67 26.67 31.58 20.83 35.48 32.14 K jcn_only_AA CG30372,coilin,I_chr2R_4012973_4013037,RI_chr2R_4012976_4013037 chr2R - chr2R_4012976_4013037;chr2R_4012973_4013037 chr2R_4012979_4013037 chr2R_4013038_4013137;chr2R_4012876_4012972 81.93 81.25 73.08 89.19 80.95 77.27 86.36 86.36 85.00 NA 85.00 73.68 78.26 NA 77.27 82.93 75.00 86.36 86.96 82.93 80.95 NA 78.57 95.45 78.26 79.17 83.87 NA NA 84.62 84.09 NA 92.31 86.05 80.00 NA 79.17 NA NA 72.97 95.00 79.59 NA 73.53 76.00 88.10 63.41 NA 92.86 76.00 76.67 82.61 NA NA 84.62 83.33 70.83 90.32 K alternative_acceptor par-1,I_chr2R_15348122_15353660,RI_chr2R_15348122_15356294,EF_chr2R_15349994_15351814,F_chr2R_15349994_15351846,noncoding_8037,I_chr2R_15350149_15350210,FI_chr2R_15350149_15351814,I_chr2R_15350437_15351814,I_chr2R_15350437_15351825,I_chr2R_15350905_15351814,RI_chr2R_15355419_15356294,F_chr2R_15362147_15365138,RI_chr2R_15363358_15365120,I_chr2R_15365210_15370456 chr2R + chr2R_15350149_15350210;chr2R_15350149_15351814 chr2R_15350149_15351846 chr2R_15350068_15350148;chr2R_15351847_15351914 16.67 33.33 33.33 33.33 33.33 33.33 0.00 0.00 0.00 33.33 NA 25.00 33.33 12.50 0.00 9.09 0.00 20.00 16.67 8.33 20.00 0.00 41.67 33.33 20.00 27.27 NA 0.00 20.00 0.00 11.11 NA 33.33 0.00 0.00 0.00 NA NA 66.67 14.29 0.00 9.09 0.00 20.00 NA 50.00 0.00 20.00 7.69 NA 20.00 14.29 NA NA 16.67 NA 25.00 0.00 K jcn_only_AD CG18624,RI_chrX_7787450_7787620,RI_chrX_7787450_7787687,RI_chrX_7787524_7787687 chrX - chrX_7787524_7787782 chrX_7787524_7787620 chrX_7787424_7787523;chrX_7787783_7787787 27.70 12.37 11.86 22.98 11.56 7.65 23.96 20.13 11.68 44.00 10.53 12.77 15.71 14.47 9.23 20.82 11.39 10.43 13.24 8.66 11.76 67.39 28.30 46.67 33.33 25.41 78.57 NA 79.31 55.17 17.19 46.27 58.44 14.52 60.00 71.79 48.39 30.61 40.48 30.38 51.52 9.41 16.46 62.16 21.94 55.74 51.92 52.70 11.27 57.14 46.81 28.12 27.27 61.90 8.82 52.08 34.34 43.04 K intron_retention osa chr3R - chr3R_13519178_13519245 chr3R_13519177_13519178;chr3R_13519245_13519246 chr3R_13514880_13519177;chr3R_13519246_13519327 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.39 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Rm62,I_chr3R_1827459_1827554,I_chr3R_1828444_1829394,I_chr3R_1828476_1829394 chr3R - chr3R_1827459_1827784 chr3R_1827458_1827459;chr3R_1827784_1827785 chr3R_1827359_1827458;chr3R_1827785_1828820 42.86 41.67 58.33 57.14 58.33 NA 56.25 55.56 52.00 40.91 46.15 36.36 50.00 50.00 53.85 36.84 57.14 45.45 42.86 40.00 41.67 NA 47.06 50.00 41.67 25.00 29.63 40.00 47.06 50.00 35.71 33.33 22.22 54.55 66.67 42.86 26.32 42.86 55.00 50.00 40.00 66.67 40.00 33.33 33.33 40.74 58.33 27.27 46.15 42.86 39.13 30.77 29.17 43.75 NA 44.00 50.00 36.36 K cassette bol,RI_chr3L_9117011_9118271 chr3L - chr3L_9106588_9118266;chr3L_9106588_9118271 chr3L_9106588_9116715;chr3L_9116901_9118266,chr3L_9116901_9118271 chr3L_9116716_9116900 chr3L_9106512_9106587;chr3L_9118272_9118272 100.00 NA NA NA NA NA 100.00 87.50 91.67 NA NA 100.00 NA 100.00 NA 100.00 NA NA 85.71 NA NA NA NA NA NA NA NA NA NA NA 71.43 NA NA 100.00 NA NA NA NA NA NA NA 87.50 NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA N jcn_only_AA Droj2,RI_chr3R_9207981_9208471,RI_chr3R_9208529_9209185 chr3R + chr3R_9207981_9209956;chr3R_9207981_9208471 chr3R_9207981_9209185 chr3R_9207926_9207980;chr3R_9209957_9210301 97.98 99.30 99.38 81.43 100.00 99.72 97.03 93.36 97.53 99.72 99.40 96.97 96.65 96.73 99.22 98.71 99.67 97.08 97.62 99.54 100.00 97.52 98.20 99.78 93.94 91.43 95.37 96.29 97.06 98.42 99.66 97.18 99.28 97.10 99.80 98.68 96.68 97.36 97.48 98.29 96.74 98.08 99.44 96.25 95.99 97.73 99.57 98.26 97.43 100.00 97.98 99.71 98.26 99.54 97.58 97.87 97.06 98.99 K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2388671_2390808 chrX_2388671_2389073;chrX_2389272_2389980;chrX_2390067_2390493;chrX_2390627_2390808 chrX_2389074_2389271;chrX_2389981_2390066;chrX_2390494_2390626 chrX_2388641_2388670;chrX_2390809_2390957 60.00 NA NA NA NA NA NA NA NA NA NA 60.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K cassette sw chrX - chrX_20106821_20107156 chrX_20106821_20106877;chrX_20107025_20107156 chrX_20106878_20107024 chrX_20106583_20106820;chrX_20107157_20107424 1.47 1.27 1.28 0.00 1.47 1.72 2.04 1.98 1.47 1.72 1.23 0.95 1.41 1.96 1.11 2.22 1.54 1.49 1.52 1.76 2.53 1.46 1.15 3.77 1.96 2.90 0.00 0.00 0.98 1.25 2.78 0.99 1.18 1.94 0.00 1.19 1.95 2.41 2.35 0.65 1.32 2.00 1.67 1.35 2.34 1.83 0.00 1.52 1.79 1.47 1.37 0.00 3.57 1.72 1.10 2.44 1.10 1.16 K alternative_acceptor RI_chr3L_19994894_19994949,CG7668,RI_chr3L_19995983_19996407 chr3L + chr3L_19996093_19996407 chr3L_19996093_19996402 chr3L_19995858_19996092;chr3L_19996408_19996507 74.45 72.73 63.16 70.00 75.00 76.47 67.44 75.68 73.85 80.00 80.00 80.56 66.67 65.38 84.00 67.44 62.50 76.00 78.57 71.93 88.24 88.89 72.41 84.21 72.73 80.95 77.27 80.00 81.82 89.47 65.71 90.00 76.47 71.79 83.33 76.92 75.00 64.29 66.67 84.62 71.43 78.79 61.11 70.83 75.00 73.91 73.33 61.11 72.73 78.57 89.47 66.67 NA 63.64 69.57 71.43 76.19 70.00 K alternative_donor Pi3K92E,I_chr3R_16459436_16459551,I_chr3R_16459436_16459848 chr3R - chr3R_16459436_16459848;chr3R_16459436_16460340;chr3R_16459436_16460287;chr3R_16459436_16459551 chr3R_16459436_16460267 chr3R_16459336_16459435;chr3R_16460341_16460435 71.43 72.22 73.68 55.26 50.00 71.43 74.07 62.50 71.43 88.89 66.67 65.79 78.95 60.71 63.64 59.46 52.94 57.14 76.19 66.67 69.23 75.00 66.67 93.33 90.91 88.24 68.42 76.92 75.00 60.00 64.00 100.00 64.29 63.33 73.33 63.64 73.68 81.82 75.00 72.97 57.14 78.12 73.33 78.57 100.00 66.67 70.00 80.00 75.00 62.50 66.67 61.11 100.00 100.00 66.67 41.67 72.73 71.43 K jcn_only_AD CG12703 chrX + chrX_19645123_19645380;chrX_19645198_19645380;chrX_19645200_19645380;chrX_19645202_19645380;chrX_19645171_19645380 chrX_19644924_19645380 chrX_19645381_19645579;chrX_19644833_19644923 4.58 5.75 2.92 17.44 2.06 9.41 2.48 12.71 7.25 5.71 2.50 3.86 2.86 6.12 3.17 0.00 6.60 11.43 5.45 6.12 2.73 2.68 8.33 9.80 1.52 2.41 6.03 3.64 0.00 5.92 1.67 1.10 0.32 6.42 5.13 0.87 7.06 3.23 6.45 4.58 0.77 5.78 4.90 3.67 3.70 2.99 9.18 0.47 5.86 0.00 7.20 3.12 3.03 7.58 7.14 7.92 9.80 0.50 K alternative_last_exon CdGAPr,fs(2)ltoPP43,E_chr2L_19794633_19794811 chr2L - chr2L_19793403_19794582 chr2L_19794309_19794582 chr2L_19793224_19793402 chr2L_19793486_19794308 chr2L_19794583_19794632 21.88 20.45 21.43 45.45 18.42 20.00 33.87 37.50 31.11 9.09 35.71 22.39 36.36 35.29 22.50 45.90 32.35 25.00 33.33 23.75 23.33 17.81 21.88 20.00 18.42 17.39 34.78 39.47 17.86 15.28 28.95 13.33 18.28 32.26 22.86 14.00 11.59 14.29 8.47 13.89 16.42 24.36 31.43 13.85 14.63 19.75 19.57 9.82 29.49 32.73 22.81 23.08 14.58 18.18 24.44 18.97 22.86 10.32 N cassette kuz,E_chr2L_13550294_13551106,CE_chr2L_13558833_13594255,I_chr2L_13636762_13637287 chr2L + chr2L_13551667_13609790 chr2L_13551667_13558799;chr2L_13558833_13609790 chr2L_13558800_13558832 chr2L_13551569_13551666;chr2L_13609791_13609888 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 35.29 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA K alternative_donor RpS27,I_chr3R_21072390_21072647,I_chr3R_21072390_21072710,I_chr3R_21072390_21073049 chr3R - chr3R_21072390_21073154 chr3R_21072390_21072710 chr3R_21072290_21072389;chr3R_21073155_21073223 1.03 0.82 0.56 0.26 0.23 0.46 0.75 0.45 0.41 1.67 0.53 0.65 1.00 0.59 0.44 0.82 0.37 0.53 0.42 0.61 0.74 4.14 6.30 2.95 2.85 0.77 8.71 9.69 5.67 4.17 0.69 1.75 2.00 0.46 4.56 6.43 1.03 2.86 1.69 1.73 3.18 0.36 0.46 3.86 0.75 3.57 2.55 1.37 0.80 2.22 10.70 2.11 1.49 17.24 0.52 3.12 1.04 0.75 K intron_retention RpS15Aa,I_chrX_13230413_13230955,I_chrX_13230413_13230960 chrX - chrX_13230413_13231537 chrX_13230412_13230413;chrX_13231537_13231538 chrX_13230313_13230412;chrX_13231538_13231572 0.05 0.05 0.03 0.03 0.04 0.04 0.03 0.04 0.04 0.11 0.02 0.05 0.05 0.03 0.05 0.05 0.06 0.02 0.06 0.03 0.04 0.18 0.13 0.07 0.03 0.03 0.29 1.11 0.14 0.12 0.03 0.04 0.08 0.03 0.25 0.22 0.03 0.03 0.04 0.11 0.21 0.05 0.03 0.07 0.04 0.11 0.07 0.11 0.12 0.10 0.19 0.05 0.15 0.14 0.06 0.06 0.07 0.09 K intron_retention CG8230 chr2R - chr2R_4832756_4832814 chr2R_4832755_4832756;chr2R_4832814_4832815 chr2R_4832633_4832755;chr2R_4832815_4833312 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.70 0.00 0.00 2.73 0.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.55 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG5284,I_chr3L_16086347_16086804 chr3L + chr3L_16087871_16087928 chr3L_16087870_16087871;chr3L_16087928_16087929 chr3L_16087707_16087870;chr3L_16087929_16088142 0.00 0.00 0.00 3.49 0.00 0.00 0.00 0.00 0.83 0.00 0.00 0.00 0.00 0.00 0.00 0.67 0.00 0.00 0.00 0.97 0.00 0.00 1.34 0.00 0.00 0.00 0.78 0.95 0.00 0.00 0.00 1.20 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.26 0.00 1.51 0.00 0.00 3.30 0.00 0.00 0.00 0.00 0.00 1.94 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG18317,RI_chr2L_1718492_1723881 chr2L - chr2L_1718492_1718674;chr2L_1718492_1718739 chr2L_1718492_1718695 chr2L_1718421_1718491;chr2L_1718740_1718903 33.33 44.44 34.43 37.70 29.55 26.09 25.61 36.26 33.86 23.42 27.27 31.78 32.00 16.22 33.96 40.00 28.21 11.36 31.03 45.83 40.91 44.68 36.27 32.31 23.26 26.83 31.18 40.74 34.62 31.43 26.15 50.00 41.67 34.02 41.77 39.44 28.28 28.33 29.60 78.63 36.14 29.06 26.19 40.19 31.68 31.07 36.05 33.80 40.37 47.95 39.29 33.33 31.51 31.75 32.84 39.58 31.15 35.14 K intron_retention tho2 chr2L - chr2L_2137795_2137882 chr2L_2137794_2137795;chr2L_2137882_2137883 chr2L_2137468_2137794;chr2L_2137883_2137926 32.58 35.00 26.32 24.24 50.00 20.00 36.67 28.21 33.33 NA 40.91 26.19 30.00 33.33 21.88 30.77 36.36 22.22 31.82 39.13 40.00 61.11 34.21 27.59 46.67 46.67 19.05 31.58 61.54 25.00 26.32 25.00 24.24 35.48 36.84 52.17 29.03 43.75 39.13 23.33 59.46 35.56 35.71 29.17 20.51 35.71 29.17 48.98 29.27 37.93 28.95 41.67 22.73 24.14 25.93 47.83 22.22 35.71 K intron_retention PMCA,I_chr4_350028_350896,E_chr4_350055_363541,I_chr4_350064_350896,I_chr4_350959_363547,I_chr4_352629_354970,I_chr4_352629_358161,RI_chr4_355160_363547,I_chr4_371836_372509,I_chr4_373671_374568,I_chr4_376108_379519 chr4 - chr4_350966_352023 chr4_350965_350966;chr4_352023_352024 chr4_350897_350965;chr4_352024_352628 84.21 82.61 84.00 97.14 63.64 90.00 100.00 87.72 88.52 NA 58.82 79.07 100.00 80.56 86.36 93.10 85.71 91.67 81.48 82.93 70.59 86.67 78.79 89.66 94.12 64.29 76.67 NA 83.33 73.33 56.00 58.33 NA 93.18 86.96 92.31 NA 63.16 63.64 85.71 91.67 84.91 90.91 73.53 80.00 76.67 73.68 84.21 94.74 80.95 94.29 100.00 90.00 73.68 84.21 73.91 80.77 85.71 K jcn_only_AD CG5484 chr3R + chr3R_22543749_22544049;chr3R_22543734_22544049 chr3R_22543722_22544049 chr3R_22544050_22544588;chr3R_22543570_22543721 98.23 98.39 100.00 99.24 98.90 97.47 99.24 99.36 98.14 97.01 99.20 98.58 98.96 98.53 98.32 93.94 98.94 100.00 98.85 99.47 97.53 98.70 97.16 95.97 94.81 96.10 94.67 97.06 97.53 98.75 98.80 98.04 100.00 97.81 98.39 97.37 96.10 95.87 100.00 96.46 97.14 98.89 98.73 98.23 93.51 92.00 96.46 100.00 97.33 95.70 96.46 98.92 95.65 98.36 96.59 98.37 98.36 95.06 K alternative_acceptor CG3803,RI_chr2R_19840910_19840971 chr2R - chr2R_19840910_19840971 chr2R_19840914_19840971 chr2R_19840972_19841040;chr2R_19840850_19840909 100.00 100.00 90.91 92.31 88.89 87.50 100.00 100.00 95.24 100.00 NA 93.75 100.00 100.00 100.00 100.00 90.00 NA NA 100.00 100.00 100.00 88.89 88.89 NA 100.00 87.50 NA NA NA 91.67 88.89 NA 94.74 NA NA 100.00 100.00 91.67 100.00 100.00 100.00 NA NA 100.00 100.00 90.00 100.00 95.00 NA 100.00 NA NA NA 100.00 100.00 NA 87.50 K intron_retention TMS1 chr3L + chr3L_16407594_16407920 chr3L_16407593_16407594;chr3L_16407920_16407921 chr3L_16407384_16407593;chr3L_16407921_16408056 90.91 100.00 89.47 93.33 85.71 90.32 90.70 88.64 92.16 90.62 88.89 87.23 92.31 96.00 96.15 96.30 91.30 90.48 84.62 87.84 92.86 93.10 96.15 90.48 94.44 92.59 91.67 89.06 93.67 87.50 96.00 90.91 87.50 89.58 90.00 82.76 89.16 91.30 92.98 93.22 88.64 90.38 86.96 93.55 87.50 94.12 93.33 85.00 90.91 90.24 90.91 96.88 96.15 97.06 84.62 92.59 90.00 72.09 K intron_retention Tif-IA chr2L + chr2L_22250315_22250371 chr2L_22250314_22250315;chr2L_22250371_22250372 chr2L_22250120_22250314;chr2L_22250372_22250483 0.00 0.00 0.00 0.00 0.00 1.27 0.99 2.05 0.00 5.71 0.00 0.00 1.09 0.00 0.00 0.00 0.00 1.49 0.81 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.11 0.00 2.50 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.00 0.00 0.00 0.97 0.00 0.00 0.00 4.48 0.00 3.17 0.00 0.00 0.00 0.00 2.44 0.00 0.00 0.00 0.00 1.72 2.47 0.00 K intron_retention p47,Aldh-III,RE_chr2R_3355332_3355720,I_chr2R_3356541_3356614,RI_chr2R_3357578_3357636,I_chr2R_3361118_3361226,I_chr2R_3361349_3361499 chr2R - chr2R_3354556_3354978 chr2R_3354555_3354556;chr2R_3354978_3354979 chr2R_3354549_3354555;chr2R_3354979_3354987 100.00 100.00 NA 100.00 NA NA 100.00 100.00 100.00 NA NA 100.00 NA 100.00 NA 100.00 NA NA 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 NA NA NA NA NA NA NA 100.00 NA 100.00 92.31 NA 100.00 100.00 NA 100.00 NA NA NA 92.86 NA NA 100.00 88.89 100.00 NA NA NA 100.00 NA 87.50 NA K cassette Hsc70-4,EI_chr3R_11068693_11068772 chr3R + chr3R_11068522_11070081 chr3R_11068522_11068631;chr3R_11068736_11070081 chr3R_11068632_11068735 chr3R_11068453_11068521;chr3R_11070082_11072336 0.06 0.06 0.09 0.00 0.08 0.10 0.08 0.05 0.05 0.13 0.15 0.08 0.06 0.05 0.00 0.07 0.00 0.06 0.09 0.04 0.07 0.02 0.07 0.11 0.14 0.00 0.14 0.18 0.19 0.05 0.07 0.11 0.02 0.06 0.03 0.03 0.08 0.12 0.00 0.15 0.17 0.06 0.06 0.06 0.11 0.12 0.04 0.12 0.06 0.05 0.06 0.05 0.12 0.09 0.00 0.07 0.00 0.05 K intron_retention CG9932,I_chr2L_13031395_13035824 chr2L - chr2L_13028540_13028867 chr2L_13028539_13028540;chr2L_13028867_13028868 chr2L_13027809_13028539;chr2L_13028868_13029642 15.38 21.43 NA 29.41 NA NA 22.22 14.29 10.71 NA NA 15.38 NA 0.00 0.00 13.33 NA NA 28.57 16.67 NA 12.24 11.11 NA NA NA NA 20.00 17.65 14.29 NA NA 18.37 10.53 NA 36.36 8.70 NA 16.67 10.34 NA 10.53 20.00 21.43 15.38 21.43 NA 25.71 8.33 15.38 NA NA NA NA 10.53 NA NA 0.00 K alternative_donor CG18317,RI_chr2L_1718492_1723881 chr2L - chr2L_1718492_1718674;chr2L_1718492_1718739 chr2L_1718492_1718695 chr2L_1718421_1718491;chr2L_1718740_1718903 37.93 47.62 38.46 42.11 34.78 30.30 29.55 41.30 38.24 26.19 33.33 36.62 38.46 22.73 41.18 43.48 30.43 16.67 36.11 49.02 46.43 46.27 38.71 36.17 26.47 33.33 33.33 42.25 37.93 34.48 28.95 50.85 45.24 38.89 42.22 42.00 32.91 32.56 33.77 78.63 39.22 32.43 30.00 42.47 35.94 35.48 40.91 37.06 43.75 51.28 41.18 38.10 35.29 35.29 37.84 41.86 33.33 38.54 K intron_retention jim,I_chr3L_22791582_22791898 chr3L - chr3L_22791579_22791901 chr3L_22791578_22791579;chr3L_22791901_22791902 chr3L_22791482_22791578;chr3L_22791902_22791998 14.29 NA NA 14.29 NA NA NA NA 0.00 NA NA 26.67 NA NA NA NA NA NA NA 9.52 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 21.43 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention Mlf,noncoding_7111,I_chr2R_11824086_11824186,REI_chr2R_11824089_11824525,CEI_chr2R_11826763_11827279 chr2R - chr2R_11824086_11824186 chr2R_11824085_11824086;chr2R_11824186_11824187 chr2R_11823989_11824085;chr2R_11824187_11824286 75.00 76.47 NA 71.88 NA NA NA 92.86 85.19 NA NA 70.97 NA 85.71 81.82 60.00 90.00 NA 76.92 79.17 NA 71.43 72.00 60.00 53.33 NA 75.00 58.82 59.09 73.68 60.00 93.75 69.23 76.47 75.00 63.16 73.33 75.00 85.00 81.08 70.00 71.43 NA 58.62 54.55 75.86 72.73 72.00 90.91 87.50 82.35 72.73 84.62 90.91 90.00 71.43 91.67 83.33 K alternative_acceptor CG2219,I_chr4_199813_199889,RI_chr4_202143_202194 chr4 - chr4_199463_199562 chr4_199507_199562 chr4_199563_199629;chr4_199407_199462 86.67 80.00 86.21 87.72 80.95 95.65 96.55 89.66 90.36 100.00 86.21 81.54 88.57 91.30 84.00 83.64 87.50 85.71 86.84 89.09 100.00 90.48 77.50 86.67 86.67 84.21 96.55 94.12 100.00 85.71 79.41 90.00 84.38 88.14 95.24 77.27 76.47 87.50 77.27 97.44 91.67 85.00 77.78 83.67 90.48 83.33 85.71 92.31 83.10 87.88 86.05 84.00 84.62 80.00 91.67 89.66 78.57 84.09 K alternative_acceptor CG4996,E_chr2R_13627553_13627643,I_chr2R_13629549_13629609 chr2R + chr2R_13629549_13629609 chr2R_13629549_13629605 chr2R_13629449_13629548;chr2R_13629610_13629709 93.33 87.50 90.00 100.00 87.50 NA 93.33 87.50 94.74 NA 88.89 91.67 NA NA 100.00 94.12 NA 90.00 100.00 96.30 NA 92.31 92.31 80.00 NA 100.00 90.00 100.00 100.00 88.89 78.57 90.00 91.67 92.31 100.00 100.00 100.00 NA 92.86 100.00 100.00 94.74 80.00 88.89 NA 100.00 NA 100.00 93.75 100.00 100.00 NA NA NA 81.82 NA NA NA K jcn_only_AA Pdp1,RI_chr3L_7809841_7810536,I_chr3L_7813130_7818683,I_chr3L_7831960_7846282 chr3L - chr3L_7809841_7810536;chr3L_7809826_7810536 chr3L_7809712_7810536 chr3L_7810537_7810636;chr3L_7809584_7809711 11.11 8.97 6.35 14.29 11.54 14.52 9.09 11.76 8.55 8.11 24.07 16.67 6.06 10.87 5.36 15.79 5.17 16.13 3.57 11.63 12.50 7.07 11.54 10.10 8.45 12.00 15.93 6.25 10.45 11.84 7.27 13.89 20.00 11.90 18.75 5.41 8.96 8.91 7.81 11.21 2.50 7.53 14.63 6.25 14.93 9.23 17.46 4.12 11.11 4.21 7.94 11.48 31.37 14.06 10.45 12.66 16.05 11.36 K intron_retention l(3)neo26,Cat chr3L + chr3L_18814350_18814406 chr3L_18814349_18814350;chr3L_18814406_18814407 chr3L_18814295_18814349;chr3L_18814407_18815454 14.58 7.22 19.51 44.00 8.57 20.45 28.81 13.04 9.09 9.18 13.56 23.26 14.29 13.16 20.00 27.59 8.16 14.81 14.04 23.33 18.52 23.33 26.73 10.74 26.56 37.50 24.39 30.19 27.59 15.52 11.11 15.38 19.59 12.50 9.88 61.70 7.91 7.89 8.27 11.76 32.93 14.66 18.18 8.99 15.60 16.06 4.50 14.58 16.19 10.08 8.18 12.66 4.55 9.64 13.89 9.43 9.09 14.58 K alternative_donor Mbs,I_chr3L_16045251_16046108,RI_chr3L_16045275_16045854,RI_chr3L_16045275_16046111,RI_chr3L_16045277_16046104,I_chr3L_16045316_16046104,I_chr3L_16057100_16057329 chr3L + chr3L_16045316_16046104;chr3L_16045277_16046104;chr3L_16045275_16046104 chr3L_16045251_16046104 chr3L_16046105_16046204;chr3L_16045216_16045250 66.67 61.29 60.00 70.27 52.17 70.45 61.54 63.75 62.67 81.82 58.62 67.57 57.78 63.27 77.08 62.50 64.86 46.15 67.24 70.37 70.97 66.67 64.81 58.82 60.71 63.16 65.96 70.00 66.67 77.36 71.70 86.96 73.33 66.67 70.59 51.35 65.38 71.43 53.12 76.56 68.97 63.64 67.44 67.50 86.96 75.76 77.78 79.22 57.89 64.29 64.10 62.50 86.67 NA 55.93 70.83 75.00 91.07 K jcn_only_AD CG11984,I_chr3R_4837327_4837766,I_chr3R_4845450_4845598 chr3R - chr3R_4839215_4839655;chr3R_4839215_4839561;chr3R_4839215_4839851;chr3R_4839215_4839728;chr3R_4839215_4839799 chr3R_4839215_4839889 chr3R_4839038_4839214;chr3R_4839890_4839901 8.00 0.00 9.09 10.00 NA NA NA 16.67 18.60 NA NA 9.09 NA NA NA NA NA NA 8.00 13.33 NA 0.00 4.76 NA NA 13.64 0.00 NA NA NA NA NA NA 13.64 NA NA NA NA NA 0.00 NA 17.14 NA 5.00 NA 4.55 NA NA 12.82 0.00 NA NA NA NA NA NA 0.00 0.00 K intron_retention myoglianin,RI_chr4_712986_714006,E_chr4_716066_716347,RI_chr4_716066_716482,RI_chr4_716153_716613,E_chr4_716172_716351 chr4 - chr4_716153_716322 chr4_716152_716153;chr4_716322_716323 chr4_716072_716152;chr4_716323_716675 88.89 NA NA 100.00 NA NA 87.50 89.47 78.79 NA NA 81.82 NA 87.50 NA 85.00 87.50 NA NA 90.91 NA NA 87.50 NA NA NA NA NA NA NA NA NA NA 90.00 NA NA NA NA NA NA NA 90.48 NA NA NA NA NA NA 95.00 NA 100.00 88.89 NA NA NA NA NA NA K alternative_donor Rrp42,RI_chr2R_11902769_11902844 chr2R + chr2R_11902769_11902844 chr2R_11902794_11902844 chr2R_11902845_11902944;chr2R_11902669_11902768 100.00 NA 100.00 100.00 100.00 100.00 92.31 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 93.75 92.31 90.00 100.00 100.00 NA 100.00 88.89 90.00 100.00 100.00 91.67 100.00 100.00 100.00 92.31 100.00 91.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 91.67 100.00 100.00 96.00 K intron_retention CG11984,I_chr3R_4837327_4837766,I_chr3R_4845450_4845598 chr3R - chr3R_4839215_4839561 chr3R_4839214_4839215;chr3R_4839561_4839562 chr3R_4839038_4839214;chr3R_4839562_4839628 20.00 25.00 NA 20.00 NA NA NA 6.67 27.27 NA NA 25.00 NA NA NA 30.77 NA NA NA NA NA 5.00 NA NA NA NA 12.50 NA NA NA NA NA NA 33.33 NA NA NA NA NA 31.25 NA 14.29 NA NA NA NA NA NA 6.67 NA NA NA NA NA NA NA NA 14.29 K intron_retention fdl,RI_chr2R_8394261_8394315 chr2R - chr2R_8376586_8376650 chr2R_8376585_8376586;chr2R_8376650_8376651 chr2R_8376267_8376585;chr2R_8376651_8377386 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.86 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.72 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N multi_cassette CG1161,RI_chr3R_1181273_1181459,I_chr3R_1182079_1182146 chr3R + chr3R_1181273_1182146 chr3R_1181273_1181515;chr3R_1181665_1181724;chr3R_1181851_1181905;chr3R_1181959_1182146 chr3R_1181516_1181664;chr3R_1181725_1181850;chr3R_1181906_1181958 chr3R_1181173_1181272;chr3R_1182147_1182246 100.00 100.00 100.00 100.00 100.00 100.00 86.44 100.00 92.06 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 94.24 100.00 89.86 85.00 86.89 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 67.11 100.00 100.00 100.00 100.00 100.00 100.00 89.47 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 85.71 100.00 100.00 100.00 100.00 100.00 K intron_retention SMSr chr3L - chr3L_7368216_7368279 chr3L_7368215_7368216;chr3L_7368279_7368280 chr3L_7367142_7368215;chr3L_7368280_7368446 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.06 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.59 0.00 0.00 0.00 0.00 0.00 0.00 3.39 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.26 0.00 0.00 0.00 1.92 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Ant2,sesB chrX - chrX_10676714_10676809 chrX_10676713_10676714;chrX_10676809_10676810 chrX_10676413_10676713;chrX_10676810_10676873 66.67 NA 66.67 69.23 77.78 NA 72.73 50.00 68.42 NA NA 75.00 71.43 71.43 NA 58.33 NA 33.33 60.00 84.62 NA NA 75.00 50.00 NA 90.00 75.00 NA NA NA 72.73 NA NA 60.00 46.15 66.67 63.64 50.00 64.29 53.33 NA 76.47 66.67 75.00 35.71 81.82 NA 66.67 77.78 NA NA NA NA NA 50.00 58.33 NA NA K intron_retention CG32000,I_chr4_154340_157504,I_chr4_154551_155461,I_chr4_155591_155927,I_chr4_157014_157316,RI_chr4_157014_157504,I_chr4_157794_157864 chr4 + chr4_154340_155497 chr4_154339_154340;chr4_155497_155498 chr4_154254_154339;chr4_155498_155561 100.00 100.00 100.00 82.61 100.00 90.91 94.29 95.24 100.00 NA 100.00 90.00 100.00 95.24 100.00 100.00 93.33 90.91 96.00 100.00 88.89 NA 93.75 NA NA 100.00 90.91 NA NA 100.00 100.00 NA NA 96.67 100.00 100.00 100.00 NA NA 100.00 NA 93.10 91.30 85.71 NA 100.00 NA NA 97.22 NA 100.00 92.31 NA NA 100.00 NA NA NA K intron_retention CG42600,F_chr2R_5481088_5481893 chr2R - chr2R_5475836_5475895 chr2R_5475835_5475836;chr2R_5475895_5475896 chr2R_5475458_5475835;chr2R_5475896_5476310 66.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 66.67 NA 80.00 88.89 NA NA NA NA NA NA NA 81.25 NA NA NA NA NA NA NA 42.86 52.94 NA NA NA NA 53.33 53.85 NA 70.00 NA NA NA NA NA NA NA NA NA NA K cassette CG31342,I_chr3R_8813079_8814327,I_chr3R_8822346_8822403 chr3R + chr3R_8813079_8814327 chr3R_8813079_8813154;chr3R_8813207_8814327 chr3R_8813155_8813206 chr3R_8812979_8813078;chr3R_8814328_8814427 97.44 97.67 97.78 100.00 100.00 100.00 94.55 98.25 97.50 91.67 86.67 94.74 100.00 100.00 100.00 97.56 100.00 100.00 97.14 95.29 91.43 88.31 98.33 97.96 94.12 90.32 92.31 97.22 81.82 95.83 97.22 96.30 97.62 98.46 97.44 84.09 98.46 97.62 98.33 97.26 97.44 97.56 96.30 98.25 97.22 100.00 97.30 97.62 98.46 100.00 94.74 100.00 96.15 96.67 100.00 96.67 94.74 92.31 K intron_retention Pros45 chrX + chrX_21187223_21187285 chrX_21187222_21187223;chrX_21187285_21187286 chrX_21187054_21187222;chrX_21187286_21187430 0.78 0.91 0.48 0.38 0.00 0.62 0.78 0.78 0.49 0.00 0.00 1.06 0.00 1.88 0.00 0.97 0.00 0.56 0.00 0.76 0.00 1.24 1.00 2.03 2.68 0.55 3.55 0.00 14.08 0.00 0.72 2.15 0.47 0.72 1.43 1.71 0.44 1.02 0.00 1.49 2.19 1.20 0.00 0.90 1.38 0.60 0.00 1.88 0.90 0.55 0.87 0.00 1.13 1.06 0.84 0.00 1.20 0.83 N jcn_only_AA Nca,CG7646 chr3L + chr3L_19986423_19988473;chr3L_19986423_19987267;chr3L_19986423_19989780 chr3L_19986423_19986483 chr3L_19986365_19986422 0.00 NA 0.00 0.00 NA 0.00 19.57 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 NA 0.00 NA 0.00 NA NA 0.00 0.00 NA NA NA NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 K intron_retention CG9346 chr2R + chr2R_16899784_16899839 chr2R_16899783_16899784;chr2R_16899839_16899840 chr2R_16899667_16899783;chr2R_16899840_16900126 0.00 NA NA 22.22 NA NA 7.14 NA 0.00 NA NA 0.00 NA NA 0.00 0.00 NA NA NA 5.56 NA NA NA 0.00 NA NA NA NA NA NA 52.63 NA 7.69 0.00 NA NA NA NA NA 0.00 NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA 0.00 NA NA NA N intron_retention I_chrX_4000307_4003527,CG4857 chrX + chrX_4011429_4011996 chrX_4011428_4011429;chrX_4011996_4011997 chrX_4011323_4011428;chrX_4011997_4012308 100.00 100.00 100.00 53.85 NA 100.00 52.63 100.00 54.84 NA NA 100.00 NA 100.00 100.00 100.00 100.00 40.00 100.00 100.00 NA NA 36.00 100.00 NA 100.00 100.00 NA 100.00 57.14 69.23 NA 46.43 100.00 NA 100.00 NA NA 62.50 41.67 NA 59.26 43.75 NA NA 100.00 NA 57.14 40.00 NA 61.11 NA NA NA 47.83 100.00 45.45 NA K intron_retention Dhap-at,CG33494 chr3R - chr3R_21320143_21320838 chr3R_21320142_21320143;chr3R_21320838_21320839 chr3R_21319958_21320142;chr3R_21320839_21320926 0.00 0.00 0.00 0.27 0.00 0.31 0.29 0.38 0.56 0.00 0.00 0.42 0.28 0.00 0.00 0.28 0.82 0.00 0.00 0.36 0.00 0.67 0.00 0.00 0.00 0.00 1.13 1.06 0.27 0.00 0.17 0.00 0.00 0.00 0.44 0.00 0.00 0.00 0.00 0.00 0.18 0.44 0.00 0.00 0.25 0.00 0.00 0.00 0.00 0.36 0.00 0.00 0.00 0.00 0.00 0.30 0.31 0.00 K intron_retention phtf,I_chr2R_2629598_2630209 chr2R + chr2R_2632700_2632757 chr2R_2632699_2632700;chr2R_2632757_2632758 chr2R_2632551_2632699;chr2R_2632758_2632826 0.00 0.00 0.00 2.94 0.00 NA 0.00 0.00 0.00 NA 0.00 2.56 NA 0.00 0.00 0.00 0.00 0.00 0.00 5.88 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA NA 0.00 NA 0.00 2.86 0.00 NA 0.00 NA 0.00 0.00 NA 0.00 NA 0.00 4.55 0.00 0.00 NA 2.17 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 N intron_retention plx chr3R + chr3R_1532076_1532905 chr3R_1532075_1532076;chr3R_1532905_1532906 chr3R_1532054_1532075;chr3R_1532906_1533663 13.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 41.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 11.11 NA NA 13.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD HSPC300,I_chr2R_19915648_19915744,I_chr2R_19915648_19915903,I_chr2R_19915648_19916060 chr2R - chr2R_19915648_19915744;chr2R_19915648_19916136 chr2R_19915648_19915903 chr2R_19915548_19915647;chr2R_19916137_19916160 1.45 1.79 0.50 1.74 0.00 0.57 0.00 3.18 2.45 0.99 5.00 3.23 0.00 2.78 1.60 4.48 3.28 0.68 3.53 0.63 2.13 1.43 1.71 1.04 1.85 2.11 0.00 0.00 1.38 1.04 0.00 0.75 0.65 2.49 0.86 0.89 0.00 0.00 1.22 0.90 0.43 1.92 0.86 1.01 2.50 1.45 2.72 2.38 2.56 2.86 3.20 1.79 1.06 3.40 0.45 2.82 2.50 1.90 K intron_retention RpS25,I_chr3R_7041333_7041414,I_chr3R_7041347_7041413,I_chr3R_7041347_7041556,RI_chr3R_7044164_7044221 chr3R - chr3R_7041347_7041556 chr3R_7041346_7041347;chr3R_7041556_7041557 chr3R_7041267_7041346;chr3R_7041557_7041598 99.85 99.81 99.74 99.68 99.83 99.88 99.87 99.76 99.83 99.84 99.85 99.77 99.86 99.77 99.90 99.77 99.82 99.94 99.84 99.81 99.90 98.25 99.84 99.86 99.95 99.68 99.87 99.70 99.83 99.86 99.89 99.91 99.87 99.83 99.86 99.89 99.84 99.85 99.84 99.82 99.93 99.79 99.84 99.95 99.94 99.93 99.80 99.95 99.83 99.43 99.88 99.93 99.94 99.89 99.83 99.88 99.96 99.92 K intron_retention CG5001,I_chr2L_1191535_1191648 chr2L + chr2L_1186453_1191402 chr2L_1186452_1186453;chr2L_1191402_1191403 chr2L_1186350_1186452;chr2L_1191403_1191534 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 1.72 NA 0.00 0.00 NA 0.00 0.00 0.00 5.26 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 3.92 0.00 0.00 NA 0.00 0.00 0.00 2.63 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 K jcn_only_AA CG14425,Sxl,CG14425_Sxl,CEF_chrX_6984538_6992033 chrX - chrX_6986204_6991030;chrX_6986156_6991030 chrX_6990969_6991030 chrX_6991031_6991040 62.50 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 75.00 NA NA NA NA NA NA NA NA NA NA 50.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD M(2)21AB,I_chr2L_107839_110405,I_chr2L_107957_108587,I_chr2L_110878_111037,I_chr2L_112022_112689,RI_chr2L_132256_132482 chr2L + chr2L_108227_108587;chr2L_108102_108587;chr2L_107839_108587 chr2L_108347_108587 chr2L_108588_108687;chr2L_107833_107838 14.29 17.26 11.62 14.65 5.73 10.07 10.83 20.00 9.53 16.75 17.88 6.02 7.43 13.64 7.03 10.53 11.64 8.17 13.68 10.60 23.30 7.79 13.39 12.06 17.39 15.89 23.88 18.67 14.76 17.65 11.06 23.08 24.52 11.48 14.95 32.20 8.24 17.32 18.01 18.89 19.15 9.92 15.23 6.15 15.45 12.50 14.29 13.26 7.02 18.05 16.75 9.33 16.43 15.58 7.73 9.57 17.13 18.24 K alternative_acceptor CG4829,I_chrX_16717240_16717547 chrX + chrX_16717240_16717619;chrX_16717240_16717547 chrX_16717240_16717889 chrX_16717140_16717239;chrX_16717890_16718151 1.60 2.28 1.61 0.12 25.66 31.57 2.99 0.75 1.44 8.26 1.09 3.36 1.59 1.54 2.97 0.48 0.92 2.57 1.36 1.56 2.51 0.00 2.39 3.23 3.09 0.28 5.43 9.52 0.40 0.21 1.60 0.22 0.51 0.60 2.01 0.00 1.77 2.23 1.64 2.84 1.67 0.70 1.12 1.05 0.58 2.33 1.89 0.95 1.67 3.93 3.51 1.61 0.83 1.47 0.75 2.21 0.88 0.47 K alternative_acceptor Tm1 chr3R + chr3R_11113877_11113974 chr3R_11113877_11113951 chr3R_11113743_11113876;chr3R_11113975_11115161 87.50 NA NA 87.50 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention Nup75,I_chr2R_14058825_14059758,I_chr2R_14058954_14059942 chr2R - chr2R_14052401_14052459 chr2R_14052400_14052401;chr2R_14052459_14052460 chr2R_14051736_14052400;chr2R_14052460_14052607 0.00 0.00 0.00 0.00 0.00 2.44 0.00 0.00 1.18 0.00 0.00 1.83 0.00 0.00 0.00 2.22 0.00 1.41 0.00 0.55 0.00 8.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.55 0.00 0.00 0.00 0.00 0.00 1.72 0.00 3.92 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Mvl,I_chr3R_16884191_16886355 chr3R - chr3R_16884191_16886003 chr3R_16884190_16884191;chr3R_16886003_16886004 chr3R_16884091_16884190;chr3R_16886004_16886210 9.09 6.45 10.00 6.06 4.35 0.00 4.00 0.00 6.67 13.04 9.09 5.26 13.04 0.00 16.67 4.35 12.50 9.09 0.00 12.20 7.14 11.76 10.53 6.06 5.56 14.29 12.00 20.00 40.00 18.52 0.00 11.11 21.74 12.50 8.70 18.75 0.00 7.41 13.04 12.77 12.50 7.32 0.00 5.56 5.56 20.00 15.00 21.21 9.68 12.50 0.00 0.00 0.00 NA 6.06 NA 15.00 16.67 K intron_retention CG7011 chr3L - chr3L_15155938_15156086 chr3L_15155937_15155938;chr3L_15156086_15156087 chr3L_15155600_15155937;chr3L_15156087_15156438 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA NA NA NA NA NA 0.00 8.33 NA 0.00 0.00 NA NA NA NA NA NA 0.00 NA NA 0.00 0.00 NA NA 0.00 NA NA 0.00 NA K intron_retention Mi-2,Su(Tpl) chr3L - chr3L_19890509_19902346 chr3L_19890508_19890509;chr3L_19902346_19902347 chr3L_19890418_19890508;chr3L_19902347_19902410 23.20 30.77 NA 31.25 NA NA 31.82 36.00 23.33 NA NA 21.43 33.33 NA NA 20.00 25.00 NA 18.75 14.29 NA 35.00 8.33 NA NA NA 13.33 23.08 NA NA NA NA NA 17.86 25.00 NA 10.00 NA NA 28.57 NA 26.32 NA 22.22 NA NA NA NA 25.00 NA 21.05 NA NA NA 6.67 NA NA NA N alternative_donor CG8051,I_chrX_19198128_19201351 chrX - chrX_19198128_19199326;chrX_19198128_19201671 chrX_19198128_19199330 chrX_19198028_19198127;chrX_19201672_19201734 0.00 0.00 0.00 8.33 0.00 0.00 6.67 11.11 5.56 0.00 0.00 5.88 0.00 12.50 20.00 0.00 0.00 0.00 10.00 6.67 0.00 0.00 0.00 0.00 0.00 0.00 20.00 0.00 0.00 0.00 0.00 0.00 0.00 7.69 0.00 0.00 12.50 0.00 0.00 0.00 0.00 16.67 0.00 0.00 0.00 0.00 0.00 20.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 16.67 0.00 K jcn_only_AA CG31158,CI_chr3R_18432763_18433113,CG31159 chr3R + chr3R_18433031_18433113 chr3R_18433031_18433110 chr3R_18432919_18433030;chr3R_18433114_18433213 27.59 28.33 27.59 23.46 NA 58.14 26.15 34.44 28.57 20.00 NA 32.88 NA 44.19 42.31 20.83 68.97 41.67 36.36 22.83 NA 29.51 26.03 20.25 18.60 50.00 22.73 32.14 18.18 30.00 37.50 23.64 25.00 37.80 30.00 25.53 20.95 28.33 22.97 27.18 25.53 20.34 41.67 10.00 34.09 27.69 21.21 24.59 33.70 25.58 30.00 23.26 27.59 19.05 40.62 18.75 31.75 33.77 K intron_retention tws,I_chr3R_5960899_5960978,CG6241 chr3R - chr3R_5959310_5960101 chr3R_5959309_5959310;chr3R_5960101_5960102 chr3R_5958937_5959309;chr3R_5960102_5960121 47.99 50.00 57.14 58.06 NA 66.67 42.59 47.83 40.98 NA 58.33 48.57 31.03 48.15 47.06 50.00 43.75 43.75 52.00 48.48 54.55 30.77 40.91 50.00 NA 46.15 52.94 NA NA NA 50.00 NA NA 43.59 46.67 25.00 70.00 54.55 NA 63.16 NA 47.37 42.86 35.00 NA 46.15 36.36 NA 58.14 41.67 36.36 53.33 NA NA 59.09 NA NA NA K alternative_donor cnc,I_chr3R_19014852_19016738,I_chr3R_19046366_19046507,I_chr3R_19046619_19047567 chr3R - chr3R_19046366_19046507;chr3R_19046366_19047563 chr3R_19046366_19047567 chr3R_19046266_19046365;chr3R_19047568_19047667 45.45 60.00 62.50 45.45 33.33 60.00 40.00 50.00 44.44 66.67 50.00 42.86 66.67 50.00 50.00 44.44 60.00 25.00 25.00 55.56 NA 27.27 45.45 60.00 25.00 75.00 25.00 0.00 42.86 20.00 46.67 50.00 36.36 36.36 50.00 44.44 NA NA 25.00 41.18 66.67 36.84 71.43 50.00 NA 50.00 NA 33.33 57.14 NA 57.14 40.00 NA NA 37.50 33.33 NA 50.00 K jcn_only_AA mask,I_chr3R_20073365_20073461 chr3R + chr3R_20066767_20066839 chr3R_20066767_20066836 chr3R_20065551_20066766;chr3R_20066840_20066876 98.34 99.04 100.00 98.51 100.00 100.00 97.53 97.42 97.89 93.75 100.00 97.69 98.78 99.01 99.35 98.58 96.95 97.50 100.00 98.64 97.98 100.00 97.06 98.35 97.37 98.56 97.89 98.61 96.20 98.53 96.83 96.15 98.50 98.77 94.57 98.92 96.91 99.03 98.33 98.37 100.00 98.03 97.17 99.35 93.88 100.00 97.01 98.25 97.56 NA 95.74 100.00 96.15 96.00 99.41 100.00 96.00 98.11 K jcn_only_AD sar1,I_chr3R_18185148_18185246 chr3R + chr3R_18182472_18183252;chr3R_18182521_18183252;chr3R_18182467_18183252 chr3R_18182490_18183252 chr3R_18183253_18183393;chr3R_18182460_18182466 0.26 0.56 0.57 0.22 0.00 0.00 0.26 0.20 0.69 0.00 0.00 0.82 0.80 0.43 1.42 0.00 1.32 0.37 0.81 0.00 0.00 1.33 0.00 0.00 0.00 0.71 1.04 1.35 1.15 0.00 0.61 0.00 0.00 1.07 1.01 2.02 0.00 1.06 0.55 0.00 0.00 0.19 0.80 0.00 0.56 0.51 0.00 0.00 0.95 0.00 0.00 0.00 0.00 0.00 0.76 0.00 1.76 1.52 K jcn_only_AD CG17721,RI_chr3R_7061265_7061322 chr3R + chr3R_7061229_7061322 chr3R_7061265_7061322 chr3R_7061323_7061422;chr3R_7061165_7061228 13.79 13.79 19.23 11.36 10.00 6.06 7.14 28.21 23.53 18.57 13.33 14.04 6.67 18.18 11.90 9.38 7.14 24.00 16.00 16.00 21.62 13.51 2.70 8.64 4.44 0.00 5.41 7.69 18.60 18.75 4.65 16.67 NA 9.52 NA 18.60 7.04 24.53 24.59 11.29 13.79 14.29 11.43 22.45 16.28 19.05 22.00 23.08 12.20 16.00 15.38 12.50 8.33 14.81 10.00 13.33 11.49 21.95 K intron_retention CG32582,I_chrX_15730402_15730457 chrX + chrX_15730431_15730557 chrX_15730430_15730431;chrX_15730557_15730558 chrX_15730315_15730430;chrX_15730558_15730707 41.67 45.45 61.54 73.68 NA NA 76.19 60.00 60.71 NA 42.86 65.00 54.55 41.67 42.86 52.00 46.67 38.46 52.63 50.00 NA NA 33.33 40.00 NA NA 33.33 NA 45.45 NA 53.33 27.27 NA 48.28 36.36 58.33 37.50 42.86 NA 28.57 41.67 39.29 64.29 13.64 35.71 36.84 27.27 NA 37.50 41.18 42.86 35.71 21.43 18.75 50.00 30.00 25.93 23.08 K jcn_only_AA mnb chrX - chrX_17762200_17763014;chrX_17762403_17763014 chrX_17762203_17763014 chrX_17763015_17763849;chrX_17762180_17762199 0.00 NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AA SRPK chr2R + chr2R_11269919_11270907 chr2R_11269919_11270707 chr2R_11269355_11269918 0.00 0.00 1.27 0.00 0.00 0.00 1.33 0.72 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.63 0.00 3.90 0.00 0.00 0.00 1.39 2.53 1.22 0.00 0.00 0.00 0.00 1.00 0.00 0.00 1.79 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.68 0.00 0.00 0.00 2.44 0.00 3.70 0.00 0.00 2.04 0.00 K cassette Zasp52,RI_chr2R_11667164_11667562,I_chr2R_11690993_11701987 chr2R - chr2R_11666052_11667562 chr2R_11666052_11666769;chr2R_11667164_11667562 chr2R_11666770_11667163 chr2R_11665857_11666051;chr2R_11667563_11667662 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.53 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.64 0.00 0.99 0.00 0.00 0.00 3.16 0.00 0.00 0.00 0.00 0.36 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.88 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG5514,RI_chr3R_23768206_23768306,Gp93 chr3R + chr3R_23768206_23768309 chr3R_23768206_23768306 chr3R_23768160_23768205;chr3R_23768310_23768406 90.91 NA NA NA NA NA NA NA NA NA NA 90.91 NA NA NA NA NA NA NA 66.67 NA NA NA NA NA 100.00 NA NA NA NA 100.00 90.00 NA 88.89 87.50 100.00 NA NA 85.71 88.89 NA NA NA NA 81.25 90.91 NA 100.00 90.91 100.00 NA NA NA 100.00 NA NA NA NA K intron_retention cryptocephal,noncoding_4181,I_chr2L_21311307_21311752,RI_chr2L_21312044_21312124,I_chr2L_21312209_21314626 chr2L + chr2L_21311033_21311192 chr2L_21311032_21311033;chr2L_21311192_21311193 chr2L_21310948_21311032;chr2L_21311193_21311214 35.71 30.85 35.00 40.00 35.71 31.82 34.69 24.12 28.44 45.00 27.16 35.07 38.78 35.79 37.80 30.11 27.63 33.57 33.64 31.10 35.00 63.64 44.83 34.17 38.71 38.33 67.90 81.60 69.04 48.25 31.29 54.67 58.54 30.13 40.66 38.16 48.19 27.17 40.98 57.14 71.83 31.44 32.38 43.96 49.32 46.20 31.45 62.50 33.85 43.43 30.66 25.64 32.61 31.11 29.75 33.33 41.11 65.18 K intron_retention CG32103,I_chr3L_12398261_12403200 chr3L - chr3L_12397391_12397462 chr3L_12397390_12397391;chr3L_12397462_12397463 chr3L_12396872_12397390;chr3L_12397463_12398036 0.00 0.00 0.00 0.00 0.00 1.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.32 0.00 1.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.54 0.00 0.00 0.00 0.00 0.00 0.00 1.15 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG11177 chrX + chrX_13506235_13506293 chrX_13506234_13506235;chrX_13506293_13506294 chrX_13506141_13506234;chrX_13506294_13506746 0.00 0.00 0.00 0.00 0.00 1.00 0.55 0.00 0.25 0.00 0.00 0.56 0.00 0.00 0.00 1.49 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 7.41 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.74 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.87 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette Trn chr3L + chr3L_6189812_6190482 chr3L_6189812_6190136;chr3L_6190213_6190482 chr3L_6190137_6190212 chr3L_6189716_6189811;chr3L_6190483_6190657 100.00 100.00 100.00 100.00 100.00 100.00 98.94 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.39 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AA CG4877 chr3L + chr3L_16379671_16379731 chr3L_16379671_16379725 chr3L_16379625_16379670;chr3L_16379732_16380052 60.00 NA 69.57 NA NA NA 60.00 NA 80.00 NA NA 60.00 NA NA 45.00 87.50 NA 63.64 61.90 64.29 NA NA 55.56 50.00 NA NA NA 60.00 54.55 56.52 NA NA NA 81.82 NA NA 47.62 NA NA 60.00 NA 56.25 NA 46.34 NA NA NA 61.29 48.15 NA 60.00 45.45 NA NA NA NA NA NA K jcn_only_AD Fas1,E_chr3R_12458491_12460799,I_chr3R_12458491_12460807,I_chr3R_12460976_12461267 chr3R + chr3R_12458491_12461267;chr3R_12460817_12461267 chr3R_12460105_12461267 chr3R_12461268_12461367 0.00 NA 9.52 NA 0.00 NA NA NA 2.94 NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA 0.00 NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA 0.00 NA NA NA K intron_retention CG2950,I_chr2L_4842348_4842805,I_chr2L_4844647_4845086,I_chr2L_4844952_4845086 chr2L - chr2L_4842348_4843539 chr2L_4842347_4842348;chr2L_4843539_4843540 chr2L_4842248_4842347;chr2L_4843540_4843658 18.27 22.22 17.74 11.22 11.36 11.11 19.35 24.68 13.68 16.67 14.52 23.58 34.21 31.71 16.67 24.00 12.50 24.44 21.15 8.80 11.76 46.67 18.52 21.43 37.04 27.91 22.22 43.18 24.07 16.39 6.78 14.29 24.59 17.14 23.40 16.22 18.27 16.95 19.57 22.22 22.03 13.33 16.67 11.11 20.41 20.27 18.99 24.32 15.96 14.86 24.73 20.93 7.27 12.50 15.49 12.20 13.48 15.52 K intron_retention noncoding_20813 chr4 + chr4_927674_927740 chr4_927673_927674;chr4_927740_927741 chr4_927671_927673;chr4_927741_927770 82.61 77.78 73.33 84.00 63.64 75.00 89.58 68.42 82.61 91.30 75.00 78.79 43.75 68.18 68.42 72.00 53.33 52.94 83.33 66.67 60.00 98.91 83.78 86.21 91.67 90.00 100.00 97.14 100.00 87.88 80.49 75.00 92.59 69.44 83.33 96.55 96.97 94.12 92.59 88.14 100.00 72.73 78.57 90.00 94.44 82.14 95.45 97.78 62.16 87.88 88.24 96.00 60.00 72.00 64.00 75.00 76.00 72.00 K alternative_donor Ilp6,RI_chrX_2226173_2226308,I_chrX_2226173_2226571 chrX - chrX_2226173_2226376;chrX_2226173_2226571;chrX_2226173_2226308 chrX_2226173_2227352 chrX_2226073_2226172;chrX_2227353_2227719 100.00 100.00 97.30 100.00 100.00 100.00 95.89 99.02 99.32 100.00 97.44 97.56 100.00 100.00 100.00 98.88 100.00 97.87 100.00 98.96 100.00 93.75 98.84 98.18 100.00 97.78 100.00 95.00 92.86 100.00 100.00 100.00 97.87 98.86 97.44 100.00 100.00 100.00 100.00 95.45 100.00 99.17 100.00 100.00 100.00 100.00 100.00 100.00 98.20 96.83 98.72 100.00 100.00 100.00 98.51 100.00 98.75 100.00 K jcn_only_AA CG6805 chr2R + chr2R_12894564_12894770 chr2R_12894564_12894637 chr2R_12894294_12894563;chr2R_12894771_12895109 100.00 NA NA NA NA 100.00 NA 100.00 97.96 NA NA 100.00 100.00 NA 100.00 NA NA NA NA 100.00 100.00 NA NA 100.00 NA NA 95.00 NA NA NA NA NA NA 100.00 100.00 NA 100.00 NA 100.00 100.00 NA 100.00 NA 90.91 NA NA 100.00 NA 100.00 100.00 100.00 NA NA NA 91.67 100.00 NA NA K jcn_only_AD lig,CI_chr2R_3962006_3962916,RI_chr2R_3962875_3962977 chr2R + chr2R_3955872_3957375;chr2R_3955586_3957375;chr2R_3955788_3957375 chr2R_3955517_3957375 chr2R_3957376_3957784;chr2R_3955509_3955516 94.74 94.87 95.06 96.43 98.72 100.00 94.29 96.84 98.02 90.48 98.77 96.12 98.63 94.74 96.30 95.59 92.50 98.65 93.15 93.62 93.75 89.19 NA NA NA 97.37 NA NA 85.19 91.67 89.47 95.83 93.33 96.03 88.00 NA 80.00 NA NA 86.57 80.00 94.94 98.55 81.82 96.88 NA NA 91.43 94.69 NA NA NA 92.11 NA 97.32 NA NA 92.31 N intron_retention Cp1,Aats-phe chr2R + chr2R_9853191_9854259 chr2R_9853190_9853191;chr2R_9854259_9854260 chr2R_9853110_9853190;chr2R_9854260_9854474 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 77.14 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AD osa,I_chr3R_13542657_13542834,I_chr3R_13542657_13543500,I_chr3R_13542657_13543662,I_chr3R_13542657_13543668,I_chr3R_13543730_13543786 chr3R - chr3R_13542657_13543968;chr3R_13542657_13543500;chr3R_13542657_13542834;chr3R_13542657_13543668;chr3R_13542657_13543677 chr3R_13542657_13543662 chr3R_13542557_13542656;chr3R_13543969_13544017 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.65 0.00 1.47 0.00 0.00 0.83 0.00 2.25 0.94 0.00 0.00 0.00 0.50 0.00 0.00 0.56 0.00 0.00 1.37 1.05 0.00 0.00 0.00 0.00 0.00 0.00 0.55 2.82 0.00 0.00 1.25 0.00 0.00 0.00 2.40 0.00 0.00 2.56 0.00 0.00 1.72 0.00 0.00 0.00 0.00 0.00 0.00 0.93 0.00 0.00 0.00 K alternative_acceptor Dyrk3,I_chr4_1231226_1233305,I_chr4_1233845_1234170 chr4 - chr4_1230568_1230624 chr4_1230573_1230624 chr4_1230625_1231068;chr4_1230231_1230567 92.45 85.71 95.00 97.37 92.31 100.00 93.75 92.59 86.49 NA 94.12 100.00 88.24 90.91 93.33 100.00 90.91 85.71 95.00 93.55 88.89 100.00 95.45 92.31 100.00 81.25 100.00 100.00 92.31 100.00 90.00 100.00 90.00 91.43 100.00 90.91 90.91 100.00 84.62 96.00 90.00 90.32 100.00 93.33 92.31 85.71 93.33 100.00 91.43 100.00 85.71 92.31 88.89 90.00 85.19 100.00 93.75 84.62 K jcn_only_AA Trap1 chr2R - chr2R_2521435_2521515;chr2R_2521438_2521515 chr2R_2521454_2521515 chr2R_2521516_2521564;chr2R_2521152_2521434 100.00 100.00 100.00 100.00 98.89 97.53 100.00 99.40 98.85 100.00 100.00 100.00 100.00 100.00 100.00 98.90 97.26 97.89 100.00 99.41 96.67 100.00 100.00 100.00 98.08 100.00 100.00 100.00 98.46 100.00 98.68 100.00 99.13 98.58 100.00 100.00 100.00 98.94 99.19 100.00 100.00 100.00 100.00 98.88 99.12 100.00 99.24 100.00 99.52 100.00 99.30 100.00 99.21 100.00 98.95 99.24 100.00 100.00 K intron_retention Got2 chr2L - chr2L_1986106_1987584 chr2L_1986105_1986106;chr2L_1987584_1987585 chr2L_1985946_1986105;chr2L_1987585_1987761 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.29 0.00 0.00 0.00 0.00 0.00 1.24 0.00 0.00 0.00 1.20 0.75 0.00 0.00 0.00 0.00 0.00 2.05 0.00 0.00 0.00 0.47 0.00 0.00 0.54 0.69 0.87 0.80 0.00 0.51 0.00 0.00 0.00 0.00 0.00 0.00 0.86 1.16 0.42 0.00 0.00 0.90 0.00 0.00 0.00 0.00 0.50 K jcn_only_AA RpL36,RI_chrX_522912_523358,I_chrX_522932_523360,I_chrX_522949_523360 chrX - chrX_522912_523360;chrX_522932_523360 chrX_522949_523360 chrX_523361_523436;chrX_522849_522911 2.28 1.98 1.77 1.30 2.38 2.27 17.10 3.21 2.05 2.13 5.56 1.28 5.36 2.70 2.17 2.08 4.38 5.71 5.65 2.36 4.14 4.17 2.11 2.19 5.16 32.24 1.90 4.32 1.90 5.86 3.60 3.64 2.06 2.62 3.19 2.87 1.96 0.90 2.00 2.15 7.55 2.94 5.37 0.58 1.94 3.23 1.57 1.59 3.30 1.06 1.32 2.41 0.80 1.60 2.51 1.19 2.28 1.60 K intron_retention opa1-like,I_chr2R_10119470_10120234,I_chr2R_10121848_10121900,I_chr2R_10122128_10122197,I_chr2R_10122334_10122393 chr2R - chr2R_10119470_10120220 chr2R_10119469_10119470;chr2R_10120220_10120221 chr2R_10119370_10119469;chr2R_10120221_10120227 8.51 6.98 6.90 6.49 7.69 11.43 6.06 8.47 9.09 26.32 7.50 11.11 20.83 5.88 8.33 8.33 11.54 5.88 13.16 10.45 0.00 10.42 13.46 10.64 2.94 0.00 4.84 12.50 8.89 16.67 4.88 19.23 12.90 14.00 16.00 2.44 6.67 8.51 6.78 11.69 5.00 7.46 18.18 8.89 0.00 7.14 8.89 20.00 14.55 8.00 19.15 5.71 16.67 5.71 5.41 6.12 10.42 17.65 K intron_retention CG10011 chr3R - chr3R_24436242_24436323 chr3R_24436241_24436242;chr3R_24436323_24436324 chr3R_24435931_24436241;chr3R_24436324_24441888 0.00 0.00 NA 3.57 5.56 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 4.35 0.00 0.00 5.56 8.33 0.00 0.00 0.00 0.00 0.00 NA 0.00 8.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.17 0.00 0.00 0.00 0.00 NA 4.44 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 K jcn_only_AD skap,I_chr3R_4766829_4767129,CRE_chr3R_4766916_4767129 chr3R + chr3R_4766912_4767129 chr3R_4767039_4767129 chr3R_4767130_4767229;chr3R_4766816_4766911 0.00 0.00 0.00 0.00 0.57 0.00 0.00 0.26 0.00 0.00 0.00 0.21 0.00 0.49 0.00 0.29 0.00 0.88 0.00 0.32 0.00 0.00 0.00 0.37 0.40 0.70 0.62 2.54 0.36 0.00 0.00 0.00 0.42 0.56 0.00 0.00 0.00 0.00 0.00 0.26 0.00 0.47 0.00 0.42 0.00 0.00 0.00 0.00 0.47 0.00 0.00 0.55 0.00 0.47 0.70 0.36 0.34 0.00 N jcn_only_AA CG32138 chr3L + chr3L_14058259_14059498;chr3L_14058259_14058715 chr3L_14058259_14058688 chr3L_14058172_14058258;chr3L_14059499_14060368 5.20 3.42 1.52 6.44 3.24 4.42 3.46 4.03 5.12 5.61 1.57 5.07 9.40 3.50 2.11 4.91 4.00 2.92 5.53 2.81 4.94 12.92 7.69 5.65 7.87 5.65 7.75 11.11 11.11 8.27 4.64 5.13 9.24 2.95 7.96 19.65 5.66 7.77 7.93 6.55 5.61 3.45 4.90 5.05 6.67 6.13 8.02 5.60 2.62 13.07 5.20 5.88 1.18 3.60 4.03 9.88 3.76 3.66 K intron_retention mfas,I_chr3R_7811954_7812017,RI_chr3R_7818607_7818970 chr3R - chr3R_7815051_7818463 chr3R_7815050_7815051;chr3R_7818463_7818464 chr3R_7814932_7815050;chr3R_7818464_7818574 88.97 88.97 87.14 81.18 93.44 89.86 94.44 89.01 89.23 89.55 89.33 95.12 94.03 92.31 95.56 90.00 93.55 96.55 89.39 84.21 86.25 93.42 82.99 75.56 91.25 97.44 85.09 87.76 87.50 90.11 93.65 85.00 76.25 89.52 83.95 93.67 87.30 90.35 86.08 85.52 81.63 89.45 93.85 87.96 82.47 78.85 84.13 75.00 83.62 89.52 81.34 85.45 73.68 79.73 95.33 86.14 89.29 67.65 K intron_retention I_chr3R_25875159_25875219,CG7946,CG15526 chr3R + chr3R_25880069_25880131 chr3R_25880068_25880069;chr3R_25880131_25880132 chr3R_25879266_25880068;chr3R_25880132_25880201 0.00 0.00 0.00 6.67 0.00 3.03 0.00 4.17 1.37 0.00 0.00 4.62 0.00 0.00 0.00 2.82 0.00 0.00 0.00 1.54 0.00 0.00 0.00 0.00 0.00 4.26 4.92 0.00 17.39 0.00 0.00 0.00 0.00 0.00 0.00 5.00 0.00 0.00 5.41 2.00 4.92 3.61 3.33 0.00 0.00 2.90 0.00 3.45 2.60 0.00 0.00 0.00 0.00 2.04 0.00 0.00 1.59 0.00 K intron_retention hppy,I_chr2R_15066378_15066915,I_chr2R_15105700_15106080,I_chr2R_15106144_15108248 chr2R + chr2R_15066378_15067003 chr2R_15066377_15066378;chr2R_15067003_15067004 chr2R_15066360_15066377;chr2R_15067004_15067015 41.18 35.29 46.15 60.71 NA 41.18 61.54 69.57 56.25 63.64 NA 48.15 60.00 53.85 37.50 42.86 41.18 58.33 36.36 32.43 66.67 28.26 39.39 47.06 35.29 33.33 52.38 33.33 23.08 47.83 47.06 NA 46.15 59.26 42.11 25.00 50.00 39.13 NA 30.23 NA 47.83 53.85 16.36 NA 29.41 25.00 19.35 43.18 58.33 40.00 29.41 23.08 NA 36.84 40.00 NA 30.77 K alternative_donor Elf,I_chr2L_12437061_12437812 chr2L + chr2L_12436928_12437812 chr2L_12436979_12437812 chr2L_12437813_12437912;chr2L_12436859_12436927 100.00 NA NA NA NA NA NA NA 100.00 NA NA 85.71 NA NA NA 100.00 NA NA NA NA NA 100.00 100.00 100.00 NA NA 100.00 NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA K alternative_donor CG1746,I_chr3R_27044771_27044867,I_chr3R_27044771_27044990,I_chr3R_27044771_27045027,RI_chr3R_27044771_27045110,I_chr3R_27044771_27045132,RI_chr3R_27044771_27045188,I_chr3R_27044771_27045193,RI_chr3R_27044771_27045268 chr3R - chr3R_27044771_27044867;chr3R_27044771_27045188;chr3R_27044771_27045132;chr3R_27044771_27045027;chr3R_27044771_27045110;chr3R_27044771_27044831;chr3R_27044771_27044990;chr3R_27044771_27044895 chr3R_27044771_27045257 chr3R_27044671_27044770;chr3R_27045258_27045273 98.65 99.10 98.54 99.34 100.00 99.25 98.58 99.67 98.84 95.71 99.18 98.70 98.97 99.03 99.32 98.56 99.62 99.16 99.06 98.61 99.35 98.88 88.89 83.87 92.31 98.87 80.95 91.07 93.66 95.96 99.09 99.10 98.42 99.21 94.23 96.43 90.48 87.50 91.43 97.55 96.88 99.35 99.27 96.15 98.82 98.70 84.62 98.90 99.08 84.00 85.71 91.67 98.65 87.50 99.48 80.56 92.45 99.17 K jcn_only_AA pr,I_chr2L_20074851_20075383 chr2L - chr2L_20074851_20075383 chr2L_20075320_20075383 chr2L_20075384_20075483 100.00 NA NA 100.00 NA NA 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 NA NA NA NA NA NA NA NA NA 100.00 100.00 NA 100.00 NA NA NA NA NA 100.00 NA 100.00 NA NA NA 100.00 NA 100.00 100.00 NA NA NA 100.00 NA 100.00 NA NA 100.00 K intron_retention Pk92B chr3R + chr3R_15705766_15705837 chr3R_15705765_15705766;chr3R_15705837_15705838 chr3R_15705421_15705765;chr3R_15705838_15706032 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 5.71 1.52 0.00 0.00 0.00 9.76 6.90 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 NA NA 0.00 K alternative_donor noncoding_18164,F_chr3R_17192061_17200781,RI_chr3R_17193489_17193631 chr3R + chr3R_17193489_17193631;chr3R_17193407_17193631 chr3R_17193416_17193631 chr3R_17193632_17193731;chr3R_17193389_17193406 70.00 66.67 58.82 59.26 71.43 64.29 62.50 61.90 65.00 NA NA 69.23 64.29 60.00 66.67 73.91 71.43 70.00 71.43 66.67 63.64 NA 80.00 70.00 NA 76.92 62.50 85.71 71.43 NA 68.42 75.00 83.33 61.90 70.00 50.00 87.50 42.86 81.82 52.00 76.92 73.08 75.00 69.23 66.67 66.67 72.73 75.00 80.77 83.33 71.43 66.67 85.71 70.00 73.33 81.25 66.67 80.77 K intron_retention CG1109,CG1347 chr3R + chr3R_1489375_1489439 chr3R_1489374_1489375;chr3R_1489439_1489440 chr3R_1489141_1489374;chr3R_1489440_1489651 0.00 0.00 NA 0.00 NA NA 0.00 0.00 0.00 NA NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 2.17 0.00 0.00 0.00 0.00 0.00 4.17 0.00 0.00 0.00 2.38 0.00 0.00 0.00 0.00 0.00 0.00 2.70 0.00 0.00 NA 0.00 0.00 0.00 6.45 0.00 2.70 3.12 3.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette Aldh-III,I_chr2R_3356541_3356614,RI_chr2R_3357578_3357636,I_chr2R_3361118_3361226,I_chr2R_3361349_3361499 chr2R - chr2R_3355332_3356864 chr2R_3355332_3355926;chr2R_3356043_3356864 chr2R_3355927_3356042 chr2R_3355296_3355331;chr2R_3356865_3357018 97.92 97.40 96.30 96.51 100.00 98.41 100.00 97.59 98.65 79.17 100.00 99.21 94.87 98.41 98.75 98.82 100.00 100.00 96.55 99.35 98.36 95.83 97.62 96.67 100.00 97.62 96.92 95.24 96.00 97.50 95.40 98.00 97.67 100.00 97.92 97.62 96.55 97.10 97.98 95.06 97.06 98.57 98.08 100.00 98.33 95.56 98.06 94.00 99.12 97.50 97.87 96.00 98.18 97.10 100.00 98.88 98.94 97.92 K intron_retention CG2034 chr3L + chr3L_2258518_2258579 chr3L_2258517_2258518;chr3L_2258579_2258580 chr3L_2257872_2258517;chr3L_2258580_2258934 0.00 0.00 0.00 2.75 1.32 2.44 0.00 0.00 1.26 0.00 0.00 1.38 0.00 0.00 0.00 0.00 0.00 0.00 1.41 3.06 0.00 4.82 0.00 0.00 0.00 0.00 0.85 5.41 16.46 0.00 0.00 1.15 0.00 0.00 0.00 1.94 0.00 0.90 0.53 0.76 0.00 0.00 0.00 1.12 0.00 0.00 0.00 0.00 1.43 0.00 0.87 0.00 0.68 0.00 0.00 0.00 0.48 0.00 K alternative_donor l(2)08717 chr2R - chr2R_14686769_14689522 chr2R_14686769_14687299 chr2R_14686578_14686768;chr2R_14689523_14689898 3.23 3.45 2.56 0.00 0.00 3.85 2.56 1.27 3.51 3.45 2.70 5.26 4.55 3.12 2.78 2.94 4.35 3.33 3.23 1.19 3.33 5.88 2.38 3.23 3.57 2.56 5.26 9.09 6.38 3.45 3.45 4.76 3.03 1.56 3.45 5.26 2.13 4.17 2.38 1.69 2.70 1.47 3.45 2.56 3.23 2.50 2.27 3.64 3.77 3.23 5.00 0.00 2.78 0.00 2.50 3.57 0.00 2.27 K jcn_only_AD crol,I_chr2L_11799403_11802904 chr2L - chr2L_11800323_11802904;chr2L_11800323_11802370;chr2L_11800323_11802286 chr2L_11800323_11802343 chr2L_11800155_11800322;chr2L_11802905_11803004 0.00 0.37 0.00 0.25 0.00 0.00 0.00 0.00 0.30 0.54 0.00 0.00 0.00 0.00 0.65 0.00 0.00 0.00 0.86 0.00 0.00 0.00 0.19 0.00 0.31 0.41 0.00 0.30 0.39 0.00 0.00 0.00 0.00 0.25 0.00 0.00 0.17 0.00 0.00 0.00 1.23 0.20 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG14995,I_chr3L_4095875_4097205,I_chr3L_4096047_4096903 chr3L - chr3L_4096979_4097205 chr3L_4096978_4096979;chr3L_4097205_4097206 chr3L_4096971_4096978;chr3L_4097206_4097305 12.50 13.33 NA NA NA NA NA NA NA NA NA 10.53 NA NA NA NA NA NA NA 12.50 NA 15.79 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 9.09 NA 27.27 NA 13.33 7.14 NA NA NA NA 12.50 0.00 NA NA NA NA NA NA NA K intron_retention cav chr3R + chr3R_20047648_20048064 chr3R_20047647_20047648;chr3R_20048064_20048065 chr3R_20047531_20047647;chr3R_20048065_20048196 100.00 NA 100.00 100.00 100.00 NA 94.74 100.00 96.43 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 NA NA NA 100.00 NA NA NA NA 100.00 100.00 100.00 100.00 NA NA NA NA NA 100.00 NA 100.00 100.00 NA NA 100.00 NA 100.00 100.00 NA NA NA NA NA 100.00 NA NA 100.00 K jcn_only_AD Myb,RI_chrX_15752571_15753225 chrX - chrX_15751579_15751673;chrX_15751579_15751682;chrX_15751579_15751749 chrX_15751579_15751709 chrX_15749823_15751578;chrX_15751750_15751876 0.96 1.92 0.00 2.99 3.77 2.17 2.99 0.99 0.00 0.00 2.56 0.00 0.00 1.37 1.52 0.66 2.63 2.22 0.00 3.28 6.25 0.00 0.00 0.00 0.00 2.27 0.00 4.76 3.03 1.79 0.00 2.04 1.41 0.93 2.27 0.00 1.43 2.78 0.00 0.00 2.78 2.17 0.00 0.00 2.08 0.00 0.00 0.00 1.44 NA 0.00 0.00 2.78 4.55 0.00 0.00 0.00 0.87 K alternative_donor CD98hc,I_chr3R_3802791_3802855 chr3R - chr3R_3802791_3803283 chr3R_3802791_3802855 chr3R_3802691_3802790;chr3R_3803284_3803397 0.78 0.38 0.97 0.95 0.89 0.54 1.56 0.81 0.91 0.56 0.76 1.17 0.75 1.32 0.48 1.70 1.06 2.33 0.67 0.41 0.00 1.15 0.23 0.28 0.46 0.56 1.31 3.78 1.71 0.36 1.43 1.07 1.17 1.12 0.48 0.40 0.00 0.72 0.24 1.06 1.03 1.07 0.70 0.85 0.73 1.16 0.33 0.94 1.19 0.46 0.24 1.38 0.78 0.40 0.50 0.76 0.40 1.30 K jcn_only_AA CG33090,CEI_chr2L_14342636_14342777 chr2L + chr2L_14341577_14342783 chr2L_14341577_14342777 chr2L_14341307_14341576;chr2L_14342784_14342877 56.30 44.00 51.06 64.10 54.29 56.76 46.94 46.00 55.13 51.22 59.38 47.95 35.48 45.83 72.34 61.22 60.00 58.97 52.63 53.57 58.82 46.03 64.94 44.62 64.71 67.50 75.51 60.98 66.67 56.67 55.00 60.47 56.30 50.00 52.38 59.18 56.00 63.83 58.44 53.33 54.29 60.76 43.33 48.21 48.94 55.00 58.54 59.09 57.83 48.48 60.29 48.65 57.14 70.97 50.00 56.25 72.41 70.21 K alternative_donor aralar1,CG15535,I_chr3R_26249362_26249414 chr3R - chr3R_26249362_26249431 chr3R_26249362_26249414 chr3R_26249262_26249361;chr3R_26249432_26249514 0.00 0.00 5.56 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 NA NA NA NA 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 3.45 NA 0.00 0.00 0.00 0.00 K alternative_acceptor CG31169,I_chr3R_18209085_18209133 chr3R + chr3R_18209081_18209172 chr3R_18209081_18209133 chr3R_18209073_18209080;chr3R_18209173_18209201 48.96 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 56.25 NA NA NA NA NA NA NA NA 41.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention l(1)G0156 chrX - chrX_19414861_19415360 chrX_19414860_19414861;chrX_19415360_19415361 chrX_19414693_19414860;chrX_19415361_19415376 17.65 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 17.65 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention Shawn_Tyler,CG14207,RI_chrX_19502515_19504413,CRE_chrX_19503018_19503085,CE_chrX_19503187_19504413 chrX + chrX_19502515_19504413 chrX_19502514_19502515;chrX_19504413_19504414 chrX_19502499_19502514;chrX_19504414_19504495 100.00 100.00 100.00 88.89 NA NA NA 100.00 86.67 100.00 100.00 100.00 NA 100.00 NA 100.00 NA NA 100.00 100.00 NA 100.00 100.00 90.91 NA NA 91.67 NA 100.00 NA 100.00 NA 100.00 100.00 100.00 83.33 100.00 90.91 100.00 100.00 100.00 93.33 NA 100.00 NA 83.33 100.00 90.00 92.31 100.00 82.35 100.00 NA 100.00 100.00 91.67 81.82 91.67 N alternative_acceptor CG13900,I_chr3L_830745_830907 chr3L - chr3L_830715_830907;chr3L_830814_830907;chr3L_830729_830907 chr3L_830745_830907 chr3L_830908_831007;chr3L_830702_830714 1.45 3.03 3.92 5.88 0.00 2.33 4.76 1.14 0.00 0.00 2.70 2.56 0.00 2.22 1.75 1.45 2.44 0.00 0.00 2.94 2.27 3.85 1.89 4.08 0.00 0.00 1.54 5.71 0.00 0.00 1.71 2.86 1.96 3.45 3.70 0.00 0.00 0.00 0.00 1.72 0.00 3.23 0.00 0.00 0.00 3.70 0.00 2.70 1.39 0.00 1.52 0.00 0.00 0.00 0.00 0.00 0.00 4.88 N alternative_acceptor AnnIX,I_chr3R_16895383_16895999 chr3R + chr3R_16895383_16896445 chr3R_16895383_16895999 chr3R_16895283_16895382;chr3R_16896446_16896495 100.00 76.32 100.00 64.10 100.00 100.00 79.63 85.39 85.57 100.00 58.62 92.86 64.00 100.00 100.00 100.00 70.73 100.00 100.00 67.82 57.69 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 66.67 80.70 100.00 100.00 85.29 100.00 100.00 76.47 100.00 100.00 100.00 100.00 75.00 100.00 100.00 100.00 86.57 73.91 100.00 85.06 100.00 87.23 72.73 100.00 75.68 78.05 73.91 72.55 100.00 K intron_retention scny,I_chr3L_5763034_5768288 chr3L + chr3L_5768114_5768288 chr3L_5768113_5768114;chr3L_5768288_5768289 chr3L_5767514_5768113;chr3L_5768289_5768388 60.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 60.00 NA 90.00 38.46 60.00 NA NA NA 80.00 NA NA NA NA NA NA NA NA 50.00 NA NA 60.00 NA 28.57 NA NA NA 45.45 NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention skpA chrX + chrX_550818_551131 chrX_550817_550818;chrX_551131_551132 chrX_550493_550817;chrX_551132_551937 33.56 NA NA NA NA NA 30.77 61.54 23.33 NA NA 41.67 NA NA NA 41.67 NA NA NA 36.84 NA NA NA NA NA NA NA NA NA NA 25.00 NA NA 36.36 NA NA NA NA NA NA NA 25.00 NA NA NA NA NA NA 30.00 NA NA NA NA NA NA NA NA NA K intron_retention CG1407,RI_chr2R_5918952_5919093 chr2R - chr2R_5919841_5919898 chr2R_5919840_5919841;chr2R_5919898_5919899 chr2R_5919719_5919840;chr2R_5919899_5920393 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.94 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.32 0.00 0.00 0.00 0.00 0.00 0.00 0.93 0.00 0.00 0.00 0.00 0.00 1.22 0.46 0.00 0.00 0.00 0.00 0.00 0.63 0.00 1.52 0.87 0.72 0.00 1.53 0.00 1.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.13 K intron_retention CG8709,I_chr2R_4027128_4027182,RI_chr2R_4029534_4029599,I_chr2R_4030580_4030636,I_chr2R_4030580_4030746,I_chr2R_4035901_4043493 chr2R - chr2R_4030580_4033259 chr2R_4030579_4030580;chr2R_4033259_4033260 chr2R_4030480_4030579;chr2R_4033260_4033265 0.00 0.00 2.50 3.61 0.00 0.00 3.70 4.00 5.77 0.00 0.00 4.65 11.54 10.53 3.12 3.57 2.50 0.00 0.00 2.74 0.00 10.26 4.35 3.51 0.00 0.00 1.75 0.00 8.33 2.44 0.00 9.09 5.88 4.00 0.00 0.00 0.00 0.00 2.13 4.26 4.76 6.45 0.00 0.00 0.00 0.00 0.00 6.25 7.25 0.00 0.00 0.00 0.00 0.00 0.00 6.67 0.00 0.00 K alternative_donor zip,I_chr2R_20878796_20879147 chr2R - chr2R_20898140_20898992;chr2R_20898140_20898834 chr2R_20898140_20898898 chr2R_20897903_20898139;chr2R_20898993_20898996 66.67 63.33 74.76 74.42 68.57 70.73 66.67 75.25 71.98 66.67 75.00 73.68 71.96 75.76 69.67 70.43 72.38 78.35 76.61 66.22 77.38 45.76 38.64 35.48 40.74 71.95 23.08 60.98 56.12 55.88 77.05 67.11 66.79 72.06 58.82 44.26 55.77 40.00 52.78 60.34 61.04 73.20 76.00 59.26 69.77 66.67 46.15 65.99 73.42 50.00 35.00 48.39 52.00 23.08 73.53 52.17 62.96 70.99 K jcn_only_AD Uba1,I_chr2R_5579209_5579407 chr2R - chr2R_5579209_5579786 chr2R_5579209_5579407 chr2R_5579109_5579208;chr2R_5579787_5580879 0.39 0.51 0.00 0.00 0.55 0.28 0.38 0.00 0.24 0.32 0.63 0.00 0.00 0.00 0.47 0.46 0.58 0.57 0.30 0.13 0.30 1.02 0.85 0.37 0.91 0.80 0.69 1.89 0.58 0.41 2.19 0.00 0.24 0.18 0.59 0.50 0.35 0.00 0.43 1.05 0.27 0.14 0.34 0.75 0.29 1.27 0.33 0.00 0.53 1.66 0.39 0.97 0.98 0.00 0.22 0.00 0.44 0.60 K intron_retention shot,I_chr2R_9754481_9757364,I_chr2R_9762249_9762363,I_chr2R_9771216_9771599,I_chr2R_9782813_9788941,I_chr2R_9791078_9791208 chr2R - chr2R_9759231_9759483 chr2R_9759230_9759231;chr2R_9759483_9759484 chr2R_9759171_9759230;chr2R_9759484_9759658 0.00 0.00 1.28 0.00 0.00 0.00 3.57 0.98 0.47 0.00 0.00 0.00 0.00 0.00 0.00 0.69 0.00 0.72 0.00 0.70 0.00 0.60 0.00 0.00 0.47 0.00 0.00 2.92 0.00 1.44 0.00 0.00 0.00 0.00 0.00 0.00 0.32 0.00 0.63 1.53 0.00 0.54 0.00 0.00 0.00 0.00 0.00 2.22 0.90 1.05 0.31 0.00 0.00 0.00 1.22 0.00 0.00 0.00 K alternative_donor CG9323 chr2L - chr2L_20754938_20754992 chr2L_20754938_20754988 chr2L_20754809_20754937;chr2L_20754993_20755265 7.41 9.09 5.00 15.15 NA 4.55 17.86 10.34 7.50 NA 0.00 7.14 7.69 5.26 6.67 3.03 0.00 0.00 13.79 8.20 0.00 10.53 9.09 3.23 14.29 30.00 12.00 11.11 21.05 10.53 8.70 4.76 3.45 6.52 0.00 5.88 3.57 0.00 8.33 2.27 6.52 8.00 4.76 7.41 2.63 10.00 0.00 9.68 10.81 11.63 6.90 8.00 13.33 8.70 3.45 5.26 15.15 7.32 K intron_retention wech,I_chr2R_3373673_3377000,I_chr2R_3373673_3377045,I_chr2R_3373673_3377324,I_chr2R_3376705_3376837 chr2R - chr2R_3373673_3375960 chr2R_3373672_3373673;chr2R_3375960_3375961 chr2R_3373573_3373672;chr2R_3375961_3376252 63.64 54.55 63.64 53.85 NA NA 30.77 42.86 50.00 NA 69.23 58.82 60.00 57.14 73.33 52.63 33.33 NA 55.56 66.67 50.00 NA 63.64 84.62 NA NA 82.35 NA NA NA 72.73 77.78 50.00 61.11 69.23 NA NA 75.00 53.85 66.67 NA 51.72 77.78 41.67 NA 91.67 100.00 66.67 57.89 70.00 69.23 50.00 NA NA 69.23 90.00 92.31 NA K multi_cassette fra,I_chr2R_8447607_8449360 chr2R + chr2R_8447607_8449360 chr2R_8447607_8447663;chr2R_8448995_8449052;chr2R_8449301_8449360 chr2R_8447664_8448994;chr2R_8449053_8449300 chr2R_8447507_8447606;chr2R_8449361_8449460 100.00 100.00 94.12 100.00 100.00 91.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 93.75 100.00 100.00 100.00 K intron_retention CG13760 chrX - chrX_2478429_2478495 chrX_2478428_2478429;chrX_2478495_2478496 chrX_2477778_2478428;chrX_2478496_2478581 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.25 7.41 2.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor TBPH,I_chr2R_19748981_19749882,I_chr2R_19748981_19749921,I_chr2R_19748984_19749882,I_chr2R_19748984_19749899 chr2R - chr2R_19748981_19749899;chr2R_19748981_19750012;chr2R_19748981_19749783 chr2R_19748981_19749882 chr2R_19748884_19748980;chr2R_19750013_19750013 3.26 3.03 2.86 1.54 3.45 5.56 7.58 6.02 3.26 5.56 3.12 3.57 2.86 2.63 2.27 5.33 2.56 2.38 2.00 1.04 2.44 8.82 6.52 4.88 6.06 4.65 2.56 3.85 5.88 3.03 4.17 3.33 3.12 3.03 14.29 8.11 3.70 3.57 2.33 5.63 10.20 6.02 3.03 2.56 4.17 4.88 8.00 2.00 1.25 2.86 2.27 3.23 4.00 3.57 1.82 0.00 2.33 1.82 K jcn_only_AD CG6006 chr3R + chr3R_11984096_11984579;chr3R_11983962_11984579;chr3R_11984036_11984579;chr3R_11984018_11984579 chr3R_11984029_11984579 chr3R_11984580_11984637;chr3R_11983945_11983961 22.54 NA NA NA NA NA 50.00 NA 19.23 NA NA NA NA NA NA NA NA NA NA NA NA NA 5.00 NA NA NA 20.83 NA NA NA NA NA NA 36.36 NA NA NA NA NA NA NA 22.50 NA NA NA NA NA NA 22.58 NA 26.09 NA NA NA NA NA NA NA K jcn_only_AD Traf-like,I_chrX_16309163_16309641,I_chrX_16309212_16309689,I_chrX_16309561_16309641,I_chrX_16309561_16309689,I_chrX_16328892_16329177,I_chrX_16335942_16337525 chrX + chrX_16309561_16309689;chrX_16309163_16309689 chrX_16309619_16309689 chrX_16309690_16309741;chrX_16309112_16309162 95.58 96.67 98.28 94.44 98.15 98.33 95.24 94.90 95.59 96.77 92.31 97.70 85.19 97.44 96.77 100.00 95.65 96.72 96.88 90.32 95.08 94.87 88.46 97.01 87.50 94.00 98.08 NA 100.00 97.22 85.71 92.59 84.62 98.73 85.37 80.00 94.53 98.28 97.92 91.53 87.50 91.00 95.65 100.00 NA 92.86 88.89 91.67 96.15 98.21 92.31 93.44 96.77 95.56 96.77 94.55 97.37 NA K intron_retention Taf6 chr3L + chr3L_19594248_19594309 chr3L_19594247_19594248;chr3L_19594309_19594310 chr3L_19594013_19594247;chr3L_19594310_19594484 86.36 75.00 88.89 92.11 94.44 86.36 93.33 87.50 82.93 94.44 94.74 85.71 94.12 93.75 89.29 85.71 76.47 83.33 81.82 85.48 86.96 66.67 87.10 84.44 89.19 95.24 80.00 84.38 88.89 88.24 92.86 83.72 87.50 85.71 80.56 100.00 86.79 81.58 84.21 88.52 92.00 82.35 80.00 86.67 67.86 82.98 76.36 96.43 89.13 84.62 80.00 95.00 78.95 85.96 95.83 80.43 80.36 87.10 K jcn_only_AD CG5976 chr3L + chr3L_20467744_20468664 chr3L_20468598_20468664 chr3L_20468665_20469897;chr3L_20467566_20467743 100.00 NA 100.00 100.00 100.00 NA 100.00 92.50 95.74 NA 100.00 100.00 NA NA NA 95.45 95.65 NA 95.83 100.00 96.67 100.00 NA 96.30 NA 100.00 100.00 100.00 NA NA 100.00 NA NA 97.22 NA 100.00 NA NA 100.00 100.00 NA 100.00 NA 100.00 NA NA NA NA 100.00 NA NA NA NA NA 95.83 NA 100.00 92.31 K intron_retention CG5973,I_chr2L_7441485_7443583,I_chr2L_7443388_7443583 chr2L + chr2L_7440852_7443583 chr2L_7440851_7440852;chr2L_7443583_7443584 chr2L_7440710_7440851;chr2L_7443584_7443683 39.28 NA NA NA NA NA NA 35.71 42.86 NA NA NA NA NA NA NA NA NA NA 47.06 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 35.71 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention Dek chr2R + chr2R_12743821_12744310 chr2R_12743820_12743821;chr2R_12744310_12744311 chr2R_12743729_12743820;chr2R_12744311_12744557 52.63 66.67 53.85 33.33 NA 60.00 37.50 64.29 41.38 NA 25.00 65.00 45.45 53.33 57.14 50.00 45.45 43.75 60.00 42.86 53.85 NA 66.67 57.89 NA 70.00 53.85 NA 30.77 35.71 52.63 41.67 34.78 57.89 NA 42.86 50.00 53.85 47.06 45.83 NA 53.85 60.00 45.45 30.77 37.50 53.33 18.18 63.16 62.50 40.00 60.00 87.50 66.67 43.75 62.50 NA 21.74 K intron_retention Cyp12a5,Cyp12a4 chr3R + chr3R_14959103_14959154 chr3R_14959102_14959103;chr3R_14959154_14959155 chr3R_14958612_14959102;chr3R_14959155_14959602 12.97 15.15 6.67 37.14 10.00 0.00 12.90 7.87 21.33 NA 6.90 19.51 18.42 22.22 28.21 17.54 12.90 14.29 15.91 14.81 8.33 NA NA NA NA 0.00 35.71 NA NA NA 20.00 NA NA 13.73 NA NA NA NA NA 12.12 NA 14.29 7.41 12.12 NA 4.76 4.55 9.52 13.46 NA 13.04 10.00 NA NA 22.22 6.67 NA 7.41 K intron_retention CG31159 chr3R + chr3R_18440899_18440950 chr3R_18440898_18440899;chr3R_18440950_18440951 chr3R_18440681_18440898;chr3R_18440951_18441462 0.00 NA NA NA NA NA NA NA 4.35 NA NA NA NA NA NA NA NA NA NA 8.33 NA 0.00 NA NA NA NA NA NA NA NA 0.00 NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA 0.00 K alternative_donor RpL15 chr3LHet + chr3LHet_2398018_2398127;chr3LHet_2397859_2398127;chr3LHet_2397992_2398127;chr3LHet_2398060_2398127;chr3LHet_2397841_2398127;chr3LHet_2398002_2398127;chr3LHet_2397820_2398127;chr3LHet_2398053_2398127 chr3LHet_2397925_2398127 chr3LHet_2398128_2398454;chr3LHet_2397802_2397819 0.00 0.00 0.00 0.35 0.00 0.00 1.39 0.36 0.00 0.00 0.00 1.79 0.00 3.70 0.00 1.72 0.00 0.00 1.04 0.00 0.00 0.00 0.00 0.00 0.00 1.56 3.57 0.00 0.84 0.00 0.94 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.10 0.74 0.00 0.00 0.00 0.00 0.00 0.00 0.43 1.61 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA CG32626 chrX - chrX_13728240_13728847;chrX_13727056_13728847 chrX_13727065_13728847 chrX_13728848_13729182 54.55 58.21 56.03 54.95 66.67 61.63 57.38 58.42 59.41 48.51 54.81 48.24 58.54 51.49 64.44 56.25 55.65 48.57 58.49 59.32 69.30 47.98 50.00 46.73 54.55 61.64 48.87 50.24 47.86 39.32 66.34 45.61 45.60 56.42 57.04 51.54 51.14 52.71 50.57 56.47 48.10 58.41 57.14 55.10 47.37 51.89 49.46 42.42 56.28 45.24 52.82 60.53 52.63 56.49 62.28 51.81 46.91 54.24 K intron_retention I_chr3L_17833072_17833135,CG5567,MED19 chr3L - chr3L_17837995_17838853 chr3L_17837994_17837995;chr3L_17838853_17838854 chr3L_17837880_17837994;chr3L_17838854_17839594 0.00 2.44 0.00 0.00 0.00 0.00 0.00 0.00 0.86 0.00 2.13 2.27 0.00 0.00 0.00 2.70 0.00 3.92 0.00 0.00 0.00 1.89 1.64 0.96 0.00 2.17 2.78 3.39 0.00 0.00 0.00 0.00 0.00 3.03 0.00 1.61 0.00 1.49 1.92 0.00 1.59 0.85 4.55 1.37 0.00 0.00 2.30 0.00 2.11 1.19 0.00 3.23 0.00 0.00 0.00 1.06 0.00 0.00 K intron_retention PhKgamma,I_chrX_11590179_11590249,I_chrX_11590183_11590435,I_chrX_11596563_11597322 chrX + chrX_11590345_11590435 chrX_11590344_11590345;chrX_11590435_11590436 chrX_11590250_11590344;chrX_11590436_11590535 37.50 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 37.50 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA N cassette Dscam,F_chr2R_3219886_3228832,F_chr2R_3226043_3235353,F_chr2R_3227948_3235353,F_chr2R_3228738_3235353,FI_chr2R_3229124_3235353,FI_chr2R_3236481_3242386,I_chr2R_3244812_3249222,FI_chr2R_3249373_3251385,FI_chr2R_3251554_3255892 chr2R - chr2R_3219886_3235353 chr2R_3219886_3231783;chr2R_3232075_3235353 chr2R_3231784_3232074 chr2R_3219786_3219885;chr2R_3235354_3235453 100.00 56.25 58.82 40.00 100.00 100.00 61.90 53.57 100.00 100.00 100.00 100.00 47.37 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 11.76 100.00 100.00 100.00 100.00 100.00 100.00 47.06 100.00 100.00 NA 33.33 100.00 100.00 100.00 100.00 100.00 100.00 55.56 NA 100.00 100.00 100.00 NA 100.00 100.00 100.00 72.41 100.00 55.56 100.00 100.00 NA 60.00 46.15 NA 100.00 K jcn_only_AA CG10080 chr2R + chr2R_17518321_17518491 chr2R_17518321_17518377 chr2R_17518123_17518320;chr2R_17518492_17518801 100.00 100.00 100.00 100.00 100.00 99.04 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.68 100.00 99.62 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 N jcn_only_AD CG2052,RI_chr4_407611_409383 chr4 - chr4_407611_411050 chr4_407611_407679 chr4_407533_407610;chr4_411051_411100 96.15 NA 100.00 NA NA NA NA 89.66 100.00 NA NA 85.00 NA NA NA NA NA NA NA 95.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA 96.15 NA NA NA NA NA NA NA NA NA K cassette CG40263,F_chr2RHet_1265687_1293040,RI_chr2RHet_1324541_1328409 chr2RHet - chr2RHet_1293394_1335781 chr2RHet_1293394_1324445;chr2RHet_1324541_1335781 chr2RHet_1324446_1324540 chr2RHet_1293236_1293393;chr2RHet_1335782_1335833 97.92 95.00 95.83 75.00 95.00 95.45 90.62 98.85 98.39 NA NA 94.59 100.00 96.97 95.24 92.86 100.00 94.12 100.00 90.91 100.00 NA 86.67 92.86 100.00 100.00 91.67 NA NA 83.33 90.62 100.00 NA 94.74 90.91 NA 100.00 100.00 100.00 100.00 100.00 97.92 95.00 100.00 100.00 100.00 90.00 100.00 97.92 100.00 100.00 100.00 85.71 100.00 96.97 100.00 87.50 100.00 K alternative_donor Abl,I_chr3L_16622304_16639909,RI_chr3L_16652567_16654512 chr3L - chr3L_16618375_16619627 chr3L_16618375_16619372 chr3L_16616737_16618374;chr3L_16619628_16619716 18.64 13.41 18.29 56.07 4.92 7.84 40.40 27.08 16.87 18.00 29.03 36.36 44.64 15.79 16.67 29.49 11.76 13.04 29.11 17.84 15.58 27.61 18.64 17.57 28.95 31.15 29.76 25.00 34.15 21.43 27.91 26.53 23.20 16.80 18.48 52.22 12.03 13.41 13.51 21.43 40.96 17.33 16.36 31.52 16.84 23.08 9.62 34.97 20.42 22.41 18.89 15.52 10.91 16.00 13.19 16.67 16.07 22.35 K alternative_donor Syx4,I_chrX_2636831_2636971 chrX - chrX_2636831_2637483 chrX_2636831_2636949 chrX_2636731_2636830;chrX_2637484_2637679 1.98 2.00 1.82 2.38 1.89 2.00 1.64 2.78 1.72 NA 4.00 3.80 4.55 3.77 6.00 2.70 2.27 2.00 1.79 1.19 2.94 2.38 2.00 2.70 0.00 0.00 0.00 6.25 4.35 2.13 1.27 0.00 2.08 2.30 1.69 4.76 1.61 0.00 1.41 1.75 0.00 2.91 1.96 0.00 0.00 1.18 0.00 3.39 3.30 1.72 3.12 2.70 0.00 0.00 1.45 1.82 2.04 0.00 K alternative_acceptor CG5991 chr3R + chr3R_19876703_19877425;chr3R_19876703_19877411 chr3R_19876703_19877421 chr3R_19876688_19876702;chr3R_19877426_19877477 42.86 NA NA 33.33 NA NA 50.00 50.00 53.85 NA NA 45.45 NA 50.00 63.64 36.36 40.00 NA 42.86 60.00 NA NA 40.00 NA NA 42.86 40.00 50.00 44.44 28.57 14.29 NA 41.67 42.86 50.00 42.86 33.33 20.00 NA 47.06 28.57 43.75 44.44 33.33 NA 50.00 42.86 50.00 46.67 40.00 55.56 NA 30.00 33.33 60.00 37.50 16.67 44.44 K jcn_only_AA Nup153,I_chrX_16495232_16495296 chrX + chrX_16495232_16495408 chrX_16495232_16495296 chrX_16495132_16495231;chrX_16495409_16499819 1.01 0.00 1.11 1.04 0.00 1.23 4.30 0.00 0.47 2.53 1.39 0.60 1.72 2.15 1.08 0.00 0.00 0.00 1.20 0.00 1.47 2.47 0.59 1.36 0.00 1.08 0.80 0.00 0.00 0.00 1.25 0.00 1.02 0.00 1.82 0.00 1.99 0.84 0.55 2.56 3.12 1.01 0.00 1.82 2.50 1.54 1.49 2.20 1.42 0.00 0.70 1.28 0.00 0.00 0.00 1.72 0.00 0.00 K alternative_acceptor Su(var)2-HP2 chr2R - chr2R_10499194_10499285 chr2R_10499197_10499285 chr2R_10499286_10499446;chr2R_10499125_10499193 90.45 90.00 91.67 72.22 75.00 100.00 94.74 88.89 88.46 87.50 87.50 95.24 80.00 88.89 91.67 94.12 NA 90.91 88.89 96.00 90.00 100.00 87.50 93.33 92.86 100.00 83.33 NA 87.50 100.00 90.00 NA 90.91 88.89 100.00 93.75 86.67 100.00 75.00 95.45 NA 88.46 84.62 90.91 NA 90.00 88.89 100.00 90.91 100.00 88.89 100.00 NA NA 75.00 90.91 NA NA K intron_retention Tsp39D chr2L + chr2L_21356683_21356739 chr2L_21356682_21356683;chr2L_21356739_21356740 chr2L_21356104_21356682;chr2L_21356740_21358273 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.59 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.78 0.00 0.00 NA 14.81 0.00 NA 9.80 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.72 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Dsp1,I_chrX_16231287_16231413 chrX + chrX_16227804_16228333 chrX_16227803_16227804;chrX_16228333_16228334 chrX_16227698_16227803;chrX_16228334_16228446 100.00 100.00 96.30 100.00 100.00 100.00 100.00 98.00 98.31 100.00 100.00 98.18 96.30 100.00 100.00 100.00 95.24 100.00 100.00 98.44 100.00 100.00 93.02 100.00 100.00 100.00 100.00 100.00 100.00 93.55 97.06 100.00 100.00 100.00 100.00 100.00 96.00 100.00 95.45 100.00 100.00 97.92 96.30 97.06 NA 100.00 100.00 100.00 98.28 96.15 97.30 100.00 100.00 94.74 100.00 94.12 93.33 100.00 K intron_retention MRP,F_chr2L_12727117_12736035 chr2L + chr2L_12719241_12722354 chr2L_12719240_12719241;chr2L_12722354_12722355 chr2L_12719072_12719240;chr2L_12722355_12722484 7.48 6.43 10.17 19.46 10.10 11.90 5.38 8.78 8.77 6.45 11.69 7.89 5.95 10.79 9.05 8.89 9.42 4.94 8.88 8.20 8.28 19.41 4.21 5.68 11.70 8.12 4.74 4.40 7.35 5.02 11.28 2.86 4.87 9.12 10.00 7.17 4.75 5.21 5.58 8.54 7.32 9.75 9.22 4.29 7.48 7.02 9.64 5.77 9.46 7.32 5.24 8.63 5.31 5.71 11.32 6.19 2.03 3.87 K intron_retention vari,I_chr2L_20789508_20789585,I_chr2L_20792267_20794059 chr2L - chr2L_20789424_20789585 chr2L_20789423_20789424;chr2L_20789585_20789586 chr2L_20789408_20789423;chr2L_20789586_20789660 0.72 0.00 2.00 1.19 0.00 0.00 5.71 3.53 2.65 0.00 1.47 1.72 0.00 0.00 2.60 5.63 0.00 1.54 0.00 2.50 0.00 3.51 1.18 0.00 1.33 0.00 1.74 0.00 0.00 0.00 1.41 0.00 0.00 2.88 0.00 2.53 0.53 0.00 0.57 2.40 5.45 0.73 0.00 2.04 0.87 0.72 0.00 0.00 1.55 0.88 1.43 1.41 0.00 0.00 0.00 0.00 0.00 3.28 K intron_retention I_chrX_2036036_2037024,Pgd chrX + chrX_2039448_2039522 chrX_2039447_2039448;chrX_2039522_2039523 chrX_2039132_2039447;chrX_2039523_2039746 0.00 0.00 0.00 0.61 0.00 0.00 0.61 1.03 0.60 5.00 0.00 0.90 0.00 0.00 0.00 0.00 0.00 0.00 1.15 0.00 0.00 0.00 NA NA NA 0.00 NA 6.67 0.00 0.00 0.00 0.00 0.00 0.54 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.61 0.00 NA 0.00 0.00 NA NA NA 0.00 NA 0.00 NA NA 0.00 K alternative_acceptor CG9399,I_chr3R_5403032_5403329 chr3R - chr3R_5399318_5399524;chr3R_5399255_5399524 chr3R_5399352_5399524 chr3R_5399525_5399559;chr3R_5399076_5399254 28.57 NA NA 25.00 NA 40.00 44.44 NA 32.14 20.00 15.38 25.00 NA 54.55 26.32 14.29 57.14 NA NA 52.63 25.00 NA NA 26.67 NA 9.09 28.57 NA NA NA 28.57 NA 33.33 10.00 60.00 NA 27.27 NA 60.00 55.00 33.33 NA 28.57 30.00 40.00 43.75 28.57 41.67 NA 11.11 16.67 NA 10.00 22.22 NA NA NA 50.00 N intron_retention ras chrX + chrX_10640260_10640321 chrX_10640259_10640260;chrX_10640321_10640322 chrX_10640109_10640259;chrX_10640322_10640360 50.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 50.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K cassette I_chr2L_6956220_6956307,sip2_CG9188 chr2L - chr2L_6963555_6963938 chr2L_6963555_6963743;chr2L_6963856_6963938 chr2L_6963744_6963855 chr2L_6961895_6963554;chr2L_6963939_6964073 17.86 20.83 24.00 16.46 17.86 25.00 26.87 35.85 22.06 4.65 15.69 14.00 11.76 23.26 19.30 36.14 22.22 19.61 23.33 12.58 20.41 40.62 16.24 15.00 16.33 34.48 25.81 15.38 15.69 21.54 18.46 17.39 15.91 28.92 12.31 22.41 17.86 21.05 22.37 11.86 12.07 22.77 21.74 16.87 22.22 14.86 11.11 7.08 24.73 16.90 19.47 17.07 17.65 12.07 20.00 13.79 12.90 10.34 K intron_retention Ect4,I_chr3L_8075556_8086158,C_chr3L_8091754_8101552,I_chr3L_8091826_8092243,I_chr3L_8098397_8101385,I_chr3L_8098758_8101738,I_chr3L_8100030_8101385 chr3L + chr3L_8098160_8098226 chr3L_8098159_8098160;chr3L_8098226_8098227 chr3L_8097980_8098159;chr3L_8098227_8098396 0.41 0.87 0.72 1.65 0.00 0.98 0.00 1.14 0.83 1.37 0.00 0.00 0.00 0.00 0.00 0.68 0.00 0.86 0.00 0.84 0.00 2.79 1.33 0.65 3.54 0.00 1.94 6.32 7.69 0.00 0.00 0.00 0.00 0.59 1.61 1.48 0.00 0.81 0.00 1.75 4.82 0.41 0.00 0.00 0.00 0.00 0.00 0.81 1.59 0.98 1.28 0.00 0.00 0.00 0.78 0.00 0.00 0.00 K alternative_donor MAPk-Ak2,RI_chrX_5655618_5656137,I_chrX_5656715_5657427,I_chrX_5656715_5657893,I_chrX_5656715_5657974 chrX - chrX_5656715_5658126;chrX_5656715_5658101 chrX_5656715_5658141 chrX_5656615_5656714;chrX_5658142_5658214 1.72 2.50 1.75 0.00 2.04 2.50 4.94 1.12 0.82 2.56 2.33 2.15 0.00 2.22 1.89 1.25 0.00 2.22 1.89 1.05 0.00 3.92 1.52 1.72 0.00 0.00 7.02 6.06 0.00 0.00 1.59 5.56 0.00 1.45 3.23 2.38 1.64 2.00 1.72 2.27 0.00 0.00 0.00 1.79 0.00 4.08 2.00 0.00 2.30 0.00 0.00 0.00 0.00 2.70 0.00 2.04 2.13 3.57 K intron_retention CG11523 chr3L - chr3L_22259084_22259175 chr3L_22259083_22259084;chr3L_22259175_22259176 chr3L_22258906_22259083;chr3L_22259176_22259747 96.49 93.33 100.00 96.00 100.00 100.00 95.24 97.37 96.55 NA 100.00 96.77 85.71 100.00 100.00 96.97 100.00 92.86 100.00 96.43 91.67 91.67 NA 100.00 NA 100.00 91.67 NA 93.75 100.00 100.00 91.67 92.31 96.88 100.00 91.67 90.00 NA 90.00 95.45 89.66 97.06 100.00 NA 92.31 97.78 100.00 88.57 96.97 92.86 90.91 100.00 NA 81.82 94.12 88.24 92.86 98.33 K alternative_acceptor Gbeta13F,I_chrX_15754284_15755167,I_chrX_15754284_15755184,RI_chrX_15754356_15755268,I_chrX_15754356_15755409,RI_chrX_15755345_15755409 chrX + chrX_15754356_15755184;chrX_15754356_15755256;chrX_15754356_15755172;chrX_15754356_15755268 chrX_15754356_15755409 chrX_15754256_15754355;chrX_15755410_15755509 4.00 4.76 6.25 0.00 0.00 NA 0.00 2.00 4.88 NA NA 0.00 2.17 0.00 5.56 1.89 0.00 5.00 3.23 2.00 NA 0.00 4.00 6.67 6.67 NA 5.00 NA 18.18 5.88 4.55 NA 6.45 2.04 6.25 NA 4.35 NA NA 3.57 7.14 8.33 3.03 4.35 0.00 4.00 NA 0.00 2.50 NA 0.00 6.25 NA 0.00 0.00 NA 10.00 6.25 K intron_retention I_chr2R_4783150_4783708,Ggamma1,noncoding_5300 chr2R + chr2R_4789042_4789832 chr2R_4789041_4789042;chr2R_4789832_4789833 chr2R_4788986_4789041;chr2R_4789833_4790635 100.00 100.00 100.00 99.10 100.00 100.00 98.94 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.88 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.06 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.85 100.00 100.00 100.00 100.00 98.48 100.00 100.00 98.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.11 97.83 100.00 K alternative_acceptor l(2)35Cc,RI_chr2L_15256698_15256752 chr2L + chr2L_15256698_15256752 chr2L_15256698_15256748 chr2L_15256624_15256697;chr2L_15256753_15256852 97.06 100.00 92.86 93.75 100.00 100.00 90.48 95.00 96.67 NA 92.31 100.00 92.31 100.00 100.00 92.86 100.00 90.00 100.00 97.06 100.00 100.00 95.65 100.00 81.82 100.00 100.00 100.00 90.91 100.00 90.91 90.91 90.00 100.00 100.00 100.00 100.00 100.00 100.00 94.74 90.91 100.00 100.00 100.00 75.00 95.24 100.00 NA 95.65 100.00 100.00 91.67 94.12 94.12 94.12 84.21 95.24 93.33 N intron_retention Stat92E,I_chr3R_16367780_16376442,I_chr3R_16367780_16377802,I_chr3R_16367815_16368548,att-ORFB chr3R - chr3R_16367276_16367331 chr3R_16367275_16367276;chr3R_16367331_16367332 chr3R_16366245_16367275 12.12 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 12.12 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention east,CR_chrX_1912038_1912737 chrX + chrX_1912243_1912737 chrX_1912242_1912243;chrX_1912737_1912738 chrX_1912113_1912242;chrX_1912738_1912837 5.41 0.00 7.41 4.44 0.00 9.09 5.71 3.92 3.70 NA 3.85 6.00 9.09 0.00 16.67 7.50 8.70 0.00 6.67 6.56 0.00 11.11 9.09 0.00 13.04 0.00 5.13 NA 0.00 20.83 5.41 NA NA 4.76 NA 5.88 10.34 4.76 7.89 16.00 NA 3.92 8.33 13.04 0.00 0.00 0.00 0.00 5.00 0.00 14.29 0.00 11.11 NA 16.67 NA 12.50 0.00 K intron_retention CG32529 chrX + chrX_19798479_19798541 chrX_19798478_19798479;chrX_19798541_19798542 chrX_19798319_19798478;chrX_19798542_19798710 0.50 0.29 0.80 1.60 0.00 0.81 1.47 1.29 0.69 0.56 0.78 0.64 0.00 0.44 1.57 1.57 0.50 0.00 0.00 0.37 0.00 0.70 0.71 1.03 1.28 5.76 1.21 1.74 2.23 0.58 0.00 0.00 0.33 0.63 0.00 0.36 0.67 0.00 1.12 0.19 3.92 0.00 0.00 0.00 0.82 0.00 0.00 0.49 0.94 0.33 0.76 0.00 0.00 0.00 0.37 0.00 0.00 0.95 K jcn_only_AA MRG15,I_chr3R_11103293_11103335,l(3)neo43,F_chr3R_11104164_11104239 chr3R - chr3R_11103278_11103335 chr3R_11103293_11103335 chr3R_11103336_11103435;chr3R_11103193_11103277 0.00 0.00 0.00 0.00 0.00 0.00 2.38 0.00 1.47 0.00 0.00 2.60 0.00 0.00 0.00 1.92 3.57 2.38 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.23 0.00 0.00 1.72 1.92 0.00 0.00 0.00 3.51 1.89 3.95 0.00 0.00 0.00 7.50 1.79 2.35 3.08 3.96 3.66 0.00 0.00 0.00 3.45 2.08 2.00 0.00 1.39 0.00 K alternative_acceptor Imp,RI_chrX_10699665_10700695 chrX - chrX_10692578_10692651 chrX_10692599_10692651 chrX_10692652_10693026;chrX_10691869_10692577 9.53 13.33 10.13 10.94 6.85 6.35 10.81 9.35 11.92 12.50 7.23 10.94 11.27 11.27 8.05 9.80 7.69 9.21 11.69 11.11 9.38 16.00 8.08 7.25 13.04 15.62 5.43 7.27 13.51 7.84 7.69 6.25 11.11 8.40 9.76 17.78 7.14 8.51 9.23 14.08 28.57 8.45 10.61 10.34 12.50 4.00 6.25 9.09 12.06 7.69 4.00 11.54 5.56 NA 7.78 4.35 14.71 9.68 K alternative_donor Nedd4,I_chr3L_17532828_17532882,I_chr3L_17532828_17533787,I_chr3L_17534504_17535990,I_chr3L_17536813_17536863 chr3L + chr3L_17532828_17533790 chr3L_17532837_17533790 chr3L_17533791_17533887;chr3L_17532728_17532827 77.42 80.95 81.54 90.14 76.47 68.66 51.19 78.95 74.02 76.47 95.24 70.18 75.68 75.00 68.35 75.00 70.00 83.58 70.83 76.07 89.19 84.00 80.83 82.28 86.15 66.67 77.01 77.50 68.12 80.00 77.94 71.79 75.71 74.47 71.19 72.46 77.48 76.34 83.33 68.18 75.00 79.63 81.08 80.26 84.44 79.55 75.61 84.09 73.79 81.63 78.41 67.16 67.57 77.42 77.61 78.57 86.49 86.84 K cassette Nipped-B,I_chr2R_580301_580515,I_chr2R_580453_580515,I_chr2R_580989_582555,RI_chr2R_599551_607274,I_chr2R_616057_617208 chr2R - chr2R_580301_580515 chr2R_580301_580367;chr2R_580453_580515 chr2R_580368_580452 chr2R_580236_580300;chr2R_580516_580582 87.50 NA 83.33 90.00 NA 83.33 86.84 88.89 94.44 NA NA 93.75 91.67 100.00 87.50 93.75 NA NA 71.43 70.59 NA 87.50 NA 100.00 NA 87.50 90.00 50.00 100.00 100.00 94.12 85.71 75.00 90.48 NA 87.50 NA NA NA 100.00 70.00 94.74 88.89 100.00 72.73 87.50 NA 84.21 85.00 85.71 75.00 NA NA NA 100.00 NA 75.00 94.12 K intron_retention CG5515,I_chr3R_20017846_20017911,I_chr3R_20018643_20018703 chr3R - chr3R_20014184_20014237 chr3R_20014183_20014184;chr3R_20014237_20014238 chr3R_20013404_20014183;chr3R_20014238_20014329 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.50 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.50 0.00 0.00 8.00 8.51 2.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD Nca,CG7646 chr3L + chr3L_19986423_19988473 chr3L_19988052_19988473 chr3L_19988474_19988523 95.41 NA NA 80.95 NA NA NA 96.97 97.30 NA NA 95.00 NA NA NA NA NA NA 90.48 95.83 NA NA NA NA NA NA NA NA NA NA NA NA NA 86.36 NA 95.83 NA NA NA NA NA 90.48 NA NA NA NA NA NA 96.55 NA NA NA NA NA NA NA NA NA K jcn_only_AD CG3194,CG17266 chr2R - chr2R_2560392_2560453 chr2R_2560392_2560447 chr2R_2559013_2560391;chr2R_2560454_2560850 56.52 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 60.71 NA 63.64 NA NA NA NA NA NA NA NA NA 45.83 NA NA NA NA NA NA NA 52.00 NA NA NA NA NA 56.52 NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CG31033,RI_chr3R_25658089_25658914 chr3R - chr3R_25658089_25658914;chr3R_25658095_25658914 chr3R_25658071_25658914 chr3R_25658915_25659003;chr3R_25657989_25658070 80.70 86.15 85.11 46.27 78.79 80.77 47.95 88.42 84.40 78.95 84.44 81.30 74.00 83.05 79.55 56.41 67.27 80.36 85.71 79.67 74.07 78.12 71.43 87.34 75.68 51.56 77.63 86.79 80.70 85.94 84.06 84.29 82.76 74.07 82.35 49.09 74.14 84.06 91.25 83.33 61.11 84.51 82.86 83.33 79.49 88.89 72.88 93.69 76.69 82.81 76.47 78.85 87.23 75.00 80.95 76.92 77.03 87.16 K jcn_only_AA drk,RI_chr2R_9389255_9389317,I_chr2R_9389597_9389751,I_chr2R_9389597_9389907,I_chr2R_9389597_9389940,I_chr2R_9389597_9390151,I_chr2R_9389597_9390271,I_chr2R_9389714_9390195 chr2R - chr2R_9389400_9390195;chr2R_9389597_9390195;chr2R_9389430_9390195 chr2R_9389714_9390195 chr2R_9390196_9390251;chr2R_9389318_9389399 0.00 0.00 0.00 2.47 0.00 0.00 1.01 0.00 1.83 0.00 2.08 0.00 0.00 0.00 0.00 0.00 0.00 1.37 0.00 1.40 0.00 2.08 1.10 3.08 0.00 0.00 0.00 1.69 0.00 0.00 0.00 0.00 3.03 0.00 1.72 0.00 3.51 0.00 0.00 0.00 NA 0.00 5.56 0.00 3.33 0.00 1.28 0.00 0.00 1.69 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention eIF-5A,I_chr2R_19946299_19946454,I_chr2R_19946657_19946733,RI_chr2R_19946806_19946861,I_chr2R_19948517_19948682 chr2R + chr2R_19946657_19946718 chr2R_19946656_19946657;chr2R_19946718_19946719 chr2R_19946588_19946656;chr2R_19946719_19946799 0.00 0.00 0.00 0.00 0.00 0.06 0.00 0.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.03 0.00 0.00 0.00 0.03 0.00 0.00 0.00 0.00 0.00 0.00 0.14 0.07 0.00 0.00 0.00 0.00 0.00 0.03 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.04 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG16952,RI_chrX_15764587_15765393,I_chrX_15766003_15766047 chrX + chrX_15769239_15769339 chrX_15769239_15769300 chrX_15769171_15769238;chrX_15769340_15769402 98.70 100.00 96.43 97.22 88.89 96.30 96.43 97.22 97.78 100.00 100.00 100.00 100.00 100.00 96.43 100.00 93.75 100.00 100.00 95.77 100.00 96.97 100.00 100.00 100.00 100.00 96.30 92.86 100.00 100.00 100.00 97.87 100.00 97.62 100.00 95.24 100.00 95.00 100.00 98.33 97.87 95.12 100.00 100.00 96.00 98.63 96.43 98.70 97.87 90.91 97.06 100.00 100.00 96.00 100.00 100.00 100.00 98.55 K alternative_acceptor CG31033,RI_chr3R_25658089_25658914 chr3R - chr3R_25658089_25658914;chr3R_25658095_25658914 chr3R_25658071_25658914 chr3R_25658915_25659003;chr3R_25657989_25658070 86.84 93.18 85.29 57.89 86.36 90.91 64.10 91.04 87.01 81.48 93.33 85.71 81.82 87.80 89.47 66.67 81.82 86.84 92.31 87.65 80.56 85.71 78.18 94.34 80.00 68.57 82.69 89.19 84.62 86.96 85.71 89.58 81.25 85.29 91.11 62.50 86.11 91.30 86.89 92.00 78.43 87.00 87.50 89.58 84.91 90.36 83.78 91.46 84.09 88.37 86.36 85.71 90.91 88.24 89.09 90.00 83.67 86.92 K jcn_only_AA Irbp chr3R + chr3R_7236841_7236963 chr3R_7236841_7236941 chr3R_7236778_7236840;chr3R_7236964_7238112 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CG16758,I_chr3L_2501142_2502594,I_chr3L_2502724_2503142 chr3L - chr3L_2502724_2503142;chr3L_2500463_2503142 chr3L_2501142_2503142 chr3L_2503143_2503242 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.38 0.00 NA NA 0.00 NA 0.00 0.00 NA NA NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.04 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD Pitslre,I_chr3L_20764965_20765781,I_chr3L_20764965_20766192,I_chr3L_20764965_20766212,I_chr3L_20766064_20766192,I_chr3L_20766064_20766215,RI_chr3L_20766064_20766893,I_chr3L_20766311_20766664,I_chr3L_20766311_20766893,I_chr3L_20766773_20766893 chr3L + chr3L_20764709_20766893 chr3L_20764965_20766893 chr3L_20766894_20766993;chr3L_20764640_20764708 100.00 100.00 NA NA NA NA NA NA 96.55 100.00 NA NA NA NA NA NA NA NA NA 95.83 NA NA 100.00 100.00 100.00 NA 100.00 100.00 96.43 100.00 NA NA 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 NA 93.94 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 NA NA 100.00 95.24 NA K intron_retention RI_chr2L_8218680_8218853,Pvr,I_chr2L_8229012_8229080,I_chr2L_8230332_8238998 chr2L - chr2L_8221968_8222225 chr2L_8221967_8221968;chr2L_8222225_8222226 chr2L_8221488_8221967;chr2L_8222226_8222376 80.83 81.30 80.00 83.00 87.76 89.23 88.61 93.46 85.32 72.46 85.71 84.56 89.71 88.00 87.13 84.93 83.33 88.31 90.00 78.41 82.19 77.59 60.87 71.13 74.42 85.48 70.75 73.33 79.07 78.07 80.68 80.65 76.74 93.52 84.51 88.16 72.36 80.99 77.91 80.83 77.05 84.28 86.15 81.06 66.23 77.10 76.43 78.26 81.44 68.10 78.31 85.48 75.96 76.67 89.32 77.19 73.15 74.55 K intron_retention I_chr2L_8213024_8213227,CG8360 chr2L + chr2L_8213283_8213336 chr2L_8213282_8213283;chr2L_8213336_8213337 chr2L_8213228_8213282;chr2L_8213337_8213402 8.82 6.67 0.00 8.33 0.00 4.44 8.33 10.29 9.76 0.00 7.41 6.67 12.50 9.09 4.26 8.51 10.53 10.20 2.78 6.74 9.68 9.46 16.28 14.63 8.33 4.17 12.50 40.00 14.29 5.00 13.64 12.00 10.87 10.00 8.82 21.21 8.00 9.30 10.81 12.24 7.41 8.82 3.85 11.76 7.14 10.42 2.78 11.76 10.34 12.12 6.56 9.76 5.41 7.14 5.56 5.00 4.29 9.43 K intron_retention syd,I_chr3L_7924891_7925400 chr3L - chr3L_7920921_7921016 chr3L_7920920_7920921;chr3L_7921016_7921017 chr3L_7920860_7920920;chr3L_7921017_7921217 46.15 36.36 44.44 15.00 47.06 47.06 68.75 47.06 48.48 47.06 52.94 34.78 46.15 NA 50.00 45.00 36.36 35.71 71.43 34.15 56.25 70.83 44.00 35.29 71.43 80.00 53.33 NA 58.33 29.41 52.00 35.71 40.00 48.15 40.00 66.67 47.83 26.32 31.25 NA 73.33 46.88 46.15 60.00 31.25 46.15 40.00 30.30 45.83 50.00 39.13 NA 35.71 NA NA 23.53 36.36 26.09 K cassette CG11727,CREI_chrX_11327451_11328532 chrX - chrX_11330430_11331055 chrX_11330430_11330807;chrX_11330826_11331055 chrX_11330808_11330825 chrX_11329762_11330429;chrX_11331056_11331170 75.00 NA NA 100.00 NA NA NA NA 69.23 NA NA NA NA NA NA NA NA NA NA 92.86 NA 36.36 62.50 75.00 NA NA NA NA 36.36 75.00 NA NA 90.91 87.50 77.78 NA NA NA NA NA NA 75.00 NA NA NA NA NA 71.43 75.00 NA 54.55 NA NA NA NA NA NA NA K cassette CG5522 chr2R + chr2R_12677421_12678243 chr2R_12677421_12677660;chr2R_12677772_12678243 chr2R_12677661_12677771 chr2R_12677217_12677420;chr2R_12678244_12679955 1.37 1.00 1.92 1.42 1.13 1.08 0.94 1.05 1.59 1.10 1.34 2.56 1.04 1.08 0.97 1.23 1.97 1.82 0.94 1.93 1.88 2.34 1.30 1.70 1.92 0.55 2.02 1.95 1.01 1.03 1.40 2.10 1.19 1.14 1.28 3.47 0.92 1.44 1.33 0.97 1.37 0.85 1.41 1.22 1.03 1.78 2.00 1.41 0.90 1.68 1.08 1.60 2.78 2.24 0.45 1.61 2.12 2.73 K intron_retention CG9184 chr3L - chr3L_1322703_1322751 chr3L_1322702_1322703;chr3L_1322751_1322752 chr3L_1322541_1322702;chr3L_1322752_1323409 35.12 NA NA NA NA NA NA NA 22.22 NA NA NA NA NA NA NA NA NA NA 28.57 NA 41.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 42.86 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention l(1)G0230 chrX + chrX_10107519_10107592 chrX_10107518_10107519;chrX_10107592_10107593 chrX_10107314_10107518;chrX_10107593_10107804 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA Mi-2 chr3L - chr3L_19881576_19881637 chr3L_19881579_19881637 chr3L_19881638_19881714;chr3L_19881332_19881575 15.68 16.96 14.42 12.50 13.41 19.59 11.76 11.97 12.61 17.35 12.36 15.96 20.31 14.61 15.93 12.15 17.46 15.71 10.53 15.79 28.40 15.00 15.68 19.87 18.75 7.89 12.03 21.43 12.95 14.63 14.77 14.08 16.79 13.87 19.42 16.06 15.59 10.85 18.12 19.23 12.35 14.21 15.94 13.79 16.90 14.86 22.88 18.42 13.25 22.22 11.28 18.63 15.79 25.00 20.39 13.92 17.31 10.48 K intron_retention br,I_chrX_1517022_1518170 chrX + chrX_1531173_1531316 chrX_1531172_1531173;chrX_1531316_1531317 chrX_1531033_1531172;chrX_1531317_1531367 0.00 0.00 2.86 2.70 3.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.26 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.03 0.00 0.00 0.00 0.00 0.00 1.92 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG8735,noncoding_5214 chr2R - chr2R_4487364_4487423 chr2R_4487363_4487364;chr2R_4487423_4487424 chr2R_4487316_4487363;chr2R_4487424_4487429 96.76 92.86 95.45 93.75 95.00 94.12 97.37 97.44 97.96 100.00 93.33 96.97 94.12 100.00 100.00 100.00 92.31 96.00 92.59 96.23 95.45 100.00 100.00 100.00 100.00 100.00 92.86 90.00 100.00 94.74 100.00 100.00 95.12 96.55 91.67 100.00 100.00 100.00 100.00 97.30 100.00 90.00 93.33 93.33 97.30 100.00 90.00 96.00 95.24 100.00 91.67 100.00 100.00 NA 96.30 100.00 94.74 96.49 K intron_retention l(2)03709,I_chr2R_14707617_14707700,I_chr2R_14708048_14708095 chr2R + chr2R_14708789_14708994 chr2R_14708788_14708789;chr2R_14708994_14708995 chr2R_14708689_14708788;chr2R_14708995_14709059 97.14 97.75 97.50 98.85 97.83 98.36 99.57 98.80 95.21 97.22 98.53 97.06 94.12 98.70 98.86 99.03 100.00 98.48 97.85 97.14 98.21 90.54 96.75 96.69 96.59 98.91 96.18 92.13 96.25 90.14 98.86 94.44 88.89 96.75 95.06 89.77 94.37 92.86 94.67 97.76 94.37 97.67 98.81 97.06 93.75 98.95 98.81 95.56 97.62 93.81 92.97 95.95 98.51 94.32 97.22 93.33 99.23 98.28 N intron_retention CG13384 chr2L + chr2L_8386142_8386216 chr2L_8386141_8386142;chr2L_8386216_8386217 chr2L_8386121_8386141;chr2L_8386217_8386384 78.79 80.77 71.43 84.51 82.28 80.28 85.04 80.33 80.39 77.65 72.53 73.64 75.61 81.97 78.65 76.70 78.12 70.00 77.38 71.33 86.36 86.73 87.18 92.92 84.62 78.79 79.27 89.92 69.64 76.09 69.32 75.36 77.47 79.38 71.76 100.00 83.89 83.82 82.41 80.58 86.67 74.86 75.00 90.36 69.70 69.11 71.67 70.89 71.67 100.00 76.47 82.86 100.00 74.36 79.76 80.28 78.79 71.08 K cassette CG14995,I_chr3L_4095875_4097205,I_chr3L_4096047_4096903 chr3L - chr3L_4098200_4101476 chr3L_4098200_4100779;chr3L_4100846_4101476 chr3L_4100780_4100845 chr3L_4098026_4098199;chr3L_4101477_4102697 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 91.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AD mys,I_chrX_7958795_7961094 chrX + chrX_7955908_7957872;chrX_7955914_7957872;chrX_7955759_7957872;chrX_7956114_7957872;chrX_7955901_7957872;chrX_7956125_7957872;chrX_7955967_7957872 chrX_7955904_7957872 chrX_7957873_7958492;chrX_7955741_7955758 16.19 18.37 19.62 11.68 11.54 12.75 15.35 9.72 15.72 19.18 16.74 14.41 9.23 14.98 12.09 18.99 12.62 12.50 16.07 10.97 13.45 16.19 23.77 29.26 30.25 12.24 23.95 20.25 11.20 25.57 14.11 16.07 15.63 16.55 25.00 25.79 21.23 18.94 21.36 14.36 16.10 12.52 18.95 16.84 13.22 23.53 32.79 10.94 13.47 30.38 24.49 20.16 24.50 32.76 12.70 32.95 24.06 14.35 K intron_retention mri,RI_chr3L_201061_201173,I_chr3L_212783_212843 chr3L + chr3L_201763_201816 chr3L_201762_201763;chr3L_201816_201817 chr3L_201441_201762;chr3L_201817_202165 92.31 81.82 NA 95.83 NA NA 92.31 90.91 92.86 NA 80.00 90.48 NA NA NA 100.00 NA NA NA 84.62 NA NA 94.44 90.91 100.00 100.00 81.25 100.00 NA NA 83.33 87.50 100.00 90.00 100.00 100.00 83.33 88.89 94.12 NA 92.86 100.00 NA 90.00 NA 100.00 92.31 NA 92.86 93.33 87.50 NA NA 91.67 100.00 92.31 81.82 NA K intron_retention Doa,I_chr3R_24715823_24718923,I_chr3R_24747391_24747896 chr3R + chr3R_24745290_24745946 chr3R_24745289_24745290;chr3R_24745946_24745947 chr3R_24745214_24745289;chr3R_24745947_24746013 0.66 0.79 1.48 2.11 2.20 2.11 10.14 0.66 0.81 0.00 4.23 1.90 1.27 1.60 0.69 1.57 0.00 0.00 1.61 1.20 0.00 0.00 1.01 0.68 0.00 0.00 2.44 0.00 2.78 1.77 0.00 0.00 2.53 1.28 0.00 0.00 0.00 0.00 0.00 1.85 0.00 0.44 2.41 0.74 0.00 1.89 0.00 2.04 2.76 0.00 0.59 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Actn,I_chrX_1929229_1936079,I_chrX_1929235_1930613,I_chrX_1929445_1930439,I_chrX_1929474_1930439,usp,I_chrX_1935420_1935493,I_chrX_1935678_1936079,I_chrX_1935889_1936079 chrX - chrX_1929235_1936079 chrX_1929234_1929235;chrX_1936079_1936080 chrX_1929135_1929234;chrX_1936080_1936110 11.54 17.65 14.29 6.98 15.38 23.53 22.22 8.00 9.52 8.82 37.50 16.67 25.00 20.00 15.38 13.33 NA 13.33 25.00 11.94 15.00 16.22 11.54 10.87 0.00 23.53 7.89 13.33 10.20 1.85 25.00 3.12 5.95 14.71 10.81 14.29 6.45 8.33 8.93 10.94 9.09 16.07 NA 5.26 10.00 12.24 8.33 8.33 17.39 9.68 10.42 16.67 7.14 5.56 17.65 5.71 12.00 5.13 K cassette l(1)G0196,RI_chrX_21900456_21904036,I_chrX_21900456_21904601 chrX + chrX_21900456_21904471 chrX_21900456_21904030;chrX_21904142_21904471 chrX_21904031_21904141 chrX_21900356_21900455;chrX_21904472_21904538 76.67 77.78 69.05 59.57 70.00 75.86 84.44 75.00 78.46 84.62 93.75 60.78 94.44 76.67 76.67 88.37 76.00 81.25 92.31 69.70 96.00 78.57 70.18 73.68 78.26 86.36 73.53 86.67 81.82 81.48 84.44 72.22 84.38 86.96 75.00 50.00 70.97 68.18 63.27 66.67 69.57 77.14 78.26 84.09 95.00 69.57 70.83 77.78 83.56 66.67 68.85 84.00 50.00 71.43 82.22 75.76 75.68 75.00 K intron_retention CG12219 chrX - chrX_6195002_6195067 chrX_6195001_6195002;chrX_6195067_6195068 chrX_6193896_6195001;chrX_6195068_6195314 0.00 0.00 0.00 5.56 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 4.55 0.00 0.00 NA 5.88 0.00 0.00 3.64 2.27 0.00 0.00 3.12 0.00 10.53 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.76 4.35 0.00 0.00 5.00 NA 0.00 0.00 0.00 0.00 0.00 5.71 1.54 5.26 0.00 0.00 3.57 0.00 0.00 5.26 0.00 K alternative_acceptor mod(r),RI_chrX_515831_515923,I_chrX_516392_517480 chrX + chrX_516392_516478 chrX_516392_516466 chrX_516292_516391;chrX_516479_517065 42.63 63.64 36.36 60.00 55.56 54.55 47.06 39.13 36.36 NA 50.00 46.15 50.00 41.18 43.75 39.13 NA 31.58 46.15 43.33 35.71 44.44 47.06 50.00 55.56 NA 50.00 NA 34.62 30.77 50.00 50.00 31.03 41.67 30.00 NA 43.48 50.00 NA 47.83 40.00 40.62 33.33 50.00 34.48 35.71 33.33 52.63 41.94 33.33 47.06 NA 29.41 41.67 34.78 33.33 44.44 33.33 K intron_retention CG12207,I_chr3R_10115172_10115963,RE_chr3R_10124392_10124511 chr3R + chr3R_10126741_10126949 chr3R_10126740_10126741;chr3R_10126949_10126950 chr3R_10126142_10126740;chr3R_10126950_10127979 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.38 0.00 0.00 0.00 0.00 0.00 1.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA mub,RI_chr3L_21901021_21901163,I_chr3L_21908756_21909179 chr3L + chr3L_21914088_21914192;chr3L_21914088_21914156;chr3L_21914088_21914141 chr3L_21914088_21914153 chr3L_21914067_21914087;chr3L_21914193_21914427 10.34 NA NA NA NA NA NA NA 10.34 NA NA NA NA NA NA NA NA NA NA 11.54 NA 11.54 8.11 13.64 NA NA NA NA NA 15.00 NA NA 4.17 NA NA NA 7.89 7.41 19.23 12.00 NA 0.00 NA 4.55 NA NA NA 14.29 NA NA 8.33 NA NA NA NA NA NA NA K intron_retention CG10082,E_chr2R_17533874_17544072,RI_chr2R_17537544_17537615,I_chr2R_17541516_17542279,I_chr2R_17541573_17542279,I_chr2R_17543813_17543881 chr2R + chr2R_17540069_17542279 chr2R_17540068_17540069;chr2R_17542279_17542280 chr2R_17539942_17540068;chr2R_17542280_17542379 13.70 14.81 28.00 27.08 5.71 19.57 35.56 21.15 21.90 5.88 13.79 28.05 11.11 29.73 19.64 25.53 13.64 13.16 25.58 24.24 14.89 9.52 7.14 11.76 12.24 23.81 10.34 6.82 5.71 12.77 21.05 12.90 9.26 14.93 8.89 7.89 8.82 9.43 13.70 12.64 34.62 23.08 22.22 12.12 15.38 20.75 10.14 19.44 17.78 11.76 8.05 13.89 6.25 11.11 16.36 7.69 13.46 24.00 K intron_retention rad50,ppk12 chr2R + chr2R_18309244_18309298 chr2R_18309243_18309244;chr2R_18309298_18309299 chr2R_18308554_18309243;chr2R_18309299_18309512 0.00 0.00 0.00 17.07 0.00 0.00 1.82 0.00 3.03 NA 0.00 5.41 0.00 0.00 0.00 0.00 0.00 0.00 2.44 0.00 0.00 5.41 0.00 0.00 0.00 0.00 6.90 3.45 0.00 0.00 2.56 NA 0.00 2.44 0.00 13.64 0.00 0.00 0.00 0.00 7.14 0.00 0.00 0.00 NA 0.00 3.57 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 K intron_retention sec63 chr3L + chr3L_7355554_7355621 chr3L_7355553_7355554;chr3L_7355621_7355622 chr3L_7354844_7355553;chr3L_7355622_7356870 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.42 0.00 0.00 0.00 0.00 0.00 0.42 1.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.32 0.61 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA Cdc37,CG12020 chr3L + chr3L_1796838_1796910 chr3L_1796838_1796901 chr3L_1796769_1796837;chr3L_1796911_1796976 100.00 100.00 100.00 100.00 100.00 99.40 100.00 100.00 100.00 100.00 100.00 99.70 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.41 100.00 100.00 99.69 99.63 100.00 100.00 99.58 100.00 99.60 100.00 100.00 100.00 99.70 99.69 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.63 100.00 100.00 100.00 100.00 100.00 99.33 100.00 100.00 100.00 99.68 K intron_retention Ptp4E,EI_chrX_4842231_4842425 chrX + chrX_4847655_4848167 chrX_4847654_4847655;chrX_4848167_4848168 chrX_4847526_4847654;chrX_4848168_4848168 51.85 NA NA NA NA NA 50.00 63.64 51.85 NA NA 60.00 85.71 72.73 60.00 NA NA NA NA 69.23 NA NA 37.50 42.86 NA NA NA NA NA NA 57.14 NA NA 69.23 NA NA 29.41 45.45 29.41 NA NA 66.67 NA 41.67 NA NA 42.86 NA NA 46.15 33.33 NA NA NA 87.50 NA NA NA K cassette Gel,I_chr3R_63962_64024,I_chr3R_66533_66599 chr3R + chr3R_61871_62274 chr3R_61871_61960;chr3R_62004_62274 chr3R_61961_62003 chr3R_61844_61870;chr3R_62275_62526 20.00 NA 20.00 NA NA NA NA NA 30.77 NA NA NA NA NA NA 19.05 NA NA NA 11.43 NA NA NA NA NA NA NA NA NA NA NA NA NA 27.78 NA NA NA NA NA NA NA 20.00 NA NA NA NA NA NA 9.09 NA NA NA NA NA NA NA NA NA K intron_retention CG2051 chr3R - chr3R_1614436_1614487 chr3R_1614435_1614436;chr3R_1614487_1614488 chr3R_1613934_1614435;chr3R_1614488_1614666 0.00 0.00 0.00 0.00 0.00 1.25 0.00 0.00 0.97 0.00 0.00 1.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.99 0.00 0.00 0.00 1.06 2.27 2.33 0.00 0.00 0.00 0.00 0.65 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.82 0.00 0.00 0.00 1.61 0.00 1.92 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Su(var)2-10,RI_chr2R_5006333_5006392 chr2R + chr2R_5006553_5008282 chr2R_5006552_5006553;chr2R_5008282_5008283 chr2R_5006405_5006552;chr2R_5008283_5008324 79.17 82.50 82.35 97.22 84.00 79.17 80.85 80.56 80.30 73.08 81.25 75.44 83.33 88.89 75.76 85.71 96.43 82.61 79.31 78.12 85.19 90.48 76.67 78.57 71.74 96.55 80.56 73.53 71.43 70.97 79.17 73.08 80.39 80.00 71.88 92.11 76.92 67.44 74.47 74.07 85.29 78.18 78.26 77.42 71.43 82.86 66.67 75.00 81.82 81.58 70.73 75.00 84.62 80.00 76.67 76.47 68.57 80.00 K intron_retention CG10082,E_chr2R_17533874_17544072,I_chr2R_17543813_17543881 chr2R + chr2R_17542413_17542474 chr2R_17542412_17542413;chr2R_17542474_17542475 chr2R_17542280_17542412;chr2R_17542475_17542551 0.00 1.92 0.00 0.00 0.00 0.00 2.17 4.84 4.46 0.00 0.00 0.00 0.00 0.00 1.43 0.00 0.00 2.17 0.00 0.93 0.00 0.00 0.00 0.00 0.00 3.28 2.04 3.45 0.00 0.00 7.69 0.00 4.26 2.78 0.00 0.00 0.00 2.27 1.85 0.00 0.00 1.68 0.00 0.00 0.00 0.00 0.00 0.00 2.50 4.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA cul-2,I_chr2L_21659273_21659499,I_chr2L_21659273_21659705,I_chr2L_21659761_21659839,I_chr2L_21661637_21661945,I_chr2L_21662021_21662083 chr2L + chr2L_21659273_21659839 chr2L_21659273_21659705 chr2L_21659173_21659272;chr2L_21659840_21659939 0.00 0.00 0.00 0.62 0.00 0.00 0.00 0.00 0.48 0.00 0.00 0.48 1.22 0.00 0.00 0.00 0.00 1.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.74 1.03 0.00 0.00 0.00 2.04 0.00 0.00 0.00 0.69 0.60 0.00 0.00 0.67 0.00 0.00 0.00 0.58 0.00 0.00 0.00 4.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.96 0.00 0.00 K jcn_only_AA CG13923,CG12022 chr3L + chr3L_1803568_1805009 chr3L_1803568_1803794 chr3L_1803433_1803567 69.77 70.83 78.79 70.97 61.76 82.61 52.08 76.79 67.27 NA 55.17 77.59 72.00 75.00 69.77 72.41 79.31 64.00 58.33 71.88 77.27 NA 94.03 63.27 62.50 73.33 25.00 50.00 75.68 82.61 68.00 64.00 65.00 78.05 66.67 65.62 75.44 57.45 73.33 55.93 58.06 72.58 60.00 56.25 78.79 76.47 78.57 69.23 61.22 74.51 63.89 65.62 82.00 68.63 69.44 68.52 73.91 88.00 K alternative_donor RpL28,RI_chr3L_3221710_3221877,I_chr3L_3221982_3222744,snoRNA:Or-CD11c,snoRNA:Or-CD11b chr3L - chr3L_3221982_3222787;chr3L_3221982_3222152;chr3L_3221982_3222574;chr3L_3221982_3222926;chr3L_3221982_3222847 chr3L_3221982_3222365 chr3L_3221882_3221981;chr3L_3222927_3222958 2.36 5.38 1.59 0.57 1.93 1.76 9.59 0.96 3.90 5.49 2.34 4.21 4.92 6.86 0.78 5.22 1.32 1.40 0.44 1.28 1.32 2.36 8.82 11.11 18.42 4.44 19.05 20.29 2.14 1.72 1.17 0.92 0.00 0.91 4.17 5.88 6.12 7.32 6.25 3.14 2.07 1.26 1.09 5.13 0.62 1.72 10.00 0.88 1.52 9.62 4.76 11.36 1.47 5.26 1.08 10.00 10.59 0.62 K intron_retention norpA,I_chrX_4219265_4219380 chrX + chrX_4247647_4247976 chrX_4247646_4247647;chrX_4247976_4247977 chrX_4247500_4247646;chrX_4247977_4248056 23.53 29.41 21.43 64.29 NA NA 52.94 26.92 25.00 NA NA 15.38 NA 30.00 NA 32.00 NA NA 41.67 12.50 NA 12.50 13.79 NA NA NA 22.73 NA 0.00 13.64 17.65 NA 18.52 31.03 12.50 NA 22.22 23.53 18.75 NA NA 32.14 NA 35.71 NA NA NA 15.00 31.03 NA 31.82 NA NA NA 27.27 NA NA NA K jcn_only_AA m-cup chr3R - chr3R_12971775_12971841 chr3R_12971778_12971841 chr3R_12971842_12972385;chr3R_12971649_12971774 100.00 100.00 100.00 100.00 100.00 96.55 100.00 97.14 100.00 NA NA 97.30 100.00 96.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.83 100.00 100.00 NA NA 95.45 100.00 95.65 100.00 NA 100.00 NA 96.97 94.74 100.00 100.00 100.00 100.00 98.04 NA 100.00 95.00 100.00 100.00 100.00 100.00 100.00 96.97 95.83 100.00 94.12 100.00 100.00 91.89 NA N intron_retention TSG101 chr3L + chr3L_16835972_16836255 chr3L_16835971_16835972;chr3L_16836255_16836256 chr3L_16835892_16835971;chr3L_16836256_16836333 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 87.50 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor CG8889 chr2R - chr2R_7914078_7914227 chr2R_7914105_7914227 chr2R_7914228_7914347;chr2R_7914036_7914077 0.00 NA NA 0.00 NA NA 5.56 0.00 0.00 NA NA 0.00 NA NA NA 5.56 NA NA NA 14.29 NA 5.56 0.00 NA NA NA 0.00 NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA 5.56 NA NA 0.00 NA 0.00 NA NA NA NA 0.00 NA NA K intron_retention CG10359,CG10357 chr3L + chr3L_3613883_3614069 chr3L_3613882_3613883;chr3L_3614069_3614070 chr3L_3613749_3613882;chr3L_3614070_3614253 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.92 0.00 7.69 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.70 3.03 10.53 0.00 0.00 0.00 7.14 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 2.38 NA NA 0.00 0.00 0.00 0.00 5.00 6.25 0.00 0.00 0.00 0.00 0.00 0.00 4.17 0.00 3.85 0.00 NA NA 3.85 5.88 7.14 0.00 K jcn_only_AA kis,RI_chr2L_242745_242800,I_chr2L_242926_250756 chr2L - chr2L_242563_250756 chr2L_242745_250756 chr2L_250757_250774;chr2L_242508_242562 100.00 100.00 100.00 100.00 NA NA 100.00 100.00 98.68 NA NA 100.00 100.00 100.00 100.00 100.00 100.00 96.15 100.00 100.00 NA NA 100.00 NA NA 100.00 NA NA NA NA 100.00 NA 100.00 98.21 NA NA 100.00 NA NA 96.97 NA 100.00 95.65 85.00 NA NA NA 100.00 100.00 NA NA 100.00 NA NA 100.00 NA NA NA K intron_retention CG8494 chr2R + chr2R_10127619_10127715 chr2R_10127618_10127619;chr2R_10127715_10127716 chr2R_10127505_10127618;chr2R_10127716_10128082 0.00 0.00 NA 0.00 NA NA 0.00 0.00 0.00 NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA 0.00 0.00 0.00 0.00 NA 19.05 NA NA NA NA 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 NA 0.00 NA NA 0.00 NA 0.00 NA 0.00 NA NA NA NA NA K jcn_only_AA ald chr3R + chr3R_13499199_13499298 chr3R_13499199_13499270 chr3R_13498643_13499198;chr3R_13499299_13499550 5.69 3.51 7.89 11.11 6.45 7.41 0.00 2.63 10.53 NA 19.05 4.35 4.35 0.00 5.41 7.14 0.00 11.11 6.45 11.96 6.06 4.76 6.35 14.29 0.00 6.90 6.82 3.03 5.41 21.43 0.00 11.36 12.77 5.66 2.56 0.00 1.79 2.70 3.51 4.92 3.33 4.35 10.00 5.71 2.00 8.62 12.50 5.71 4.17 1.41 6.06 10.34 0.00 12.73 6.67 5.56 6.25 4.08 K jcn_only_AA CG5446,I_chr2L_12427370_12427468 chr2L - chr2L_12427370_12427468 chr2L_12427388_12427468 chr2L_12427469_12427568;chr2L_12427270_12427369 99.51 99.72 99.64 99.79 99.50 99.55 99.23 99.54 99.69 99.04 100.00 99.56 100.00 98.82 100.00 98.70 99.03 100.00 100.00 99.17 99.63 99.53 99.41 99.51 99.21 100.00 98.81 99.60 98.12 99.68 98.22 98.50 99.51 100.00 99.61 99.24 99.13 99.48 99.54 99.39 99.42 99.42 100.00 99.76 99.18 99.79 99.28 98.97 99.61 99.72 99.24 99.51 99.73 99.52 99.68 99.25 99.19 99.34 K alternative_acceptor dmondo,I_chr2L_21301528_21308287,I_chr2L_21308811_21309579,I_chr2L_21308811_21310000,I_chr2L_21308827_21310000,I_chr2L_21309092_21309579,I_chr2L_21309092_21309938,RI_chr2L_21309092_21310000 chr2L - chr2L_21308996_21309579;chr2L_21309092_21309579;chr2L_21309084_21309579 chr2L_21309019_21309579 chr2L_21309580_21309679;chr2L_21308992_21308995 3.85 NA NA 0.00 NA NA 14.29 12.50 12.50 NA NA NA NA NA NA 7.69 16.67 NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA 0.00 NA 9.09 0.00 NA NA NA NA NA NA NA NA NA K alternative_acceptor CG2698,I_chr3R_3828169_3828941,I_chr3R_3828880_3828941,I_chr3R_3829483_3829715,I_chr3R_3830586_3830981 chr3R + chr3R_3829483_3829697;chr3R_3829483_3829555;chr3R_3829483_3829709 chr3R_3829483_3829721 chr3R_3829383_3829482;chr3R_3829722_3829815 17.31 21.95 16.67 22.22 26.92 14.29 14.29 20.59 12.68 11.11 14.29 13.04 5.88 21.62 17.65 18.33 16.00 0.00 15.69 16.05 15.15 14.29 18.75 24.56 15.91 14.29 19.44 18.52 16.13 17.95 20.29 15.38 7.89 21.54 18.42 10.64 22.50 20.45 14.29 18.99 9.52 20.45 17.50 20.69 30.77 11.11 15.15 12.31 8.11 22.03 23.81 15.00 28.57 18.42 21.15 17.31 34.00 4.26 K alternative_donor mld chr3R + chr3R_20415112_20416293 chr3R_20415155_20416293 chr3R_20416294_20417143;chr3R_20415078_20415111 80.00 85.71 85.71 66.67 NA NA 75.00 84.62 77.27 NA NA 77.78 85.71 85.71 NA 58.33 80.00 85.71 58.33 90.00 NA NA 88.89 85.71 NA NA NA NA NA NA NA NA NA 88.89 NA NA NA NA NA 77.78 NA 64.71 75.00 75.00 NA NA NA NA 91.67 NA NA NA NA NA 72.73 NA NA NA K intron_retention pod1 chrX + chrX_6697800_6699710 chrX_6697799_6697800;chrX_6699710_6699711 chrX_6697759_6697799;chrX_6699711_6700251 0.00 0.00 0.00 2.90 0.00 0.00 4.65 0.00 0.00 0.00 0.00 1.75 0.00 0.00 0.00 0.00 0.00 2.38 0.00 0.97 0.00 5.13 0.00 NA NA 0.00 NA NA 0.00 0.00 0.00 0.00 3.23 2.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA NA NA 3.23 0.00 NA 0.00 0.00 NA NA 0.00 NA NA 0.00 K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2387249_2395659 chrX_2387249_2387583;chrX_2387710_2388436;chrX_2388671_2389073;chrX_2389272_2389644;chrX_2389762_2389980;chrX_2390067_2390493;chrX_2390627_2390808;chrX_2390959_2391350;chrX_2391522_2395659 chrX_2387584_2387709;chrX_2388437_2388670;chrX_2389074_2389271;chrX_2389645_2389761;chrX_2389981_2390066;chrX_2390494_2390626;chrX_2390809_2390958;chrX_2391351_2391521 chrX_2387149_2387248;chrX_2395660_2395759 0.00 1.92 0.00 0.00 0.00 0.00 0.00 0.75 0.59 0.00 0.00 2.20 0.00 0.00 1.11 0.00 0.00 0.00 1.22 0.99 0.00 0.00 0.00 0.00 0.00 0.00 1.45 0.00 0.00 0.00 0.00 0.00 1.01 0.76 0.00 0.00 1.12 0.00 1.25 0.99 0.00 0.73 0.00 1.39 0.00 0.00 NA 0.78 0.56 0.00 0.00 0.00 0.00 NA 1.02 0.00 0.00 0.00 K intron_retention Mi-2,Su(Tpl),F_chr3L_19887973_19889888 chr3L - chr3L_19889948_19890011 chr3L_19889947_19889948;chr3L_19890011_19890012 chr3L_19889898_19889947;chr3L_19890012_19890026 10.41 21.43 NA 13.79 NA NA 10.64 21.88 10.17 0.00 0.00 17.86 5.56 NA NA 11.76 NA NA NA 19.05 NA 37.50 7.69 9.09 7.69 NA 12.50 22.22 17.65 NA NA NA 18.52 3.33 17.65 4.35 14.81 6.25 NA 0.00 NA 9.68 NA 7.41 NA 5.88 NA 15.15 15.38 14.29 9.09 0.00 NA NA NA NA NA 0.00 K jcn_only_AD eIF-5A,I_chr2R_19945430_19946454,I_chr2R_19945576_19946006,I_chr2R_19945723_19946006,I_chr2R_19945783_19946006,I_chr2R_19945852_19946006,I_chr2R_19945875_19946006,I_chr2R_19945921_19946006,I_chr2R_19946299_19946454,I_chr2R_19946657_19946733,I_chr2R_19948517_19948682 chr2R + chr2R_19945921_19946006;chr2R_19945426_19946006;chr2R_19945875_19946006;chr2R_19945430_19946006 chr2R_19945576_19946006 chr2R_19946007_19946106;chr2R_19945343_19945425 0.00 0.00 0.00 0.02 0.07 0.00 0.05 0.03 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.02 0.05 0.00 0.00 0.01 0.03 0.00 0.06 0.00 0.10 0.00 0.10 0.19 0.13 0.00 0.00 0.00 0.00 0.02 0.00 0.00 0.00 0.00 0.04 0.04 0.07 0.00 0.00 0.00 0.02 0.00 0.00 0.00 0.01 0.00 0.17 0.00 0.03 0.08 0.02 0.08 0.04 0.00 K intron_retention Abl,I_chr3L_16622304_16639909,RI_chr3L_16652567_16654512 chr3L - chr3L_16618375_16619372 chr3L_16618374_16618375;chr3L_16619372_16619373 chr3L_16616737_16618374;chr3L_16619373_16619430 41.67 NA 41.67 35.85 NA NA 46.67 56.25 60.00 NA 14.29 33.33 41.67 70.00 50.00 64.71 NA NA 52.63 46.15 NA 31.03 40.00 NA 23.08 12.50 35.00 NA 14.29 38.89 66.67 NA 26.09 56.25 46.15 26.09 25.00 NA 41.67 50.00 41.18 62.50 NA 28.57 NA NA NA NA 62.50 NA NA NA NA NA NA NA NA NA K alternative_acceptor CG31431 chr3R + chr3R_17696730_17697680;chr3R_17696730_17697693 chr3R_17696730_17697703 chr3R_17696406_17696729;chr3R_17697704_17697862 90.21 89.91 91.80 89.64 89.58 90.74 87.70 92.89 91.94 97.30 91.07 91.09 93.14 93.75 91.24 89.35 89.25 90.55 90.91 91.35 94.51 93.18 86.96 89.58 87.21 86.02 86.09 88.52 84.85 90.70 88.35 90.20 91.21 90.91 88.89 90.48 89.89 89.09 91.92 90.83 92.54 89.35 87.80 89.26 98.28 89.90 89.61 92.11 90.21 88.06 89.74 91.09 86.05 92.16 88.81 91.36 89.33 91.38 K jcn_only_AA MED10,I_chr3L_16225377_16225479 chr3L + chr3L_16225424_16225485 chr3L_16225424_16225479 chr3L_16225129_16225423;chr3L_16225486_16225579 100.00 100.00 100.00 98.54 100.00 98.44 98.37 99.39 99.32 100.00 98.41 98.48 100.00 100.00 99.02 99.07 100.00 97.30 100.00 98.70 98.53 100.00 100.00 97.85 97.83 98.13 97.78 98.61 100.00 98.75 100.00 98.18 100.00 99.24 100.00 98.39 100.00 100.00 98.48 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.72 100.00 100.00 100.00 97.65 100.00 100.00 100.00 100.00 K intron_retention CG2310,I_chr3R_25318474_25319142 chr3R - chr3R_25318474_25319136 chr3R_25318473_25318474;chr3R_25319136_25319137 chr3R_25318374_25318473;chr3R_25319137_25319162 47.16 47.37 50.00 55.56 33.33 39.29 62.50 37.50 38.89 41.67 66.67 43.90 NA 36.84 27.27 68.42 61.90 33.33 33.33 42.55 68.75 42.86 52.83 50.00 50.00 59.09 46.94 47.37 48.72 54.55 50.00 55.56 52.00 52.63 50.00 48.15 39.47 45.95 31.51 40.91 50.00 40.43 42.86 48.15 34.69 51.11 32.35 64.10 38.10 35.90 41.67 40.62 54.55 41.86 32.00 51.28 45.16 50.00 K intron_retention CG18317,RI_chr2L_1718492_1723881 chr2L - chr2L_1718152_1718226 chr2L_1718151_1718152;chr2L_1718226_1718227 chr2L_1717878_1718151;chr2L_1718227_1718358 0.00 0.00 0.00 7.14 0.00 0.00 6.52 0.00 3.30 4.29 0.00 1.59 0.00 6.06 0.00 0.00 0.00 0.00 9.68 6.85 0.00 24.39 5.77 3.17 6.67 0.00 8.70 10.14 15.87 0.00 0.00 0.00 4.17 5.71 6.06 0.00 0.00 0.00 2.53 5.77 0.00 5.71 0.00 1.75 0.00 3.12 0.00 3.17 5.71 6.82 5.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD phtf,I_chr2R_2629598_2630209 chr2R + chr2R_2632042_2632103 chr2R_2632045_2632103 chr2R_2632104_2632282;chr2R_2631158_2632041 100.00 100.00 100.00 100.00 NA 100.00 95.83 100.00 100.00 NA 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 NA NA NA 100.00 NA 100.00 96.30 100.00 100.00 100.00 96.43 100.00 97.62 NA 97.73 100.00 100.00 100.00 100.00 100.00 100.00 97.87 NA 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG34263 chr3L - chr3L_265642_265697 chr3L_265641_265642;chr3L_265697_265698 chr3L_265617_265641;chr3L_265698_265908 50.00 50.00 NA 19.05 NA NA 80.95 40.00 65.38 NA 84.62 37.50 72.73 NA NA 45.45 46.15 NA 35.71 24.00 80.00 NA NA NA NA NA 54.55 NA NA NA NA NA NA 52.94 NA NA 77.78 NA NA 50.00 NA 43.75 NA NA NA 50.00 NA NA 50.00 NA 46.15 NA NA NA 31.25 NA 29.41 NA K jcn_only_AA CG16971,I_chr3L_225856_225909,I_chr3L_225919_225983,RI_chr3L_225919_226004,I_chr3L_229245_230186 chr3L + chr3L_225919_226219;chr3L_225919_225983 chr3L_225919_226004 chr3L_225910_225918;chr3L_226220_226256 45.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 45.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention Ser,I_chr3R_23013597_23017227 chr3R - chr3R_23009585_23013408 chr3R_23009584_23009585;chr3R_23013408_23013409 chr3R_23009530_23009584;chr3R_23013409_23013596 0.00 0.00 0.00 0.00 0.00 NA 14.81 12.50 0.00 NA 0.00 5.13 0.00 0.00 0.00 6.67 0.00 8.00 0.00 0.00 NA 0.00 0.00 3.45 0.00 0.00 0.00 NA NA 0.00 0.00 NA 5.26 5.71 NA 0.00 3.92 0.00 0.00 0.00 0.00 2.22 0.00 5.13 0.00 0.00 6.67 2.44 4.26 6.67 0.00 0.00 0.00 NA 0.00 0.00 NA 5.88 K alternative_donor CG11722,RI_chr3R_5873666_5874292 chr3R - chr3R_5870477_5870538 chr3R_5870477_5870534 chr3R_5870318_5870476;chr3R_5870539_5870781 90.00 NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA 88.89 NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 90.00 NA NA NA NA NA NA NA NA 87.50 K cassette SWAP,RI_chrX_936466_936762,I_chrX_936466_936835,RI_chrX_936919_937245,RI_chrX_938935_938985,I_chrX_941459_982652 chrX + chrX_936466_937245 chrX_936466_936762;chrX_936919_937245 chrX_936763_936918 chrX_936366_936465;chrX_937246_937345 26.09 19.05 22.22 27.78 14.29 11.11 55.56 40.91 31.25 25.00 NA 21.88 71.43 44.44 33.33 46.15 27.27 15.38 61.54 26.09 NA 35.71 31.58 18.18 18.18 NA 25.00 NA 26.32 16.67 42.86 28.57 13.95 29.63 30.77 13.33 10.53 26.32 21.05 24.24 20.00 22.58 33.33 35.71 31.25 19.05 20.00 21.05 18.52 26.09 23.81 42.86 30.77 20.00 35.71 14.29 30.00 13.33 K intron_retention CG32549,I_chrX_18286289_18286367,RI_chrX_18301919_18303082 chrX - chrX_18298427_18298506 chrX_18298426_18298427;chrX_18298506_18298507 chrX_18298018_18298426;chrX_18298507_18298596 65.71 65.28 77.61 73.33 81.82 74.51 81.44 82.50 75.18 47.50 63.83 66.33 68.89 77.27 69.01 65.71 79.07 79.07 69.70 63.64 78.85 27.75 57.14 46.23 62.22 88.64 65.33 65.26 61.70 45.76 65.62 58.82 75.00 76.47 65.62 84.31 36.28 45.83 52.38 66.67 72.41 66.67 70.59 41.57 70.00 62.07 57.63 65.22 77.06 55.26 56.58 57.38 77.78 62.86 68.33 48.28 62.50 75.00 K cassette Crag,I_chrX_8494280_8494352 chrX + chrX_8491748_8493063 chrX_8491748_8492106;chrX_8492188_8493063 chrX_8492107_8492187 chrX_8491445_8491747;chrX_8493064_8493496 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.52 0.00 0.00 0.00 0.93 0.00 0.00 1.18 0.42 0.00 0.00 0.00 0.61 1.05 1.19 0.00 0.00 0.83 0.00 0.00 1.20 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.55 0.00 1.11 0.85 0.00 0.00 0.00 0.00 K intron_retention CG1103 chr3R + chr3R_164975_165034 chr3R_164974_164975;chr3R_165034_165035 chr3R_164766_164974;chr3R_165035_165640 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.38 100.00 100.00 98.89 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.03 100.00 100.00 100.00 100.00 99.43 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.46 100.00 98.68 100.00 100.00 K jcn_only_AD CG6707 chr3L - chr3L_9891303_9891622 chr3L_9891303_9891543 chr3L_9891029_9891302;chr3L_9891623_9891693 2.70 2.08 2.08 5.77 5.13 0.00 5.00 1.04 4.69 2.56 4.55 2.70 9.80 2.70 6.06 3.45 2.99 8.00 1.61 2.08 2.70 0.00 0.00 3.28 2.70 6.98 2.38 0.00 2.08 0.00 3.92 6.06 7.55 4.26 4.00 0.00 3.70 0.00 2.50 1.94 3.03 0.82 3.03 0.00 0.00 2.78 0.00 3.03 4.76 0.00 2.33 0.00 0.00 NA 4.48 0.00 2.86 5.26 K alternative_donor Ten-a chrX + chrX_12097912_12098171;chrX_12098018_12098171;chrX_12098012_12098171;chrX_12098030_12098171 chrX_12097945_12098171 chrX_12098172_12098306;chrX_12097907_12097911 0.00 NA 0.00 NA NA NA NA 0.00 0.00 NA NA NA NA NA 0.00 0.00 NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 NA NA NA NA 0.00 0.00 NA 0.00 NA NA NA NA NA NA NA K intron_retention CycA chr3L - chr3L_11821493_11821560 chr3L_11821492_11821493;chr3L_11821560_11821561 chr3L_11821288_11821492;chr3L_11821561_11821781 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.67 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG6838,I_chr3L_22709306_22709668 chr3L - chr3L_22710167_22710293 chr3L_22710166_22710167;chr3L_22710293_22710294 chr3L_22710071_22710166;chr3L_22710294_22710303 95.74 97.83 100.00 97.40 94.74 98.15 97.53 92.05 92.79 90.70 89.36 93.14 94.23 97.62 91.18 90.67 92.50 95.24 91.67 96.08 97.67 89.83 98.33 93.75 97.67 98.61 97.01 91.30 98.61 100.00 95.31 98.28 97.27 93.02 95.24 98.33 88.33 89.47 89.89 94.57 98.72 93.33 97.83 96.43 96.30 98.85 95.92 97.30 93.81 98.36 94.92 95.74 92.00 95.74 93.94 93.02 97.10 99.15 K mutually_exclusive Eb1,RI_chr2R_2640290_2642206,I_chr2R_2640494_2642206,I_chr2R_2641187_2642206,RI_chr2R_2641944_2642025,I_chr2R_2641954_2642206,I_chr2R_2642491_2642549 chr2R + chr2R_2640494_2641684,chr2R_2641944_2642209 chr2R_2640494_2640577,chr2R_2641009_2642209 chr2R_2641685_2641943 chr2R_2640578_2641008 chr2R_2640394_2640493;chr2R_2642210_2642306 12.73 9.68 4.76 12.00 9.52 10.00 18.52 13.79 9.43 19.05 15.79 16.67 27.27 18.18 13.79 19.23 20.00 9.52 14.29 4.17 15.00 18.92 7.14 5.71 25.00 10.00 18.18 16.67 6.67 13.79 32.14 17.86 7.50 9.38 21.43 21.74 5.56 9.68 20.59 9.76 11.54 12.73 10.53 15.38 10.00 8.11 9.38 12.73 9.52 7.14 17.95 21.43 4.17 9.09 26.09 12.90 15.79 6.25 K jcn_only_AD Roughened,I_chr3L_1861677_1861777,I_chr3L_1861677_1861929,I_chr3L_1861677_1862177 chr3L - chr3L_1861677_1861777;chr3L_1861677_1862177 chr3L_1861677_1862060 chr3L_1861577_1861676;chr3L_1862178_1862277 99.57 98.60 99.34 99.30 100.00 98.92 99.74 99.40 99.49 100.00 98.98 99.60 98.98 99.35 100.00 100.00 99.59 99.38 99.08 99.67 100.00 98.99 100.00 100.00 100.00 100.00 99.67 100.00 98.89 99.68 98.81 100.00 99.49 98.45 98.74 99.81 99.38 100.00 99.58 98.35 99.78 99.13 99.04 98.64 98.39 99.72 100.00 99.67 99.25 100.00 99.49 99.57 99.38 99.63 99.04 99.67 100.00 99.36 K alternative_donor CG13933,I_chr3L_1773911_1773984 chr3L - chr3L_1772319_1772487 chr3L_1772319_1772479 chr3L_1772022_1772318;chr3L_1772488_1773369 87.50 77.78 91.67 94.74 100.00 70.00 68.75 100.00 82.35 NA NA 70.59 70.00 NA 88.89 80.00 88.89 84.62 84.62 95.45 60.00 88.89 87.50 100.00 90.00 90.00 83.33 NA 90.91 81.82 80.00 NA 81.82 85.71 NA NA 90.00 NA 88.89 91.67 87.50 93.33 100.00 NA 100.00 80.00 91.67 85.71 89.47 72.73 85.71 NA NA 88.89 84.62 81.82 100.00 60.00 K intron_retention fry,I_chr3L_9636648_9656042 chr3L - chr3L_9657112_9657176 chr3L_9657111_9657112;chr3L_9657176_9657177 chr3L_9656962_9657111;chr3L_9657177_9657344 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.04 0.00 0.00 0.00 0.00 0.00 1.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.25 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention I_chr3L_12398261_12403200,Gap69C chr3L - chr3L_12408970_12409044 chr3L_12408969_12408970;chr3L_12409044_12409045 chr3L_12408095_12408969;chr3L_12409045_12409104 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.77 0.00 0.00 0.00 0.00 0.00 6.25 0.00 0.00 0.00 0.00 2.60 0.00 0.00 1.89 0.00 0.00 0.00 0.00 9.68 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.59 3.39 0.00 0.00 0.00 4.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.38 5.56 0.00 0.00 0.00 K jcn_only_AA CG32626 chrX - chrX_13728240_13728847;chrX_13727065_13728847 chrX_13727056_13728847 chrX_13728848_13729182 44.23 41.79 43.97 42.86 32.32 36.05 42.62 41.09 39.85 50.50 44.23 51.18 40.24 47.52 33.33 43.75 44.35 49.52 41.51 36.72 29.82 51.52 48.57 52.26 43.18 36.99 49.77 49.76 49.57 59.83 33.66 52.63 54.40 40.78 42.96 47.69 48.48 46.51 48.30 42.35 50.63 40.71 40.66 43.63 52.63 47.17 50.54 57.58 43.17 54.46 45.42 36.84 47.37 43.51 36.84 46.63 53.09 42.37 K jcn_only_AD CG7580,I_chr3L_17468694_17468750,I_chr3L_17468699_17468750 chr3L + chr3L_17468695_17468750 chr3L_17468699_17468750 chr3L_17468751_17468850;chr3L_17468599_17468694 0.00 0.00 0.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.06 0.00 0.00 0.00 0.06 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.10 0.14 0.13 0.00 0.00 0.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.06 0.00 0.00 0.00 0.15 0.00 0.00 0.06 0.13 0.05 0.12 0.00 K alternative_donor Rab5,I_chr2L_2361586_2364794 chr2L - chr2L_2360394_2360459 chr2L_2360394_2360455 chr2L_2359546_2360393;chr2L_2360460_2360569 96.15 100.00 91.67 93.48 96.30 93.33 97.44 93.75 91.92 100.00 100.00 91.36 95.24 96.00 93.48 95.29 97.22 96.43 98.08 94.20 96.15 95.65 96.55 97.96 96.55 100.00 87.80 91.67 100.00 100.00 97.73 100.00 92.86 95.77 96.15 100.00 96.43 96.43 85.71 96.88 95.45 92.39 90.00 100.00 94.12 97.06 97.44 90.00 93.69 97.22 100.00 94.44 95.00 95.45 95.83 97.96 98.04 95.45 K jcn_only_AA Pka-R2,I_chr2R_5911755_5913333,I_chr2R_5911755_5913354,I_chr2R_5911803_5913333 chr2R - chr2R_5911803_5913333;chr2R_5911755_5913333 chr2R_5911708_5913333 chr2R_5913334_5913352;chr2R_5911703_5911707 50.00 NA NA NA NA NA NA 54.17 36.84 NA NA NA NA NA NA NA NA NA NA NA NA NA 50.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 52.38 NA NA NA NA 40.00 NA NA NA NA NA NA 50.00 NA NA NA NA NA 33.33 NA NA NA N jcn_only_AA CG8790 chr3R + chr3R_9190952_9191016;chr3R_9190952_9193285;chr3R_9190952_9193295 chr3R_9190952_9193460 chr3R_9190661_9190951 100.00 100.00 100.00 99.33 100.00 100.00 100.00 100.00 100.00 100.00 82.35 98.84 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.32 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.02 98.78 99.32 100.00 100.00 99.35 100.00 100.00 100.00 98.80 100.00 100.00 100.00 100.00 100.00 K alternative_donor Uev1A,I_chr3L_5358186_5358359,I_chr3L_5358186_5358415,CREI_chr3L_5358186_5358453,I_chr3L_5358186_5359072,RI_chr3L_5358186_5359074,I_chr3L_5360875_5360954 chr3L - chr3L_5358186_5359228 chr3L_5358186_5358453 chr3L_5358086_5358185;chr3L_5359229_5359418 0.77 0.51 0.34 0.50 0.00 0.37 0.56 0.71 0.34 0.71 0.30 1.73 0.37 0.79 0.56 0.60 0.31 0.34 0.34 0.27 0.31 1.06 1.46 0.56 0.79 0.36 1.68 1.63 1.18 1.43 0.96 0.85 1.80 0.77 2.44 3.85 0.22 0.53 0.33 1.55 3.92 0.44 0.43 0.72 0.92 3.12 1.45 2.80 0.79 1.23 2.82 0.62 0.81 2.70 0.50 0.83 0.84 1.11 K alternative_donor CG2258,I_chrX_7993650_7995126,I_chrX_7994188_7995101 chrX - chrX_7990868_7990987 chrX_7990868_7990933 chrX_7990737_7990867;chrX_7990988_7991072 100.00 NA NA 100.00 NA NA NA 100.00 100.00 NA NA 100.00 NA NA NA 100.00 NA NA NA 100.00 NA NA 100.00 NA NA NA NA NA NA NA NA NA NA 100.00 NA NA 100.00 NA 100.00 100.00 NA 100.00 NA NA NA 100.00 100.00 100.00 NA NA NA NA NA NA NA NA NA NA N alternative_acceptor RpL39,I_chr2R_19949515_19949720 chr2R - chr2R_19949805_19949910 chr2R_19949825_19949910 chr2R_19949911_19950046;chr2R_19949721_19949804 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.47 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AD I_chr2L_476332_525391,ush chr2L + chr2L_539247_539309 chr2L_539250_539309 chr2L_539310_539452;chr2L_537863_539246 99.66 98.73 98.91 97.52 100.00 100.00 100.00 99.22 98.88 100.00 100.00 100.00 100.00 100.00 100.00 98.28 98.55 100.00 98.97 99.66 98.65 99.15 99.59 99.47 100.00 98.77 100.00 100.00 100.00 99.34 100.00 100.00 100.00 100.00 100.00 99.34 99.52 100.00 100.00 99.55 99.39 99.39 98.46 99.50 100.00 98.78 100.00 100.00 100.00 99.53 100.00 100.00 99.33 98.63 99.22 100.00 98.08 99.14 K cassette CG8671,I_chr2L_21275807_21277205 chr2L + chr2L_21263124_21273323 chr2L_21263124_21263722;chr2L_21263787_21273323 chr2L_21263723_21263786 chr2L_21262988_21263123;chr2L_21273324_21273463 95.00 91.67 100.00 94.74 90.91 92.31 84.00 95.24 96.77 100.00 91.67 95.83 100.00 92.86 91.67 100.00 100.00 85.71 100.00 100.00 90.00 100.00 95.00 93.75 100.00 100.00 90.91 100.00 91.67 100.00 100.00 85.71 93.33 95.45 100.00 100.00 100.00 100.00 90.00 91.30 100.00 96.00 91.67 93.33 85.71 86.67 NA 86.96 88.00 100.00 100.00 100.00 100.00 NA 87.50 90.00 90.00 93.33 K alternative_donor CG4502,I_chr2L_7196721_7196787,I_chr2L_7196858_7204207 chr2L - chr2L_7196858_7203938;chr2L_7196858_7203942 chr2L_7196858_7203934 chr2L_7196788_7196857;chr2L_7203943_7204239 25.00 25.00 21.43 21.05 16.67 23.08 28.57 23.81 24.14 NA 14.29 27.78 16.67 26.67 25.00 25.00 20.00 36.36 28.57 26.32 22.22 NA 26.67 33.33 NA 33.33 11.11 NA 33.33 25.00 15.38 28.57 23.08 25.00 25.00 27.27 NA NA 37.50 7.14 20.00 17.39 28.57 25.00 NA 17.65 28.57 26.09 35.00 28.57 18.18 22.22 NA NA 15.79 33.33 NA 33.33 K intron_retention CG7843,I_chr2R_1972736_1972822 chr2R - chr2R_1968921_1969240 chr2R_1968920_1968921;chr2R_1969240_1969241 chr2R_1968863_1968920;chr2R_1969241_1969345 0.00 0.00 0.00 10.81 0.00 0.00 8.33 0.00 1.14 0.00 0.00 6.02 4.17 0.00 2.17 5.13 0.00 3.70 4.76 3.16 0.00 3.03 1.15 3.12 0.00 2.63 3.77 7.55 0.00 4.26 0.00 0.00 0.00 2.17 0.00 0.00 0.00 0.00 2.35 0.00 4.17 1.41 0.00 3.33 0.00 1.69 2.90 0.00 4.41 0.00 0.00 0.00 0.00 0.00 0.00 1.37 0.00 2.47 K intron_retention Ssb-c31a,CG8360 chr2L + chr2L_8211503_8211558 chr2L_8211502_8211503;chr2L_8211558_8211559 chr2L_8211377_8211502;chr2L_8211559_8211958 0.00 0.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.46 0.00 0.00 0.00 0.48 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.53 0.67 0.00 0.00 0.79 0.00 0.00 0.00 0.00 0.00 K alternative_donor Pax,RI_chr2L_19404683_19426205,RI_chr2L_19404823_19409403,I_chr2L_19419985_19423267,I_chr2L_19419985_19423278,I_chr2L_19419985_19423414,I_chr2L_19420081_19423267,I_chr2L_19420081_19423278 chr2L - chr2L_19420192_19423267;chr2L_19420192_19423414 chr2L_19420192_19423278 chr2L_19420186_19420191;chr2L_19423415_19423487 37.98 37.50 50.00 37.50 NA 25.00 45.45 28.57 20.00 NA NA 40.00 NA NA 33.33 38.46 NA NA 33.33 40.00 NA 40.00 30.00 40.00 NA NA NA 50.00 NA 41.67 28.57 NA 50.00 30.77 44.44 50.00 NA 0.00 NA 33.33 NA 42.86 NA 60.00 NA 50.00 16.67 37.50 30.00 NA 28.57 NA NA NA 33.33 40.00 NA 40.00 K jcn_only_AA CG6425 chr3R - chr3R_22542850_22542919 chr3R_22542861_22542919 chr3R_22542920_22542946;chr3R_22541838_22542849 98.48 100.00 100.00 97.83 100.00 96.67 96.67 97.73 96.61 NA 96.15 93.02 100.00 96.43 95.00 100.00 100.00 97.50 100.00 98.00 100.00 97.06 100.00 100.00 100.00 100.00 97.22 100.00 96.67 100.00 95.83 NA 100.00 100.00 100.00 100.00 97.73 96.43 100.00 93.62 NA 97.67 96.15 100.00 NA 100.00 97.14 NA 98.48 96.00 97.37 100.00 100.00 97.30 96.67 100.00 100.00 NA K jcn_only_AA Hph,I_chr3R_1092755_1092819 chr3R + chr3R_1092755_1092842 chr3R_1092755_1092819 chr3R_1092655_1092754;chr3R_1092843_1092919 0.00 1.65 0.00 1.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.45 0.00 0.83 0.00 0.00 0.00 2.03 0.00 0.32 0.00 0.92 0.81 0.00 0.00 0.76 1.10 7.14 0.79 0.87 0.00 0.00 0.00 0.56 0.00 1.33 0.00 0.00 0.00 0.00 0.74 0.38 1.15 0.75 0.00 0.00 0.00 0.00 0.44 0.00 0.00 0.00 0.00 0.00 0.66 0.00 0.00 0.00 K intron_retention CG6353 chr3R - chr3R_17488466_17488531 chr3R_17488465_17488466;chr3R_17488531_17488532 chr3R_17488441_17488465;chr3R_17488532_17488664 0.00 NA 7.41 11.76 0.00 0.00 5.88 3.23 7.69 12.50 0.00 0.00 0.00 0.00 0.00 3.23 NA 0.00 0.00 6.85 0.00 0.00 8.33 NA NA 12.50 3.70 10.00 10.81 0.00 0.00 8.33 0.00 5.71 NA 0.00 NA 0.00 7.41 0.00 6.67 4.76 NA 0.00 5.71 0.00 5.00 0.00 0.00 0.00 12.50 6.67 0.00 0.00 0.00 8.33 5.71 0.00 K alternative_acceptor I_chr3R_8822346_8822403,CG7518 chr3R + chr3R_8832937_8833246 chr3R_8832937_8833113 chr3R_8832068_8832936;chr3R_8833247_8833436 1.59 3.09 1.52 3.19 1.82 0.00 2.78 2.06 2.33 0.00 3.77 1.85 4.00 4.08 0.00 5.88 0.00 1.92 1.59 1.06 1.49 3.06 1.44 1.77 3.77 2.50 1.16 1.59 1.12 0.86 1.59 2.38 0.00 3.37 2.90 0.00 1.23 0.88 0.81 1.18 1.98 2.17 2.44 0.72 0.00 0.70 0.81 0.00 2.56 3.05 1.74 1.56 1.00 2.33 1.47 0.00 0.00 0.00 K jcn_only_AD CG6923 chr3R - chr3R_7574682_7575419 chr3R_7574682_7574963 chr3R_7574512_7574681;chr3R_7575420_7575455 100.00 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 NA NA 96.00 100.00 NA 100.00 97.06 NA NA NA 96.55 NA NA 100.00 NA NA NA 100.00 NA NA NA NA NA NA 90.62 NA NA NA NA 95.65 93.94 NA 94.12 NA NA NA NA NA NA 95.45 NA 96.67 NA NA NA NA NA NA NA K intron_retention Trc8 chr3R - chr3R_25327211_25327424 chr3R_25327210_25327211;chr3R_25327424_25327425 chr3R_25326673_25327210;chr3R_25327425_25327995 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.41 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.38 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N intron_retention CG32529 chrX + chrX_19795641_19795900 chrX_19795640_19795641;chrX_19795900_19795901 chrX_19795580_19795640;chrX_19795901_19798251 53.85 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 53.85 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K cassette CG10103,noncoding_10997 chr3L - chr3L_6747594_6748172;chr3L_6747594_6748046;chr3L_6747594_6748519 chr3L_6747594_6747844;chr3L_6747908_6748519,chr3L_6747908_6748046,chr3L_6747908_6748172 chr3L_6747845_6747907 chr3L_6747493_6747593;chr3L_6748520_6749258 30.36 31.03 25.00 21.05 28.95 26.88 8.55 27.66 29.30 37.93 33.33 41.22 29.41 17.86 27.59 28.26 30.91 34.92 35.29 26.55 35.14 48.15 36.08 41.38 34.78 22.99 36.70 37.04 12.35 29.91 32.17 32.67 30.30 27.87 28.89 27.12 33.33 30.56 33.04 27.35 27.78 35.59 22.37 35.71 20.25 29.66 37.23 27.07 27.61 34.01 41.00 38.46 22.83 35.87 30.36 35.00 35.48 26.71 K jcn_only_AA CG10462 chr2L - chr2L_19734410_19734469;chr2L_19734413_19734469 chr2L_19734281_19734469 chr2L_19734470_19734941;chr2L_19733639_19734280 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG1161,I_chr3R_1182079_1182146 chr3R + chr3R_1181851_1181905 chr3R_1181850_1181851;chr3R_1181905_1181906 chr3R_1181725_1181850;chr3R_1181906_1181931 100.00 100.00 97.06 100.00 100.00 100.00 97.67 100.00 98.59 100.00 100.00 100.00 97.50 100.00 100.00 100.00 100.00 97.96 100.00 99.12 100.00 100.00 100.00 96.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.50 100.00 100.00 100.00 100.00 100.00 100.00 97.83 100.00 100.00 100.00 100.00 96.30 100.00 97.62 100.00 100.00 100.00 100.00 95.45 100.00 100.00 98.11 100.00 100.00 100.00 K intron_retention Gdi chr2L - chr2L_9492546_9492627 chr2L_9492545_9492546;chr2L_9492627_9492628 chr2L_9491177_9492545;chr2L_9492628_9493103 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.56 0.67 0.00 0.00 0.39 0.00 0.96 0.00 0.00 0.00 0.00 0.81 0.00 0.00 0.23 0.19 0.22 0.00 0.00 0.36 0.00 0.45 0.00 0.00 0.00 0.00 0.29 0.00 0.00 0.14 0.00 0.00 0.45 0.30 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.61 0.51 0.00 0.00 0.00 0.00 0.00 0.00 0.27 0.00 K intron_retention CG10962,E_chrX_8871490_8871566,E_chrX_8871690_8873486 chrX - chrX_8867414_8867687 chrX_8867413_8867414;chrX_8867687_8867688 chrX_8866946_8867413;chrX_8867688_8868437 0.00 0.00 0.00 0.66 0.00 0.00 0.00 0.00 0.87 0.00 0.00 0.53 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.67 0.00 0.00 0.00 0.00 1.14 1.43 0.00 0.00 0.00 0.00 0.00 0.66 0.00 0.00 0.00 0.00 0.53 0.43 0.00 0.00 1.30 0.00 0.00 0.00 0.00 0.00 0.61 1.16 0.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG7718 chr3R - chr3R_14570393_14570450 chr3R_14570392_14570393;chr3R_14570450_14570451 chr3R_14569781_14570392;chr3R_14570451_14571793 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 NA 0.00 0.00 NA 0.00 0.00 NA 0.00 20.00 11.11 NA NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention rho-7,noncoding_6143 chr2R - chr2R_7875007_7875506 chr2R_7875006_7875007;chr2R_7875506_7875507 chr2R_7874791_7875006;chr2R_7875507_7875801 2.13 5.56 0.00 15.62 0.00 0.00 3.92 6.90 2.50 0.00 6.25 5.56 5.41 5.71 2.13 0.00 0.00 5.26 0.00 3.74 0.00 0.00 0.00 3.03 2.13 6.67 3.57 0.00 4.76 1.59 1.54 0.00 2.25 7.41 0.00 5.56 0.00 0.00 0.00 1.41 4.76 4.35 0.00 0.00 2.90 7.25 0.00 3.57 5.71 0.00 2.82 0.00 2.00 3.64 4.26 0.00 3.90 1.19 K jcn_only_AD I_chr3R_17177101_17200781,mod(mdg4) chr3R - chr3R_17182691_17200781 chr3R_17182691_17182836 chr3R_17182533_17182690 19.14 NA NA NA NA NA NA NA 13.64 NA NA 25.00 NA NA NA NA NA NA NA 4.35 NA NA NA NA NA NA NA NA NA NA NA 9.52 NA 16.00 NA NA NA NA NA NA NA 19.05 NA NA 28.00 19.23 NA 15.62 20.00 NA NA NA NA NA 21.74 NA NA 22.73 K intron_retention Tsp42El chr2R + chr2R_2933519_2934781 chr2R_2933518_2933519;chr2R_2934781_2934782 chr2R_2933211_2933518;chr2R_2934782_2934940 0.00 0.00 0.00 2.27 0.00 0.00 0.00 3.85 4.17 NA NA 0.00 0.00 4.76 3.85 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA NA NA 0.00 0.00 NA NA NA 0.00 NA NA 0.00 NA NA NA NA 0.00 NA NA 4.17 0.00 0.00 NA NA NA NA 3.12 NA NA NA NA NA 0.00 NA NA NA K intron_retention Chit chr2R + chr2R_12580429_12580490 chr2R_12580428_12580429;chr2R_12580490_12580491 chr2R_12579853_12580428;chr2R_12580491_12581291 0.05 0.00 0.00 0.11 0.00 0.00 0.00 0.00 0.06 0.15 0.00 0.10 0.03 0.05 0.00 0.05 0.00 0.00 0.00 0.05 0.00 0.00 0.08 0.10 0.00 0.04 0.12 0.00 0.08 0.08 0.00 0.07 0.00 0.00 0.18 0.00 0.06 0.00 0.09 0.11 0.12 0.00 0.05 0.10 0.06 0.00 0.05 0.07 0.02 0.18 0.05 0.09 0.08 0.11 0.04 0.00 0.06 0.06 K intron_retention CG4199,I_chrX_1962457_1964222 chrX - chrX_1965614_1967409 chrX_1965613_1965614;chrX_1967409_1967410 chrX_1965393_1965613;chrX_1967410_1967460 100.00 NA 90.00 100.00 NA NA 85.71 100.00 100.00 NA NA 92.31 81.82 NA 100.00 NA NA NA 100.00 92.86 NA 88.00 93.75 100.00 NA 100.00 100.00 88.89 100.00 NA 84.62 100.00 100.00 100.00 NA 100.00 91.67 100.00 87.50 88.89 90.00 94.44 NA 90.00 NA 100.00 100.00 100.00 92.86 100.00 100.00 90.00 92.86 100.00 100.00 90.00 100.00 90.91 K intron_retention CG6859 chr3L + chr3L_15137636_15137768 chr3L_15137635_15137636;chr3L_15137768_15137769 chr3L_15137556_15137635;chr3L_15137769_15139146 0.00 0.00 0.00 0.00 3.45 2.22 0.00 0.00 0.00 2.50 0.00 1.43 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.77 5.41 4.08 0.00 0.00 0.00 0.00 0.00 0.00 4.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.92 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.22 K intron_retention sec24,RI_chr2R_5764938_5764997,I_chr2R_5768722_5769689 chr2R - chr2R_5764945_5764997 chr2R_5764944_5764945;chr2R_5764997_5764998 chr2R_5764806_5764944;chr2R_5764998_5765095 0.00 0.00 1.43 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.79 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.18 4.84 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.32 0.00 0.00 0.00 0.00 0.00 0.00 1.55 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor osa,I_chr3R_13542657_13542834,I_chr3R_13542657_13543500,I_chr3R_13542657_13543662,I_chr3R_13542657_13543668,I_chr3R_13543730_13543786 chr3R - chr3R_13542657_13543500;chr3R_13542657_13543662;chr3R_13542657_13542834;chr3R_13542657_13543668;chr3R_13542657_13543677 chr3R_13542657_13543968 chr3R_13542557_13542656;chr3R_13543969_13544017 14.81 18.64 12.07 21.50 13.73 16.13 17.17 15.45 15.23 22.64 7.27 18.94 24.29 14.49 13.24 10.89 23.61 16.36 15.38 16.78 20.34 14.44 21.93 16.67 18.87 19.30 24.69 14.89 12.24 19.32 10.17 5.26 5.43 13.01 7.55 19.74 24.18 13.21 22.08 14.39 12.50 13.82 10.00 14.86 8.00 7.50 10.00 8.79 16.90 14.29 18.09 12.96 6.45 41.18 12.35 14.81 10.53 10.53 K alternative_donor eIF4G,I_chr4_948813_950447 chr4 - chr4_950758_951137 chr4_950758_950907 chr4_950706_950757;chr4_951138_951213 3.63 0.00 4.76 4.88 0.00 4.17 5.45 6.49 4.88 NA 0.00 4.69 6.25 0.00 0.00 2.47 0.00 4.00 4.35 5.88 0.00 0.00 0.00 3.70 0.00 7.14 0.00 14.29 NA NA 4.76 NA NA 3.45 4.76 4.00 NA NA NA 3.57 NA 1.59 2.94 3.85 NA NA NA NA 4.62 NA 2.70 0.00 NA NA 0.00 NA NA NA K alternative_acceptor CG9934,I_chr2L_13018178_13019071 chr2L - chr2L_13018175_13018789 chr2L_13018178_13018789 chr2L_13018790_13019118;chr2L_13018078_13018174 50.00 59.09 40.00 54.29 64.29 58.82 47.06 52.00 59.52 53.33 40.00 59.38 35.29 61.11 40.91 47.62 43.75 50.00 41.38 56.41 50.00 59.09 44.12 63.16 50.00 38.89 70.00 66.67 50.00 50.00 41.67 80.00 55.56 64.00 35.29 62.50 57.89 57.14 56.25 50.00 40.00 50.00 42.11 38.10 60.00 47.06 53.85 45.16 41.67 80.00 54.55 40.00 NA NA 32.00 46.67 54.55 47.06 K intron_retention Mcm5 chr3R + chr3R_6614539_6614592 chr3R_6614538_6614539;chr3R_6614592_6614593 chr3R_6614244_6614538;chr3R_6614593_6615703 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.70 0.00 5.56 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor Spred,I_chr2R_10655876_10656041,I_chr2R_10655876_10656193,I_chr2R_10655876_10656868 chr2R - chr2R_10655876_10656848;chr2R_10655876_10656878;chr2R_10655876_10656782;chr2R_10655876_10656526 chr2R_10655876_10656871 chr2R_10655776_10655875;chr2R_10656879_10656886 0.00 0.00 7.14 2.94 0.00 7.69 0.00 3.85 3.45 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 8.33 0.00 3.03 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.88 0.00 4.76 0.00 0.00 0.00 0.00 5.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG15908_CG9410,CG15908 chr2R + chr2R_2555762_2555813 chr2R_2555761_2555762;chr2R_2555813_2555814 chr2R_2555685_2555761;chr2R_2555814_2556173 0.00 0.00 0.00 0.00 0.00 NA 2.13 0.00 0.00 0.00 0.00 4.88 0.00 0.00 4.35 1.92 0.00 0.00 2.94 4.62 0.00 0.00 NA 0.00 7.69 3.33 0.00 0.00 13.04 NA 0.00 0.00 0.00 6.67 0.00 0.00 0.00 0.00 0.00 3.92 4.35 3.39 0.00 0.00 0.00 0.00 4.76 0.00 5.13 0.00 0.00 0.00 0.00 0.00 2.94 0.00 0.00 1.75 K intron_retention Reps,I_chr2L_11105525_11105656 chr2L - chr2L_11103170_11103322 chr2L_11103169_11103170;chr2L_11103322_11103323 chr2L_11100956_11103169;chr2L_11103323_11103363 15.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 15.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG6179,RI_chrX_18274964_18275006 chrX + chrX_18274964_18275023 chrX_18274963_18274964;chrX_18275023_18275024 chrX_18274864_18274963;chrX_18275024_18275106 0.00 2.86 0.00 9.68 0.00 0.00 0.00 8.33 0.00 0.00 0.00 4.17 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.35 0.00 3.57 0.00 NA 0.00 0.00 21.21 0.00 4.55 7.41 0.00 0.00 0.00 2.78 0.00 0.00 0.00 2.70 0.00 3.92 0.00 0.00 5.00 2.44 5.00 0.00 2.00 0.00 2.17 0.00 1.82 4.17 0.00 2.63 1.25 0.00 K jcn_only_AA CG4980 chr3R - chr3R_23747816_23747920 chr3R_23747854_23747920 chr3R_23747921_23748082;chr3R_23746995_23747815 100.00 98.41 100.00 100.00 100.00 100.00 100.00 100.00 98.67 98.31 NA 100.00 NA 100.00 100.00 100.00 NA NA 100.00 100.00 NA 98.80 100.00 98.00 98.31 NA 100.00 65.38 100.00 100.00 96.15 100.00 100.00 100.00 98.55 100.00 98.68 100.00 100.00 100.00 99.17 98.75 100.00 97.22 99.35 100.00 98.88 99.40 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Alas chr2R + chr2R_19853651_19853794 chr2R_19853650_19853651;chr2R_19853794_19853795 chr2R_19852297_19853650;chr2R_19853795_19854602 0.00 0.00 0.00 0.00 0.00 0.00 3.57 1.72 1.12 0.00 0.00 2.78 0.00 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.11 0.00 0.00 3.12 0.00 3.23 0.00 1.47 0.00 2.60 1.41 0.00 2.60 3.08 0.00 1.41 0.00 0.00 2.44 0.00 2.25 2.17 0.00 1.69 2.52 0.00 0.00 2.70 0.95 0.00 3.23 0.00 0.00 0.00 0.00 1.47 0.00 K alternative_acceptor Su(var)2-10,RI_chr2R_5006333_5006392 chr2R + chr2R_5003957_5004832 chr2R_5003957_5004682 chr2R_5003888_5003956;chr2R_5004833_5005357 100.00 100.00 98.46 98.98 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.30 100.00 97.40 99.08 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.39 100.00 99.04 98.63 98.97 100.00 100.00 100.00 100.00 100.00 100.00 98.70 100.00 100.00 100.00 100.00 98.73 100.00 100.00 100.00 100.00 98.04 100.00 100.00 K jcn_only_AA CG15012 chr3L - chr3L_4291619_4291686 chr3L_4291624_4291686 chr3L_4291687_4291816;chr3L_4291609_4291618 99.50 100.00 99.60 100.00 99.51 98.75 99.09 98.54 99.54 100.00 99.49 99.02 100.00 99.48 98.13 98.89 99.40 100.00 99.57 98.85 100.00 99.61 99.60 99.16 100.00 99.58 100.00 100.00 100.00 97.39 99.01 100.00 99.23 99.32 100.00 100.00 99.44 98.54 99.50 100.00 99.37 99.26 99.36 99.44 99.26 98.17 99.64 100.00 99.73 98.67 98.95 98.89 99.37 99.59 100.00 99.61 98.82 100.00 K intron_retention CG3829,I_chr2R_20875497_20875710,I_chr2R_20876262_20876320,I_chr2R_20876262_20876323 chr2R + chr2R_20876146_20876202 chr2R_20876145_20876146;chr2R_20876202_20876203 chr2R_20876054_20876145;chr2R_20876203_20876261 0.00 2.70 0.00 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.27 3.77 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K multi_cassette CG33558,RI_chr2R_2813804_2816013,I_chr2R_2813804_2817753,F_chr2R_2814298_2814894,I_chr2R_2814327_2817753,I_chr2R_2815816_2816013,I_chr2R_2816342_2817327,I_chr2R_2816779_2817354,RI_chr2R_2817876_2819347,CREI_chr2R_2832933_2850384 chr2R - chr2R_2813804_2817753 chr2R_2813804_2813977;chr2R_2814097_2814174;chr2R_2814327_2814894;chr2R_2815654_2816013;chr2R_2816342_2816577;chr2R_2816779_2817459;chr2R_2817604_2817753 chr2R_2813978_2814096;chr2R_2814175_2814326;chr2R_2814895_2815653;chr2R_2816014_2816341;chr2R_2816578_2816778;chr2R_2817460_2817603 chr2R_2813704_2813803;chr2R_2817754_2817762 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 80.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 66.67 100.00 100.00 92.31 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor tacc,I_chr3R_570388_572101,I_chr3R_574271_574512 chr3R - chr3R_560576_560883;chr3R_560576_560886 chr3R_560576_560847 chr3R_560204_560575;chr3R_560887_561068 63.52 63.03 72.73 63.59 62.65 62.99 62.76 61.70 62.41 63.77 78.57 62.91 69.16 80.00 61.59 61.17 73.27 63.55 62.33 63.01 58.65 75.27 63.48 63.16 63.64 63.51 62.44 63.83 74.76 61.46 63.07 63.74 63.81 73.18 63.92 NA 63.28 74.04 53.33 75.54 73.95 62.84 71.70 74.62 63.54 73.10 62.10 62.81 73.06 63.49 62.23 62.00 63.83 73.40 62.35 63.57 62.80 84.67 K intron_retention Tsp42Ee,RI_chr2R_2904593_2904783 chr2R + chr2R_2904881_2904939 chr2R_2904880_2904881;chr2R_2904939_2904940 chr2R_2904784_2904880;chr2R_2904940_2905131 0.09 0.40 0.00 0.09 0.00 0.00 0.00 0.19 0.06 0.00 0.00 0.09 0.00 0.00 0.00 0.00 0.16 0.00 0.14 0.11 0.00 0.63 0.26 0.24 0.24 0.09 0.75 0.81 1.56 0.28 0.00 0.00 0.00 0.11 0.12 0.44 0.00 0.09 0.21 0.09 0.10 0.12 0.00 0.08 0.15 0.00 0.00 0.00 0.13 0.30 0.25 0.00 0.10 0.20 0.00 0.18 0.00 0.11 K cassette slgA,I_chrX_21247694_21251677,I_chrX_21253735_21253820 chrX + chrX_21247694_21251677;chrX_21250737_21251677 chrX_21250737_21250999,chrX_21247694_21250999;chrX_21251122_21251677 chrX_21251000_21251121 chrX_21247594_21247693;chrX_21251678_21251759 31.58 33.33 26.32 28.57 54.55 36.36 12.50 27.78 28.57 NA NA 52.00 NA 23.08 23.08 21.05 69.23 46.15 13.33 31.58 30.00 57.14 37.04 22.73 41.67 50.00 35.71 NA NA 33.33 31.82 NA NA 19.05 40.00 NA 42.31 31.82 36.00 33.33 NA 34.62 23.08 47.06 NA 25.00 21.43 15.79 26.09 23.08 27.27 21.74 NA NA 37.50 25.00 NA NA K alternative_acceptor Plc21C,I_chr2L_343730_344038 chr2L + chr2L_344490_344575 chr2L_344490_344554 chr2L_344042_344489;chr2L_344576_344947 18.18 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 18.18 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_donor Lam chr2L + chr2L_5542656_5543324;chr2L_5543273_5543324;chr2L_5542661_5543324 chr2L_5542864_5543324 chr2L_5543325_5543794;chr2L_5542527_5542655 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.45 K intron_retention CG31997,I_chr4_175592_176390 chr4 - chr4_175592_175652 chr4_175591_175592;chr4_175652_175653 chr4_175514_175591;chr4_175653_175721 0.00 0.00 0.00 0.74 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.55 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.93 0.00 0.00 K intron_retention Snr1,I_chr3R_1297469_1297546 chr3R + chr3R_1297053_1297546 chr3R_1297052_1297053;chr3R_1297546_1297547 chr3R_1296531_1297052;chr3R_1297547_1297646 0.00 0.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.21 1.72 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.12 0.79 0.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Ddip2,I_chr3L_252776_253313 chr3L - chr3L_252945_253313 chr3L_252944_252945;chr3L_253313_253314 chr3L_252835_252944;chr3L_253314_253413 29.41 36.84 32.14 39.13 26.32 20.00 40.91 24.14 28.57 NA 30.77 41.67 40.00 30.77 27.27 20.00 29.41 28.57 28.57 22.22 21.74 47.83 28.57 26.32 50.00 29.41 33.33 58.82 60.00 13.64 16.67 41.67 26.09 26.92 38.46 36.00 17.86 26.32 39.13 26.47 30.77 34.48 36.36 31.03 NA 26.32 35.00 14.29 31.03 26.09 41.67 21.43 14.29 41.67 35.00 19.05 36.36 17.65 K intron_retention kuz,E_chr2L_13550294_13551106,CE_chr2L_13558833_13594255,F_chr2L_13635998_13637287,RI_chr2L_13636519_13636577,I_chr2L_13636762_13637287 chr2L + chr2L_13636002_13637287 chr2L_13636001_13636002;chr2L_13637287_13637288 chr2L_13635649_13636001;chr2L_13637288_13637387 32.65 21.33 32.65 57.75 26.67 27.12 51.72 18.87 26.42 35.71 58.54 70.09 20.93 36.17 41.51 46.88 27.50 50.00 33.33 34.75 46.15 36.64 20.00 26.67 39.71 56.00 34.67 33.33 36.99 32.50 34.09 30.95 38.55 27.55 28.57 42.25 33.09 21.79 20.51 34.83 29.79 30.34 26.19 23.91 34.55 34.04 15.22 36.76 30.23 23.73 25.00 16.33 20.97 18.75 40.00 25.00 16.67 34.92 K cassette CG4822,I_chr2L_120081_120199,I_chr2L_120266_120420,I_chr2L_125267_128799,RI_chr2L_126228_126309 chr2L - chr2L_119236_119430 chr2L_119236_119287;chr2L_119376_119430 chr2L_119288_119375 chr2L_119227_119235;chr2L_119431_119554 94.74 97.83 92.86 98.57 93.02 88.57 98.25 94.81 97.75 94.44 96.43 93.90 94.12 92.00 90.00 92.50 97.62 90.00 98.11 92.68 90.00 98.08 88.89 98.44 90.24 80.56 96.30 89.29 95.00 91.49 91.11 100.00 100.00 93.15 94.87 90.00 93.55 98.11 98.31 96.10 96.00 94.87 93.94 96.97 100.00 92.68 96.00 93.55 93.98 98.00 94.52 96.55 94.12 94.74 92.54 98.08 97.73 100.00 K cassette CG34347 chr3R + chr3R_27186956_27195957;chr3R_27188081_27195957 chr3R_27188081_27192564,chr3R_27186956_27192564;chr3R_27193245_27195957 chr3R_27192565_27193244 chr3R_27186940_27186955;chr3R_27195958_27195975 69.05 60.00 NA 66.67 NA NA NA NA 75.00 NA NA 100.00 NA NA NA NA NA NA NA 60.00 NA 75.00 75.00 66.67 NA NA 60.00 66.67 60.00 NA NA 66.67 100.00 100.00 66.67 100.00 75.00 NA 80.00 75.00 60.00 75.00 NA 80.00 75.00 NA 100.00 71.43 50.00 NA 40.00 NA 66.67 NA NA NA 40.00 66.67 K alternative_donor tws,I_chr3R_5960899_5960978,CG6241 chr3R - chr3R_5959310_5960163;chr3R_5959310_5960101;chr3R_5959310_5960041;chr3R_5959310_5960049;chr3R_5959310_5960182;chr3R_5959310_5960026;chr3R_5959310_5960158;chr3R_5959310_5959679 chr3R_5959310_5959789 chr3R_5958937_5959309;chr3R_5960183_5960224 0.00 0.00 0.00 8.00 0.00 10.00 0.00 0.00 0.00 0.00 0.00 9.09 0.00 0.00 7.14 6.67 10.00 0.00 5.88 0.00 25.00 12.50 0.00 25.00 0.00 11.11 20.00 25.00 11.11 11.11 0.00 0.00 8.33 0.00 0.00 0.00 25.00 0.00 16.67 11.11 0.00 0.00 0.00 0.00 33.33 0.00 0.00 19.05 6.25 0.00 0.00 0.00 16.67 0.00 6.25 0.00 0.00 7.69 N jcn_only_AD CG17255,I_chrX_10366177_10366615,RI_chrX_10366177_10367270 chrX - chrX_10366177_10367360;chrX_10366177_10367201;chrX_10366177_10367458;chrX_10366177_10367270;chrX_10366177_10366615 chrX_10366177_10368085 chrX_10366077_10366176;chrX_10368086_10368118 69.00 65.74 76.07 65.05 65.88 74.23 67.35 66.32 59.68 76.92 78.57 68.33 66.07 73.60 70.51 58.38 67.23 72.34 67.97 67.68 68.54 82.02 58.73 70.50 69.01 75.91 70.34 70.97 86.62 73.08 73.08 78.26 83.07 63.68 63.87 74.49 59.12 73.03 69.00 75.90 83.33 66.12 68.00 62.02 83.75 87.61 68.52 87.20 67.76 77.46 62.50 52.11 65.57 62.50 70.66 66.67 66.07 86.42 K intron_retention CG7720 chr3R - chr3R_14587729_14594381 chr3R_14587728_14587729;chr3R_14594381_14594382 chr3R_14587702_14587728;chr3R_14594382_14594529 12.50 NA NA NA NA NA NA 14.29 21.43 NA NA 12.50 NA NA 15.38 NA NA NA NA 20.00 NA 11.54 21.43 11.76 NA NA 12.50 NA NA 7.69 40.00 NA NA NA NA 13.33 13.04 NA 10.53 10.00 NA 35.71 NA 2.38 NA 10.53 18.75 21.43 NA 6.67 10.00 NA 12.50 NA NA 11.11 NA 0.00 K jcn_only_AD RpL27,I_chr3R_21510239_21510298,RI_chr3R_21510239_21510441,I_chr3R_21510239_21510464,I_chr3R_21510239_21510656,I_chr3R_21510239_21510726 chr3R - chr3R_21510239_21510656;chr3R_21510239_21510739;chr3R_21510239_21510680;chr3R_21510239_21510298;chr3R_21510239_21510746 chr3R_21510239_21510464 chr3R_21510139_21510238;chr3R_21510747_21510756 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.12 0.00 0.00 0.00 0.00 0.00 0.00 2.44 0.00 2.22 0.00 1.05 0.00 2.50 2.17 0.00 2.44 0.00 0.00 0.00 1.56 1.85 1.90 0.00 0.00 0.00 0.00 2.86 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.59 0.62 1.41 4.00 0.00 0.00 3.64 0.00 0.00 0.00 0.00 0.71 0.00 0.00 0.55 K alternative_acceptor akirin,I_chr3L_7363173_7364806,I_chr3L_7363177_7364806,I_chr3L_7363177_7364831,I_chr3L_7363211_7364831,I_chr3L_7363731_7364806,I_chr3L_7364126_7364806,RI_chr3L_7364737_7364806 chr3L + chr3L_7363169_7364831 chr3L_7363169_7364806 chr3L_7363111_7363168;chr3L_7364832_7364906 82.05 82.09 91.23 95.65 81.82 90.74 90.62 89.63 82.00 76.92 93.10 86.82 82.05 77.14 87.84 78.38 85.25 84.21 82.35 88.89 84.21 74.58 74.77 81.08 84.44 91.43 85.71 78.12 92.31 66.22 76.71 73.53 42.67 86.96 82.00 88.46 75.41 80.70 79.66 74.19 86.84 84.96 88.14 85.71 85.71 79.71 83.33 80.65 79.29 65.85 82.93 80.39 75.61 81.13 86.67 78.57 75.44 77.36 K alternative_donor drk,RI_chr2R_9389255_9389317,I_chr2R_9389597_9389751,I_chr2R_9389597_9389907,I_chr2R_9389597_9389940,I_chr2R_9389597_9390151,I_chr2R_9389597_9390271,I_chr2R_9389714_9390195 chr2R - chr2R_9389597_9390195;chr2R_9389597_9390151;chr2R_9389597_9389940;chr2R_9389597_9390293;chr2R_9389597_9389751;chr2R_9389597_9390264;chr2R_9389597_9389753;chr2R_9389597_9389757 chr2R_9389597_9389907 chr2R_9389497_9389596;chr2R_9390294_9390295 0.00 0.00 0.00 1.69 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.67 0.00 3.70 0.00 0.00 0.00 0.00 0.00 1.96 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.74 0.00 0.00 0.00 0.00 0.00 0.00 1.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N alternative_donor CG2003 chr3R + chr3R_27815189_27815312;chr3R_27815253_27815312 chr3R_27815249_27815312 chr3R_27815313_27816636;chr3R_27815109_27815188 93.33 90.38 97.73 88.00 89.66 93.48 93.75 95.59 88.89 93.33 95.24 85.53 89.74 97.44 96.08 92.00 89.19 94.74 96.43 94.00 95.65 100.00 84.75 94.83 96.88 93.55 93.18 86.11 100.00 88.46 68.42 83.33 77.19 95.00 97.06 87.50 83.33 85.42 95.08 82.43 96.55 92.13 96.88 97.56 96.15 82.26 95.12 83.61 95.35 90.91 91.04 88.57 92.86 94.87 94.12 85.19 94.67 90.59 K alternative_donor CtBP chr3R + chr3R_8847030_8847141 chr3R_8847039_8847141 chr3R_8847142_8847364;chr3R_8846898_8847029 20.99 18.52 21.18 21.13 23.19 17.20 20.99 23.08 20.00 15.62 14.44 18.13 16.28 23.46 21.36 25.77 20.83 21.74 20.99 23.75 17.81 18.07 28.05 18.29 18.06 21.21 18.31 17.48 19.49 18.82 22.22 18.33 17.46 22.76 27.85 17.89 20.00 19.40 20.56 23.16 21.05 23.03 19.48 16.90 20.45 26.42 22.22 22.90 21.35 25.00 25.68 22.95 18.33 22.54 18.10 21.13 22.97 20.48 K intron_retention CG7956 chr3R + chr3R_17352625_17352984 chr3R_17352624_17352625;chr3R_17352984_17352985 chr3R_17351551_17352624;chr3R_17352985_17353123 90.70 89.74 84.78 98.08 80.00 88.89 95.40 98.41 92.78 76.47 94.74 93.55 95.83 93.62 90.70 96.10 94.59 81.58 92.00 97.06 90.91 85.19 89.77 90.28 97.06 93.75 91.94 97.22 76.19 78.72 86.81 97.22 82.14 93.59 93.62 78.05 80.49 88.24 87.76 82.46 83.05 90.12 96.55 88.89 81.58 88.12 85.96 72.46 94.19 90.80 93.62 88.24 77.42 97.56 97.14 94.87 94.12 79.31 K jcn_only_AD SAK chr3L - chr3L_21508757_21508877 chr3L_21508757_21508815 chr3L_21508661_21508756;chr3L_21508878_21508916 100.00 NA NA 100.00 NA NA 100.00 100.00 100.00 NA NA 100.00 NA NA NA 100.00 NA NA NA 100.00 NA NA NA 100.00 NA NA NA NA NA NA NA NA NA 100.00 NA NA 100.00 NA NA NA NA 100.00 NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA K intron_retention CG7987,RI_chr3R_10400799_10401492 chr3R - chr3R_10400608_10401492 chr3R_10400607_10400608;chr3R_10401492_10401493 chr3R_10400270_10400607;chr3R_10401493_10401559 53.85 40.00 39.29 42.86 55.00 50.00 53.66 44.12 57.14 76.92 50.00 43.64 93.75 55.17 50.00 38.89 60.00 48.15 61.54 50.72 42.11 45.00 54.24 47.62 63.33 69.57 51.22 54.76 57.69 52.94 35.59 64.00 63.64 51.11 55.56 62.86 66.67 55.88 39.66 69.70 77.78 54.00 50.00 52.17 52.00 63.33 53.85 56.76 47.62 73.08 57.89 62.50 63.64 53.85 38.89 50.00 48.15 57.69 K intron_retention N chrX + chrX_3063661_3063754 chrX_3063660_3063661;chrX_3063754_3063755 chrX_3057512_3063660;chrX_3063755_3064064 0.00 NA NA 0.00 NA NA 0.00 8.33 3.57 NA 0.00 0.00 NA NA NA NA NA 0.00 NA 0.00 NA 6.98 0.00 NA NA 0.00 0.00 NA NA NA 0.00 NA 6.67 0.00 NA 0.00 0.00 0.00 0.00 NA NA 3.70 NA NA NA 0.00 NA NA 0.00 NA 0.00 NA NA NA 0.00 NA NA NA K alternative_donor RpL36,RI_chrX_522912_523358,I_chrX_522932_523360,I_chrX_522949_523360 chrX - chrX_522912_523360;chrX_522912_523414;chrX_522912_523194;chrX_522912_523323;chrX_522912_523389 chrX_522912_523215 chrX_522849_522911;chrX_523415_523436 0.00 0.00 0.00 0.36 1.20 1.06 0.61 0.38 0.00 0.00 1.45 0.48 1.23 1.25 0.00 0.00 0.00 1.32 1.23 0.00 0.00 0.00 0.00 0.00 1.11 1.82 0.92 0.91 0.42 0.00 0.00 0.00 0.00 0.41 1.39 1.04 0.00 0.00 0.00 0.00 0.48 0.30 0.00 0.00 0.00 0.47 0.00 0.39 0.00 0.00 1.03 0.00 0.40 0.00 0.00 0.00 0.00 0.17 K alternative_acceptor CG30187,F_chr2R_18804786_18805198,F_chr2R_18805721_18805778,I_chr2R_18820842_18820922 chr2R - chr2R_18805073_18805156 chr2R_18805106_18805156 chr2R_18805157_18805720;chr2R_18805057_18805072 100.00 100.00 100.00 100.00 100.00 95.24 97.62 97.73 98.11 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 94.74 100.00 100.00 100.00 100.00 97.30 100.00 100.00 97.50 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.00 100.00 100.00 100.00 100.00 100.00 96.43 100.00 100.00 K jcn_only_AD eRF1,CG5618,I_chr3L_20346714_20347106,I_chr3L_20346738_20347058,I_chr3L_20348230_20348404 chr3L + chr3L_20341925_20342041;chr3L_20341636_20342041;chr3L_20341509_20342041;chr3L_20341865_20342041;chr3L_20341486_20342041;chr3L_20341522_20342041;chr3L_20341751_20342041;chr3L_20341530_20342041;chr3L_20341629_20342041;chr3L_20341598_20342041 chr3L_20341759_20342041 chr3L_20342042_20342306;chr3L_20341482_20341485 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.04 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 K intron_retention CG6689,RI_chr3R_7044164_7044221 chr3R - chr3R_7043759_7043827 chr3R_7043758_7043759;chr3R_7043827_7043828 chr3R_7043620_7043758;chr3R_7043828_7044163 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA NA 0.00 NA NA 0.00 0.00 NA NA 0.00 0.00 NA 8.33 0.00 0.00 0.00 0.00 3.23 NA 0.00 NA 0.00 0.00 0.00 4.35 0.00 NA 0.00 0.00 0.00 0.00 4.17 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD tho2 chr2L - chr2L_2138159_2139629 chr2L_2138159_2138345 chr2L_2137984_2138158;chr2L_2139630_2139673 27.54 12.70 16.33 19.54 13.33 11.11 30.43 11.63 21.43 56.00 31.15 13.39 36.59 15.91 11.48 61.90 10.00 12.86 15.09 23.08 30.36 18.97 37.50 33.90 33.33 23.91 30.12 35.00 58.18 34.85 20.97 27.54 42.39 22.47 37.50 55.74 30.56 26.42 22.78 38.46 36.54 14.96 17.95 25.45 29.17 51.39 12.66 30.30 17.65 39.13 23.19 33.33 41.94 18.75 17.19 34.33 35.53 38.54 K alternative_acceptor mRpS10,CG34316 chr3R + chr3R_11055463_11055522 chr3R_11055463_11055508 chr3R_11055424_11055462;chr3R_11055523_11055749 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 7.14 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 NA NA 0.00 0.00 NA 0.00 NA NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 K alternative_donor RpL29,I_chr2R_17184688_17191389 chr2R + chr2R_17181380_17181558;chr2R_17181295_17181558 chr2R_17181384_17181558 chr2R_17181559_17181664;chr2R_17181294_17181294 1.18 1.20 0.99 0.83 1.10 1.26 0.82 0.78 0.90 1.45 0.95 1.09 1.43 0.86 0.89 1.07 1.00 1.22 1.13 1.13 0.96 0.00 1.99 1.51 1.73 0.84 4.55 1.29 1.52 1.23 1.28 1.75 0.87 1.07 1.52 1.32 1.88 1.71 2.87 0.91 0.72 0.82 0.92 1.53 1.19 1.67 1.61 1.40 0.86 1.61 0.83 1.68 1.18 4.00 0.92 2.34 1.01 0.89 K intron_retention CG3570 chr2R + chr2R_20491397_20491451 chr2R_20491396_20491397;chr2R_20491451_20491452 chr2R_20491135_20491396;chr2R_20491452_20492194 96.88 100.00 97.67 96.97 97.14 97.67 97.67 100.00 98.67 97.22 96.88 97.26 95.65 96.43 97.62 97.06 100.00 96.97 100.00 97.87 95.83 95.00 96.77 92.54 96.88 100.00 97.96 98.36 87.50 86.05 91.67 97.67 94.52 98.21 94.87 97.78 92.86 92.31 98.53 90.59 100.00 98.84 100.00 96.67 88.71 90.91 91.38 95.74 98.08 89.80 93.85 95.56 98.41 94.55 95.45 95.74 96.23 93.75 K intron_retention Sin3A,I_chr2R_8465791_8466633,I_chr2R_8473578_8480185,RI_chr2R_8479951_8480233 chr2R - chr2R_8465791_8466633 chr2R_8465790_8465791;chr2R_8466633_8466634 chr2R_8465691_8465790;chr2R_8466634_8466733 86.11 NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA 73.33 NA NA NA NA NA NA NA 93.33 NA NA NA NA 81.82 NA NA NA NA NA NA 88.89 NA NA NA NA NA NA NA 83.33 NA NA NA NA NA NA NA NA NA NA N cassette CG3563,R_chr3R_10568322_10613785,I_chr3R_10615218_10615284,F_chr3R_10620137_10620250 chr3R + chr3R_10568314_10613778;chr3R_10575996_10613778 chr3R_10568314_10589932,chr3R_10575996_10589932;chr3R_10590015_10613778 chr3R_10589933_10590014 chr3R_10568222_10568313;chr3R_10613779_10614341 0.00 0.00 0.00 1.92 0.00 0.00 3.12 2.33 4.11 0.00 NA 1.89 0.00 0.00 0.00 9.76 0.00 0.00 10.71 8.11 0.00 5.56 0.00 0.00 0.00 0.00 0.00 47.22 14.29 2.94 0.00 NA 0.00 2.70 0.00 0.00 0.00 0.00 0.00 2.04 NA 9.80 0.00 0.00 NA 0.00 0.00 0.00 7.27 NA 0.00 0.00 NA NA 0.00 0.00 NA NA K intron_retention Rab10,I_chrX_20122832_20123581 chrX + chrX_20123672_20124139 chrX_20123671_20123672;chrX_20124139_20124140 chrX_20123582_20123671;chrX_20124140_20125284 0.70 0.76 1.47 5.16 0.00 0.00 2.65 1.65 1.49 0.00 9.18 2.84 0.00 0.89 0.00 1.17 2.04 0.00 0.86 0.93 3.57 2.73 0.00 0.00 0.00 0.66 1.33 1.68 4.26 0.00 0.86 0.00 0.69 2.56 0.96 2.05 1.04 0.70 1.00 0.25 0.00 1.43 2.00 0.55 0.00 0.00 0.00 0.00 0.76 0.00 2.27 0.00 0.00 0.00 0.00 0.00 0.64 0.00 K jcn_only_AA CG10321,I_chr2R_17522487_17522896 chr2R + chr2R_17522487_17522896 chr2R_17522487_17522885 chr2R_17522387_17522486;chr2R_17522897_17522996 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 94.29 97.73 100.00 100.00 100.00 100.00 NA 100.00 100.00 97.67 100.00 96.67 97.56 95.00 100.00 94.29 96.43 100.00 97.78 97.56 NA 100.00 98.57 100.00 100.00 97.44 100.00 100.00 NA 100.00 100.00 95.24 100.00 96.00 100.00 100.00 100.00 100.00 95.83 100.00 96.88 97.22 100.00 NA K cassette CG7139,I_chr3L_22062296_22063867,I_chr3L_22063306_22063867 chr3L - chr3L_22062296_22063867 chr3L_22062296_22062475;chr3L_22063263_22063867 chr3L_22062476_22063262 chr3L_22062196_22062295;chr3L_22063868_22063967 100.00 100.00 97.44 98.11 100.00 100.00 100.00 100.00 98.61 100.00 100.00 100.00 96.97 100.00 100.00 100.00 100.00 97.22 100.00 100.00 100.00 94.55 98.28 98.04 97.14 100.00 98.08 100.00 97.78 100.00 100.00 97.14 100.00 98.18 100.00 97.67 100.00 100.00 98.21 96.25 93.33 98.51 100.00 97.83 97.62 100.00 100.00 98.57 98.51 100.00 100.00 100.00 100.00 100.00 97.73 100.00 96.97 100.00 K jcn_only_AD Lerp chr3R - chr3R_22688433_22688824;chr3R_22688433_22688772;chr3R_22688433_22688494 chr3R_22688433_22688796 chr3R_22688359_22688432;chr3R_22688825_22688828 23.81 NA NA 23.81 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention bip2,RI_chr4_481674_487126,RI_chr4_483144_483680,RI_chr4_486609_487126 chr4 - chr4_481283_481339 chr4_481282_481283;chr4_481339_481340 chr4_481200_481282;chr4_481340_481477 6.06 0.00 8.33 28.26 9.52 10.71 11.11 14.29 17.50 7.69 3.85 10.00 20.00 14.29 9.09 6.25 3.85 NA 6.45 7.02 NA 8.00 0.00 0.00 4.76 6.25 0.00 NA 0.00 0.00 5.00 0.00 0.00 9.09 0.00 6.25 0.00 0.00 0.00 0.00 4.55 11.54 11.11 0.00 14.29 10.00 0.00 5.88 4.55 5.26 10.00 0.00 8.33 0.00 9.76 0.00 2.78 13.46 K jcn_only_AA gw,I_chr4_679135_681671 chr4 - chr4_673460_673526 chr4_673469_673526 chr4_673527_673677;chr4_673272_673459 60.85 56.63 65.71 62.39 61.74 62.41 60.54 56.45 58.33 57.81 55.66 56.86 55.36 57.32 65.75 62.60 63.74 65.35 60.29 61.95 58.51 75.00 67.36 64.66 60.53 58.94 63.98 58.75 63.27 62.62 58.47 65.17 66.00 60.91 60.38 65.32 66.41 60.50 60.85 55.74 52.43 64.41 58.44 68.25 56.38 62.69 59.48 62.04 57.35 60.14 60.19 59.57 63.55 67.92 62.32 60.48 65.98 49.07 K intron_retention CG30499,I_chr2R_3452363_3452552 chr2R - chr2R_3452746_3452803 chr2R_3452745_3452746;chr2R_3452803_3452804 chr2R_3452563_3452745;chr2R_3452804_3453251 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.70 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG16896,CG30423 chr2R - chr2R_20761824_20761882 chr2R_20761823_20761824;chr2R_20761882_20761883 chr2R_20761710_20761823;chr2R_20761883_20762420 7.14 NA 0.00 8.33 NA NA 8.00 9.09 6.25 NA 13.33 7.14 NA 6.67 0.00 0.00 NA 0.00 4.55 12.12 NA 40.00 13.04 13.04 NA 12.50 19.05 26.32 27.27 NA 9.09 0.00 15.38 3.45 11.11 12.50 22.22 13.33 4.76 0.00 NA 7.41 NA 4.76 NA 4.76 NA 0.00 6.67 7.14 0.00 0.00 NA 7.14 0.00 0.00 NA 0.00 K cassette MTA1-like chr3R - chr3R_1469500_1472775 chr3R_1469500_1469884;chr3R_1469993_1472775 chr3R_1469885_1469992 chr3R_1469171_1469499;chr3R_1472776_1472937 1.59 1.35 1.37 0.00 3.33 1.59 1.47 1.22 1.12 3.95 0.00 1.52 2.38 0.00 2.35 5.56 1.67 1.79 0.00 0.71 1.49 5.41 1.35 1.72 1.41 0.00 0.88 2.27 4.12 0.97 1.49 3.70 2.40 0.00 4.29 4.05 2.31 2.08 2.26 1.16 2.44 1.41 0.00 1.06 2.50 1.27 2.63 1.48 1.53 3.70 0.99 1.69 2.94 1.89 2.08 0.00 2.08 2.27 K mutually_exclusive bbc,I_chr2R_9376554_9377246,REI_chr2R_9379401_9381986 chr2R - chr2R_9375638_9376421,chr2R_9376554_9378939;chr2R_9375638_9377246,chr2R_9377379_9378939 chr2R_9375638_9378244,chr2R_9378377_9378939 chr2R_9376422_9376553;chr2R_9377247_9377378 chr2R_9378245_9378376 chr2R_9375479_9375637;chr2R_9378940_9379098 93.99 94.14 92.77 90.15 94.40 90.73 89.47 88.89 91.98 98.27 91.53 90.81 84.68 90.14 91.57 81.44 93.22 86.44 88.49 89.02 90.24 90.33 92.11 91.76 94.58 92.41 94.10 96.49 95.82 96.14 91.90 96.00 96.77 89.72 94.56 87.35 96.36 94.50 95.00 96.39 97.91 92.56 91.49 95.40 97.46 97.45 94.82 98.28 90.81 93.99 94.76 95.80 96.11 94.61 92.86 94.93 96.52 97.98 K intron_retention I_chr2R_2539027_2539493,Opbp chr2R + chr2R_2541566_2541621 chr2R_2541565_2541566;chr2R_2541621_2541622 chr2R_2540889_2541565;chr2R_2541622_2542014 0.00 NA NA 21.74 NA NA NA 0.00 0.00 NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA 0.00 0.00 NA NA NA NA NA NA NA NA NA NA 0.00 NA 0.00 NA NA NA 0.00 NA 0.00 NA NA NA NA NA NA 0.00 NA 0.00 NA 0.00 0.00 NA NA 0.00 0.00 K intron_retention dbr,I_chr2L_67112_67568,RI_chr2L_74573_75077 chr2L + chr2L_67508_67568 chr2L_67507_67508;chr2L_67568_67569 chr2L_67389_67507;chr2L_67569_67668 5.63 NA 0.00 13.64 NA NA 8.00 16.00 8.82 NA NA 2.63 NA 0.00 NA 13.79 NA NA 5.56 5.71 NA NA 22.22 NA NA 0.00 NA NA NA NA 0.00 NA 13.64 2.70 7.14 7.69 NA NA NA 0.00 NA 4.17 NA NA NA 0.00 NA 7.69 3.45 NA 0.00 NA NA NA 16.67 NA NA NA K cassette rl,I_chr2RHet_199154_207044,RI_chr2RHet_203476_203577,RI_chr2RHet_203592_207044,I_chr2RHet_232696_247338,RI_chr2RHet_240197_247338 chr2RHet + chr2RHet_199154_207044 chr2RHet_199154_203348;chr2RHet_203476_207044 chr2RHet_203349_203475 chr2RHet_199054_199153;chr2RHet_207045_207144 100.00 100.00 100.00 95.70 100.00 100.00 100.00 99.05 99.21 91.67 100.00 98.68 97.73 100.00 100.00 98.94 100.00 100.00 97.96 98.61 100.00 100.00 97.83 97.30 100.00 96.55 100.00 95.65 100.00 100.00 100.00 95.00 93.33 98.86 100.00 96.88 95.65 100.00 100.00 97.92 100.00 98.72 100.00 97.83 100.00 100.00 100.00 97.30 99.00 100.00 97.96 97.06 100.00 95.24 100.00 100.00 96.77 96.77 K alternative_donor CG15072,RI_chr2R_14576128_14579545,I_chr2R_14589693_14590032 chr2R + chr2R_14575874_14579545;chr2R_14576049_14579545;chr2R_14576247_14579545;chr2R_14576056_14579545;chr2R_14576154_14579545 chr2R_14576017_14579545 chr2R_14579546_14579571;chr2R_14575805_14575873 12.50 0.00 40.00 15.38 0.00 16.67 17.65 27.78 8.00 12.50 11.11 13.33 11.76 16.67 12.50 27.78 0.00 28.57 33.33 20.00 25.00 0.00 22.22 20.00 0.00 37.50 14.29 0.00 0.00 0.00 0.00 0.00 9.09 6.67 8.33 25.00 12.50 0.00 20.00 11.76 0.00 21.43 22.22 36.36 0.00 0.00 0.00 11.11 12.50 0.00 0.00 20.00 25.00 50.00 0.00 0.00 25.00 33.33 K intron_retention Ipk1 chr2R + chr2R_16764127_16764759 chr2R_16764126_16764127;chr2R_16764759_16764760 chr2R_16763980_16764126;chr2R_16764760_16764817 3.85 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 7.69 NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA N jcn_only_AD Dbp80,E_chr3LHet_2513829_2513928 chr3LHet + chr3LHet_2409947_2410016 chr3LHet_2409959_2410016 chr3LHet_2410017_2410075;chr3LHet_2409938_2409946 100.00 100.00 100.00 85.33 100.00 100.00 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 NA NA NA NA NA NA NA 100.00 100.00 NA 100.00 100.00 NA NA NA NA NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 NA NA NA NA NA 100.00 NA NA 100.00 K jcn_only_AA I_chr3R_23771063_23772599,CG4951,RI_chr3R_23778808_23778861 chr3R - chr3R_23778799_23778865 chr3R_23778808_23778865 chr3R_23778866_23778961;chr3R_23778715_23778798 96.83 97.83 97.33 96.00 92.31 95.24 93.44 95.79 93.55 94.64 98.53 97.06 100.00 93.44 95.70 96.83 96.67 97.01 98.63 97.45 100.00 95.89 94.44 97.48 95.65 96.77 97.83 95.92 98.85 98.17 95.59 96.40 96.72 99.12 98.53 100.00 94.40 97.56 97.22 94.20 97.56 97.26 96.83 96.55 94.90 95.21 97.20 97.93 95.65 96.40 96.88 98.04 96.26 91.76 96.47 97.03 98.16 97.46 K intron_retention CG6294,CG6299,I_chrX_15359667_15359763 chrX + chrX_15360510_15360575 chrX_15360509_15360510;chrX_15360575_15360576 chrX_15360252_15360509;chrX_15360576_15360845 11.63 5.41 5.00 16.67 16.13 12.20 9.52 5.63 7.45 0.00 12.50 7.14 15.56 3.03 6.90 13.51 3.03 14.29 5.26 6.45 13.64 33.33 14.29 14.29 12.50 8.57 12.50 52.38 11.54 11.76 8.51 12.00 9.09 12.82 3.57 17.39 10.00 15.38 11.69 14.29 20.00 7.62 11.76 5.13 10.00 18.52 10.00 22.22 12.50 20.00 5.17 9.09 10.00 6.78 11.11 11.63 10.00 16.00 K jcn_only_AA CG16710,CG18754 chr3R + chr3R_19509105_19509242 chr3R_19509105_19509176 chr3R_19508492_19509104;chr3R_19509243_19509606 99.17 97.37 97.00 100.00 100.00 100.00 99.00 99.15 100.00 NA 100.00 100.00 100.00 98.53 98.51 98.73 100.00 100.00 100.00 97.24 98.84 100.00 100.00 96.72 100.00 98.28 93.33 NA NA 95.45 100.00 100.00 100.00 97.90 97.56 95.00 96.92 100.00 100.00 95.95 100.00 99.17 100.00 97.83 96.55 100.00 97.92 96.88 99.19 96.30 97.47 100.00 100.00 96.88 100.00 98.08 100.00 NA K multi_cassette RI_chrX_11473566_11473702,roX2,noncoding_23149,I_chrX_11475074_11475402 chrX + chrX_11473158_11473702 chrX_11473158_11473247;chrX_11473270_11473381;chrX_11473433_11473544;chrX_11473562_11473702 chrX_11473248_11473269;chrX_11473382_11473432;chrX_11473545_11473561 chrX_11473148_11473157;chrX_11473703_11473726 14.55 22.22 NA 10.53 NA NA NA 16.67 19.05 18.18 NA 13.79 NA 10.00 7.14 10.00 NA NA 11.76 15.79 NA NA NA NA NA 33.33 NA NA NA NA 14.29 NA NA 14.81 NA NA NA NA NA 10.34 NA 17.65 14.29 NA NA 23.08 20.00 6.67 15.62 NA NA NA NA NA 10.53 NA 30.00 5.88 K jcn_only_AD CG6236 chr3R - chr3R_11153785_11153876;chr3R_11153785_11153869 chr3R_11153785_11153849 chr3R_11153649_11153784;chr3R_11153877_11153988 36.96 38.75 27.78 35.71 57.69 39.02 32.84 38.74 38.27 38.46 40.91 46.62 59.26 60.00 28.12 32.94 NA 38.46 40.00 37.16 58.33 50.85 26.17 32.94 37.78 60.00 23.89 30.88 37.08 31.62 43.90 27.27 31.48 39.09 31.94 34.78 30.65 28.21 36.84 33.84 35.92 34.40 50.00 31.29 34.44 35.38 32.00 39.15 39.84 27.50 30.56 40.91 44.05 40.68 46.34 30.68 27.37 44.27 K jcn_only_AD pelo,I_chr2L_9707821_9708144,I_chr2L_9707891_9708144,I_chr2L_9708081_9708144 chr2L + chr2L_9707891_9708144;chr2L_9706747_9708144;chr2L_9707821_9708144 chr2L_9708081_9708144 chr2L_9708145_9708244;chr2L_9706647_9706746 0.00 1.52 0.00 0.00 0.00 0.00 1.52 1.01 0.00 0.00 2.08 0.90 0.00 0.00 0.00 0.00 0.00 1.79 0.00 0.00 2.13 3.23 0.00 0.00 2.38 0.00 2.02 3.12 3.66 1.54 0.00 3.37 0.00 0.00 0.00 0.00 1.20 0.00 0.00 1.69 0.93 0.00 0.00 1.41 0.00 0.00 0.00 0.81 0.00 0.00 1.04 0.00 0.00 1.54 0.00 1.19 0.00 1.34 K intron_retention Arp14D,RE_chrX_16445264_16446372 chrX - chrX_16443940_16444009 chrX_16443939_16443940;chrX_16444009_16444010 chrX_16443511_16443939;chrX_16444010_16444219 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.34 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.53 0.00 0.53 0.47 0.00 0.00 0.00 2.50 4.17 0.00 0.00 0.44 0.00 0.49 0.00 0.00 0.00 1.15 0.00 0.00 0.00 0.00 0.38 0.00 0.00 0.00 0.00 0.00 0.00 0.33 0.00 0.00 0.00 0.00 0.00 0.00 0.59 0.00 0.00 K alternative_acceptor CG10737 chr2R + chr2R_15064029_15064095 chr2R_15064029_15064092 chr2R_15063921_15064028;chr2R_15064096_15064248 99.06 99.06 100.00 99.17 98.80 100.00 99.00 99.31 98.94 97.06 100.00 99.36 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.48 100.00 98.86 99.02 98.95 98.70 100.00 98.77 100.00 97.56 98.41 99.07 100.00 98.00 100.00 98.33 98.33 98.45 98.89 99.32 98.78 100.00 97.88 100.00 98.80 98.67 98.95 100.00 94.87 99.33 100.00 99.14 98.25 98.77 98.96 99.04 97.83 99.35 98.28 K intron_retention CG12090,I_chr3L_1525393_1526659 chr3L - chr3L_1525704_1527189 chr3L_1525703_1525704;chr3L_1527189_1527190 chr3L_1525642_1525703;chr3L_1527190_1527240 58.62 54.55 59.09 37.50 70.00 72.73 57.50 71.43 55.32 50.00 77.78 68.00 65.22 76.92 73.33 72.41 52.38 66.67 89.47 52.17 61.11 52.63 39.53 44.00 57.89 NA 52.38 NA 64.71 61.11 66.67 53.85 75.00 63.64 64.71 53.85 42.31 57.89 60.87 61.11 46.67 57.78 81.82 66.67 50.00 57.14 70.00 55.56 54.17 63.16 42.86 46.15 35.29 60.00 58.62 42.86 37.04 58.82 K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2387249_2395659 chrX_2387249_2392054;chrX_2392149_2392515;chrX_2392665_2393243;chrX_2393712_2395659 chrX_2392055_2392148;chrX_2392516_2392664;chrX_2393244_2393711 chrX_2387149_2387248;chrX_2395660_2395759 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.20 0.00 0.00 0.00 0.00 0.00 0.00 1.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.25 1.12 0.00 0.00 0.00 0.00 0.00 0.00 1.39 NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 K alternative_donor CG11360,noncoding_20761,I_chr4_701221_705206,I_chr4_705000_705206 chr4 + chr4_701762_705206 chr4_705000_705206 chr4_705207_705306;chr4_701667_701761 4.00 4.35 2.94 8.57 3.85 4.00 2.38 3.77 2.90 10.00 4.17 7.69 5.56 4.00 3.33 7.69 2.86 3.45 3.23 4.17 2.70 7.69 3.23 5.56 0.00 4.35 5.56 10.00 0.00 0.00 3.12 NA 7.14 4.00 4.76 10.00 0.00 4.76 0.00 4.08 NA 3.12 3.23 3.45 NA 0.00 NA 4.55 4.88 0.00 4.17 5.88 NA NA 2.13 NA NA 0.00 K intron_retention CG1621,CG1620 chr2R - chr2R_3382967_3383030 chr2R_3382966_3382967;chr2R_3383030_3383031 chr2R_3382371_3382966;chr2R_3383031_3383797 0.00 0.00 0.00 12.12 0.00 0.00 0.00 4.62 2.78 0.00 0.00 0.00 4.65 0.00 3.77 1.72 2.08 0.00 2.08 2.94 5.26 0.00 0.00 0.00 0.00 0.00 4.41 3.85 2.00 0.00 0.00 0.00 1.09 2.99 0.00 0.00 0.00 0.00 0.00 0.00 3.12 2.61 0.00 0.00 0.00 0.00 0.00 0.00 1.85 0.00 0.00 0.00 0.00 2.04 0.00 0.00 0.00 0.00 K jcn_only_AD CG4699 chr3R + chr3R_11624200_11624442;chr3R_11624133_11624442;chr3R_11624127_11624442 chr3R_11624190_11624442 chr3R_11624443_11624758;chr3R_11623809_11624126 18.03 21.50 16.13 21.11 15.79 18.03 18.97 15.85 18.98 20.91 12.50 20.44 15.00 9.80 12.66 14.08 19.61 14.29 18.87 13.38 18.92 19.58 26.55 18.52 20.35 21.31 23.12 21.51 14.21 14.29 13.64 16.33 16.36 10.64 17.24 25.97 18.34 16.56 15.18 21.92 23.73 20.16 6.25 16.08 11.57 18.18 16.18 17.89 11.93 21.26 20.69 21.35 19.73 23.68 7.14 22.14 15.91 11.85 K cassette par-1,I_chr2R_15361473_15366246,I_chr2R_15362147_15365120,F_chr2R_15362147_15365138,I_chr2R_15362147_15365165,RI_chr2R_15363358_15365120,I_chr2R_15363358_15366246,I_chr2R_15365210_15370456 chr2R + chr2R_15361473_15366246 chr2R_15361473_15365165;chr2R_15365210_15366246 chr2R_15365166_15365209 chr2R_15361373_15361472;chr2R_15366247_15366346 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor As chr3L - chr3L_11200236_11200299 chr3L_11200236_11200297 chr3L_11199522_11200235;chr3L_11200300_11200790 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.97 90.00 95.45 100.00 100.00 100.00 100.00 100.00 100.00 92.31 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.83 100.00 96.30 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.30 100.00 K multi_cassette Rph,I_chrX_10644396_10644958,I_chrX_10646283_10647245,I_chrX_10647710_10648325,RI_chrX_10649048_10651427 chrX - chrX_10645816_10647245 chrX_10645816_10645935;chrX_10646283_10646360;chrX_10646529_10647245 chrX_10645936_10646282;chrX_10646361_10646528 chrX_10644959_10645815;chrX_10647246_10647345 7.69 4.35 9.52 33.33 0.00 4.76 8.33 23.81 11.63 NA 36.36 15.15 26.32 NA 3.70 25.00 6.67 4.35 5.56 14.29 44.44 14.29 15.38 9.09 NA 10.00 18.18 7.69 10.00 NA 16.67 NA 0.00 6.25 NA 0.00 5.56 7.14 0.00 5.56 NA 5.00 20.00 21.43 5.56 NA 7.14 0.00 13.89 0.00 4.76 20.00 6.25 0.00 12.00 9.09 5.56 0.00 K jcn_only_AD CG17737,I_chr3L_3223527_3224313,I_chr3L_3223943_3224313 chr3L + chr3L_3223415_3223474 chr3L_3223422_3223474 chr3L_3223475_3223526;chr3L_3223400_3223414 3.70 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 15.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 3.70 NA NA NA NA NA NA NA NA NA K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2387249_2392054 chrX_2387249_2389073;chrX_2389272_2389644;chrX_2389762_2389980;chrX_2390067_2390493;chrX_2390627_2390808;chrX_2390959_2391350;chrX_2391522_2392054 chrX_2389074_2389271;chrX_2389645_2389761;chrX_2389981_2390066;chrX_2390494_2390626;chrX_2390809_2390958;chrX_2391351_2391521 chrX_2387149_2387248;chrX_2392055_2392148 100.00 NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention Khc-73 chr2R - chr2R_11409610_11410378 chr2R_11409609_11409610;chr2R_11410378_11410379 chr2R_11409507_11409609;chr2R_11410379_11410524 5.88 5.56 5.71 12.77 8.33 3.85 4.44 9.09 6.33 5.88 9.09 4.76 22.22 5.26 7.32 5.66 4.76 10.71 8.70 8.22 8.70 3.77 5.41 12.50 13.79 18.18 5.26 7.89 3.77 5.26 8.33 4.35 10.53 0.00 5.88 25.00 7.94 5.41 3.77 7.94 8.33 6.35 0.00 6.38 0.00 0.00 3.12 7.58 8.00 2.70 4.55 5.71 4.76 9.09 4.55 3.23 7.69 0.00 K intron_retention Syx7,I_chr3L_21439901_21439962 chr3L + chr3L_21440598_21440655 chr3L_21440597_21440598;chr3L_21440655_21440656 chr3L_21440181_21440597;chr3L_21440656_21441235 0.00 0.00 0.00 0.68 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.93 0.00 0.00 0.00 0.00 6.49 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG31650,I_chr2L_5042885_5042960,I_chr2L_5042888_5042983,I_chr2L_5042891_5042964,I_chr2L_5042891_5043016,RI_chr2L_5042935_5042983,I_chr2L_5043017_5043077 chr2L - chr2L_5042888_5042983;chr2L_5042891_5042983 chr2L_5042935_5042983 chr2L_5042984_5043016;chr2L_5042835_5042887 0.00 NA NA 0.00 NA NA 0.00 0.00 0.00 NA NA 5.88 NA NA 0.00 0.00 NA NA 0.00 0.00 NA NA NA NA NA 25.00 NA 0.00 22.22 NA 11.11 0.00 0.00 9.09 NA 12.50 NA NA NA 0.00 20.00 12.50 NA NA NA 0.00 NA 0.00 7.14 NA 11.11 NA NA NA 0.00 NA NA 0.00 K intron_retention BicD,Aac11,I_chr2L_17475843_17475910 chr2L - chr2L_17475523_17475587 chr2L_17475522_17475523;chr2L_17475587_17475588 chr2L_17475408_17475522;chr2L_17475588_17475615 97.40 100.00 95.00 91.87 100.00 100.00 97.62 97.83 97.56 97.47 100.00 95.49 96.61 93.44 97.06 97.20 94.00 98.18 98.72 96.83 100.00 93.86 96.84 96.88 98.31 100.00 98.65 96.40 99.00 99.13 100.00 96.41 95.43 96.43 94.94 100.00 97.62 97.30 98.63 93.55 97.40 97.81 100.00 96.91 94.19 94.79 95.96 97.28 96.92 96.97 98.88 98.18 97.75 98.81 98.65 98.91 95.18 95.99 K multi_cassette Nos,I_chr2L_10826086_10826539 chr2L - chr2L_10817145_10822967 chr2L_10817145_10818391;chr2L_10818567_10822106;chr2L_10822247_10822967 chr2L_10818392_10818566;chr2L_10822107_10822246 chr2L_10816983_10817144;chr2L_10822968_10823002 75.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA 20.00 75.00 60.00 NA NA NA NA 57.14 NA NA NA 75.00 NA NA NA 75.00 75.00 60.00 NA NA NA NA NA NA NA 66.67 NA NA NA 100.00 NA NA NA NA NA NA NA K intron_retention CG10908 chr2L + chr2L_1974142_1974204 chr2L_1974141_1974142;chr2L_1974204_1974205 chr2L_1974107_1974141;chr2L_1974205_1974480 100.00 98.95 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.64 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.39 98.33 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.11 98.36 100.00 100.00 100.00 99.03 100.00 100.00 98.86 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Atg1,I_chr3L_12790957_12792478 chr3L - chr3L_12780637_12780696 chr3L_12780636_12780637;chr3L_12780696_12780697 chr3L_12780487_12780636;chr3L_12780697_12780833 43.84 53.12 35.48 56.76 45.45 34.78 57.78 51.22 49.18 48.48 62.96 53.33 33.33 47.62 37.50 47.06 33.33 48.15 34.78 60.71 61.54 56.76 43.84 50.98 52.17 66.67 30.91 32.61 69.39 43.59 46.43 46.67 26.47 46.88 33.33 42.86 50.00 43.10 31.15 39.06 42.86 40.62 39.13 40.00 38.46 48.00 41.18 36.84 42.86 44.44 40.35 36.11 50.00 45.16 37.04 50.00 41.38 23.08 K intron_retention eIF2B-alpha chr3R - chr3R_25760804_25760858 chr3R_25760803_25760804;chr3R_25760858_25760859 chr3R_25760533_25760803;chr3R_25760859_25761013 0.00 0.00 0.00 7.14 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.38 0.00 3.64 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N intron_retention CG31216 chr3R + chr3R_15521353_15522273 chr3R_15521352_15521353;chr3R_15522273_15522274 chr3R_15521306_15521352;chr3R_15522274_15522378 41.52 NA NA NA NA NA NA NA NA NA NA 33.33 NA NA NA NA NA NA NA 46.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA 36.36 NA NA NA NA NA NA NA NA NA N jcn_only_AA Rab2,I_chr2R_2584435_2585553 chr2R + chr2R_2585891_2585965 chr2R_2585891_2585950 chr2R_2585554_2585890;chr2R_2585966_2586134 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 91.40 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Sap47,I_chr3R_11761076_11761674,I_chr3R_11761436_11761674,F_chr3R_11761635_11761698,E_chr3R_11761635_11761703 chr3R + chr3R_11761307_11761674 chr3R_11761306_11761307;chr3R_11761674_11761675 chr3R_11761299_11761306;chr3R_11761675_11761774 77.78 85.71 65.38 85.71 76.19 78.26 62.79 91.94 76.39 90.00 45.00 80.70 58.62 88.00 75.76 79.66 81.08 67.86 76.92 76.00 53.33 97.78 77.78 76.00 77.78 66.67 70.00 75.00 91.30 90.62 72.92 76.19 95.83 81.36 63.64 88.24 82.61 70.00 77.78 77.50 54.17 76.67 82.14 74.07 64.00 81.82 88.00 78.12 77.42 68.00 77.14 88.89 79.17 82.35 81.40 94.12 90.91 73.91 K jcn_only_AD how chr3R + chr3R_17867954_17868628 chr3R_17868078_17868628 chr3R_17868629_17869101;chr3R_17867942_17867953 100.00 NA NA 100.00 NA 100.00 100.00 100.00 100.00 NA NA 97.67 NA 100.00 100.00 100.00 NA NA 97.56 97.92 NA 100.00 100.00 NA NA NA NA NA 100.00 NA 100.00 NA NA 100.00 NA NA NA NA NA 100.00 100.00 100.00 100.00 NA NA 100.00 NA 100.00 98.18 NA NA NA NA NA 100.00 NA NA 100.00 K alternative_donor CG30492,C_chr2R_3522706_3523025,RI_chr2R_3536203_3536977,I_chr2R_3543397_3543455 chr2R + chr2R_3516481_3517681 chr2R_3516618_3517681 chr2R_3517682_3517750;chr2R_3516480_3516480 100.00 100.00 100.00 100.00 90.91 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 91.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG7029 chr3R + chr3R_18618322_18618379 chr3R_18618321_18618322;chr3R_18618379_18618380 chr3R_18618112_18618321;chr3R_18618380_18618847 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.74 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor CG9526,I_chr2L_6457114_6457365,I_chr2L_6457278_6457337 chr2L + chr2L_6457114_6457337 chr2L_6457278_6457337 chr2L_6457338_6457437;chr2L_6457014_6457113 0.00 0.00 0.00 0.00 0.00 0.00 3.45 0.00 1.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.55 1.52 4.17 0.00 0.00 0.00 2.56 3.80 0.00 3.39 1.82 0.00 1.54 0.00 2.13 0.00 2.70 0.00 2.41 1.69 0.00 0.00 0.00 0.00 0.00 3.23 0.00 0.00 2.38 0.00 0.00 NA 0.00 0.00 0.00 2.56 0.00 K jcn_only_AA CG1021,I_chr3R_2217711_2231099,I_chr3R_2217711_2231390,RI_chr3R_2217711_2231463,I_chr3R_2217742_2218601,I_chr3R_2217742_2219453,I_chr3R_2218465_2231390,RI_chr3R_2218465_2231463,I_chr3R_2218682_2231463,I_chr3R_2219634_2231390,I_chr3R_2231383_2231463 chr3R - chr3R_2217742_2218601;chr3R_2217711_2218601 chr3R_2218465_2218601 chr3R_2218602_2218681;chr3R_2217642_2217710 12.50 9.52 21.74 22.58 NA NA NA 18.52 15.79 NA NA 15.38 24.00 NA 3.57 9.52 NA NA NA 0.00 7.41 10.26 4.88 10.00 14.71 18.18 25.93 25.71 NA NA NA NA 13.89 19.15 NA 14.81 12.12 11.43 9.62 16.36 NA 12.50 NA 18.92 NA NA 9.09 NA 19.44 11.11 10.53 12.50 0.00 NA 15.38 19.05 1.69 4.35 K intron_retention Csk,I_chr3R_7463337_7463512,I_chr3R_7468917_7472437,I_chr3R_7468917_7472509,I_chr3R_7468928_7472509 chr3R - chr3R_7468928_7472509 chr3R_7468927_7468928;chr3R_7472509_7472510 chr3R_7468892_7468927;chr3R_7472510_7472537 73.40 75.00 88.89 74.07 63.64 66.67 82.35 81.25 63.64 NA 50.00 65.38 72.73 66.67 75.00 79.41 77.78 NA 76.92 69.23 60.00 NA 68.75 91.67 63.64 75.00 78.26 NA NA 77.78 80.00 NA 72.73 66.67 36.36 70.00 46.15 NA NA 54.55 63.64 68.18 88.89 80.00 NA NA NA 76.92 80.65 NA 53.33 76.47 NA NA 75.00 NA NA NA K intron_retention Ucrh,CREFI_chr3LHet_606442_607073 chr3LHet + chr3LHet_606275_606349 chr3LHet_606274_606275;chr3LHet_606349_606350 chr3LHet_606198_606274;chr3LHet_606350_606441 3.12 4.35 2.82 2.97 0.00 4.05 1.89 5.42 3.27 8.70 1.61 2.70 2.97 2.44 2.11 4.60 1.64 4.55 2.40 4.81 0.00 0.00 9.09 7.69 13.04 6.06 18.52 NA 3.45 6.67 0.98 0.00 2.56 3.95 29.41 11.76 0.00 0.00 5.26 0.00 0.00 1.89 0.00 0.00 5.00 4.48 0.00 2.63 2.94 4.55 25.00 6.25 NA NA 1.98 8.89 6.25 4.17 K intron_retention CG8889 chr2R - chr2R_7914078_7914227 chr2R_7914077_7914078;chr2R_7914227_7914228 chr2R_7914036_7914077;chr2R_7914228_7914347 0.00 NA NA 0.00 NA NA 5.56 10.00 0.00 NA NA 0.00 NA NA NA 0.00 NA NA NA 10.00 NA 0.00 NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA 0.00 NA 0.00 NA NA NA NA 0.00 NA NA K intron_retention Tfb4,I_chr2L_1156009_1158078,I_chr2L_1153732_1157370,I_chr2L_1163632_1163759 chr2L - chr2L_1150070_1150130 chr2L_1150069_1150070;chr2L_1150130_1150131 chr2L_1149651_1150069;chr2L_1150131_1150326 0.00 0.00 0.00 3.39 0.00 0.00 0.00 1.69 2.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.74 2.41 0.00 3.03 7.89 2.82 6.12 9.52 3.64 0.00 0.00 0.00 0.00 0.00 4.55 0.00 0.00 1.32 1.23 5.26 1.18 0.00 0.00 0.00 0.00 0.00 3.39 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.33 K intron_retention dpr17 chr3R + chr3R_7936756_7936825 chr3R_7936755_7936756;chr3R_7936825_7936826 chr3R_7936554_7936755;chr3R_7936826_7937080 88.89 87.10 94.12 96.30 89.47 100.00 93.75 91.67 90.91 72.73 76.92 88.89 100.00 95.65 92.00 86.96 94.12 92.31 94.44 85.00 92.31 78.95 92.45 88.89 94.44 95.24 84.38 81.82 80.00 80.95 95.24 81.82 72.73 89.66 86.96 89.47 88.24 80.95 86.49 85.11 96.88 78.57 100.00 82.05 77.78 85.42 78.05 71.88 91.84 88.89 85.71 95.45 90.48 81.25 80.95 85.00 91.07 85.19 K cassette lap,I_chr3R_3017854_3019314 chr3R + chr3R_3022116_3024049 chr3R_3022116_3023291;chr3R_3023382_3024049 chr3R_3023292_3023381 chr3R_3022029_3022115;chr3R_3024050_3024362 83.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 83.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention Aldh-III,RE_chr2R_3355332_3355720,I_chr2R_3356541_3356614,RI_chr2R_3357578_3357636,I_chr2R_3361118_3361226,I_chr2R_3361349_3361499 chr2R - chr2R_3354822_3354987 chr2R_3354821_3354822;chr2R_3354987_3354988 chr2R_3354726_3354821;chr2R_3354988_3355138 8.70 5.92 8.51 14.13 8.05 10.11 12.99 7.45 8.70 6.98 8.89 7.56 10.00 7.79 9.71 9.32 6.74 12.50 9.30 10.29 8.96 25.58 8.75 7.73 11.11 19.70 9.46 11.90 12.50 10.11 6.74 8.54 10.26 8.59 5.94 20.24 6.33 4.83 6.19 8.57 12.31 9.57 6.94 5.08 9.80 9.09 6.22 12.07 7.69 8.55 7.32 4.44 6.67 6.25 10.75 6.74 6.25 11.94 K alternative_acceptor CG9286,Dip-B chr3R + chr3R_9606899_9606962 chr3R_9606899_9606959 chr3R_9606831_9606898;chr3R_9606963_9607027 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.65 100.00 100.00 100.00 100.00 100.00 NA 100.00 93.75 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.77 93.33 96.30 100.00 100.00 100.00 100.00 100.00 94.12 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.78 K jcn_only_AD CG7530,I_chr3R_10556352_10557136,eff chr3R - chr3R_10556352_10557105;chr3R_10556352_10557130;chr3R_10556352_10557126;chr3R_10556352_10557198 chr3R_10556352_10557148 chr3R_10556252_10556351;chr3R_10557199_10557231 1.23 0.00 0.00 4.88 0.98 1.39 0.00 1.19 0.00 0.00 0.00 1.36 1.28 1.16 3.88 1.67 0.00 1.75 3.06 2.44 1.27 NA 0.77 0.00 2.33 0.00 3.03 0.00 5.77 0.00 1.22 1.89 4.00 1.29 0.00 0.00 0.82 3.57 1.69 1.55 0.00 1.09 2.27 3.03 0.00 1.35 1.25 0.60 2.56 0.00 0.00 0.00 2.31 1.61 0.88 3.30 0.00 1.47 N cassette unc-13,I_chr4_897821_902468,RI_chr4_897821_903586,I_chr4_899619_903586,I_chr4_902576_903242,I_chr4_906518_917117,I_chr4_913576_919018,I_chr4_924098_927699,RI_chr4_928193_928245,I_chr4_928482_929704,I_chr4_929811_932812 chr4 - chr4_897821_903242;chr4_899619_903242;chr4_899619_903586;chr4_897821_903586 chr4_897821_902468,chr4_899619_902468;chr4_902576_903242,chr4_902576_903586 chr4_902469_902575 chr4_897721_897820;chr4_903587_903686 22.05 25.00 58.33 12.73 14.29 23.08 15.38 22.45 21.28 NA NA 19.61 62.50 28.57 22.22 34.62 30.77 50.00 36.84 16.67 NA 9.86 25.00 10.00 16.67 18.52 10.26 23.53 13.64 17.65 17.39 NA 29.41 28.95 25.00 7.14 20.00 NA 25.00 25.00 20.00 21.88 29.41 21.88 NA 14.29 NA 13.89 27.78 NA 13.64 27.27 NA NA 28.57 NA NA NA K intron_retention RpS15 chr2R - chr2R_12458511_12458693 chr2R_12458510_12458511;chr2R_12458693_12458694 chr2R_12458422_12458510;chr2R_12458694_12458716 0.04 0.00 0.04 0.02 0.00 0.00 0.28 0.06 0.04 0.12 0.04 0.07 0.04 0.10 0.07 0.00 0.00 0.00 0.07 0.04 0.04 0.00 0.00 0.09 0.67 0.32 0.65 0.46 0.00 0.00 0.69 0.00 0.00 0.05 0.00 0.00 0.08 0.00 0.00 0.00 1.14 0.05 0.00 0.28 0.00 0.00 0.00 0.00 0.04 0.00 0.76 0.38 0.00 0.00 0.09 0.00 0.10 0.00 K alternative_donor CG11986,I_chr3R_4841440_4841505 chr3R + chr3R_4841238_4841290 chr3R_4841242_4841290 chr3R_4841291_4841990;chr3R_4841168_4841237 100.00 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG32138 chr3L + chr3L_14062028_14063021 chr3L_14062027_14062028;chr3L_14063021_14063022 chr3L_14061908_14062027;chr3L_14063022_14063741 87.42 92.05 85.48 93.85 87.50 85.19 88.37 86.02 85.90 88.00 86.96 94.12 98.04 88.14 85.48 85.19 85.96 87.72 91.80 88.59 86.36 84.09 84.72 91.74 88.24 86.89 86.90 89.58 90.57 86.11 85.96 87.80 86.00 85.71 90.00 100.00 90.07 89.90 89.57 89.26 90.48 87.42 83.33 85.71 77.19 88.16 87.39 88.89 91.89 80.77 85.00 85.33 77.17 90.32 86.76 88.89 82.58 69.57 K intron_retention Lerp chr3R - chr3R_22669298_22669469 chr3R_22669297_22669298;chr3R_22669469_22669470 chr3R_22669167_22669297;chr3R_22669470_22669638 26.09 26.09 13.04 17.65 25.00 15.79 37.50 22.22 17.65 33.33 NA 16.00 NA NA 11.76 26.67 NA NA 14.29 26.32 NA 42.86 37.04 37.04 41.18 NA 35.00 NA 33.33 27.27 23.08 30.77 35.71 26.09 16.67 31.82 37.50 29.03 25.00 45.83 NA 14.81 NA 41.18 21.43 19.05 27.27 23.53 28.57 23.08 18.18 NA 29.41 22.73 22.22 19.23 22.73 36.84 K multi_cassette Vha100-1,I_chr3R_24958227_24960770,RI_chr3R_24959152_24959582,I_chr3R_24959804_24960770,CE_chr3R_24962426_24962797 chr3R + chr3R_24958227_24960770 chr3R_24958227_24959059;chr3R_24959152_24959582;chr3R_24959684_24960278;chr3R_24960321_24960770 chr3R_24959060_24959151;chr3R_24959583_24959683;chr3R_24960279_24960320 chr3R_24958127_24958226;chr3R_24960771_24960870 40.00 42.86 NA 55.56 NA 33.33 42.86 50.00 50.00 NA NA 94.74 NA 75.00 50.00 NA NA 50.00 NA 55.56 60.00 11.11 40.00 40.00 30.00 50.00 18.18 NA 20.00 NA 17.39 NA 25.00 42.86 33.33 50.00 26.67 28.57 35.71 14.29 28.57 41.67 NA 33.33 42.86 33.33 25.00 NA 55.56 30.00 30.77 25.00 NA NA 75.00 33.33 42.86 NA K intron_retention mthl10 chr3L - chr3L_335858_335928 chr3L_335857_335858;chr3L_335928_335929 chr3L_335245_335857;chr3L_335929_336682 0.00 0.00 0.00 3.37 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 1.59 0.00 0.00 0.76 0.00 0.00 1.10 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.83 0.00 0.00 2.94 0.00 0.00 1.08 0.00 0.00 0.00 K intron_retention I_chr3R_17177101_17200781,mod(mdg4),I_chr3R_17183481_17200781,F_chr3R_17187010_17200781,F_chr3R_17187861_17200781,F_chr3R_17192467_17200781,F_chr3R_17193961_17200781,F_chr3R_17194785_17200781,F_chr3R_17195968_17200781,RI_chr3R_17198778_17199052,RI_chr3R_17198803_17199019,RI_chr3R_17198803_17199052 chr3R - chr3R_17198803_17200781 chr3R_17198802_17198803;chr3R_17200781_17200782 chr3R_17198703_17198802;chr3R_17200782_17200881 9.09 9.09 0.00 10.34 5.56 NA 9.09 25.93 5.41 NA NA 17.24 11.76 12.50 13.33 9.09 0.00 10.53 22.73 10.20 NA 8.33 10.53 8.70 NA 7.41 10.00 25.00 0.00 7.69 NA 0.00 4.65 6.25 NA 18.75 16.13 5.56 9.52 7.32 5.88 22.22 6.67 NA 7.69 4.76 17.65 5.00 20.59 10.00 12.00 0.00 5.56 21.43 12.00 10.53 12.50 9.09 K intron_retention fw chrX - chrX_11889154_11889217 chrX_11889153_11889154;chrX_11889217_11889218 chrX_11889027_11889153;chrX_11889218_11889279 87.50 91.67 NA NA NA NA 72.73 88.89 75.00 66.67 NA 87.50 NA NA 88.89 69.23 NA NA NA 80.95 NA 25.00 72.73 80.00 NA NA 90.00 NA NA 85.71 100.00 76.92 95.00 100.00 88.89 63.64 70.83 88.24 76.92 68.18 70.00 76.92 NA 76.92 94.12 90.91 75.00 71.43 90.00 65.00 94.12 87.50 97.56 89.47 90.00 94.44 92.86 95.00 K intron_retention G9a,I_chrX_144264_144326,I_chrX_145325_145634,I_chrX_145570_145634 chrX + chrX_144272_144326 chrX_144271_144272;chrX_144326_144327 chrX_142428_144271;chrX_144327_144426 0.00 NA NA 7.69 NA NA NA NA 5.88 NA NA 0.00 NA NA NA 0.00 NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 4.76 NA NA NA NA NA NA NA NA NA K jcn_only_AD nudE chr3L + chr3L_9892456_9892825;chr3L_9892498_9892825 chr3L_9892375_9892825 chr3L_9892826_9893184;chr3L_9892344_9892374 1.02 NA NA 4.55 NA NA 4.35 NA 0.00 NA NA 0.00 NA NA NA 2.04 NA NA NA 6.06 NA NA NA NA NA NA NA NA NA NA 0.00 NA NA 0.00 NA NA NA NA NA 4.76 NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA K intron_retention Pk92B chr3R + chr3R_15711151_15711215 chr3R_15711150_15711151;chr3R_15711215_15711216 chr3R_15710878_15711150;chr3R_15711216_15711758 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.03 0.00 0.00 2.90 0.00 0.00 0.00 1.79 0.00 0.00 2.13 2.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.64 3.28 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.08 5.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor cul-2,RI_chr2L_21657668_21657832,noncoding_4226,I_chr2L_21661637_21661945,I_chr2L_21662021_21662083 chr2L + chr2L_21657777_21657832;chr2L_21657668_21657832 chr2L_21657742_21657832 chr2L_21657833_21657932;chr2L_21657659_21657667 14.14 15.38 18.18 35.56 26.67 20.83 9.78 20.45 20.97 12.12 16.00 18.33 26.32 28.00 18.18 22.67 15.00 20.00 17.65 24.32 22.22 4.58 7.14 11.63 8.62 22.86 10.00 6.00 7.53 5.88 29.41 21.05 6.59 22.95 8.93 14.14 12.50 9.38 8.51 6.58 4.46 16.36 31.58 2.35 6.25 9.68 12.50 12.94 18.64 10.81 11.54 11.11 20.00 11.11 26.67 14.00 11.32 20.45 K intron_retention pigeon chr2L + chr2L_19186656_19186718 chr2L_19186655_19186656;chr2L_19186718_19186719 chr2L_19186251_19186655;chr2L_19186719_19187017 21.05 29.41 26.67 31.82 15.38 22.22 NA 31.25 27.27 NA NA 21.43 33.33 30.77 30.00 23.08 NA 20.00 26.67 26.83 33.33 7.41 6.25 9.09 22.22 21.05 22.73 36.84 9.09 16.67 36.84 NA 10.71 21.88 21.74 6.25 20.00 19.35 12.20 18.92 0.00 25.71 0.00 NA 10.00 25.00 6.67 12.50 26.32 NA 16.13 12.50 14.29 9.52 21.43 13.33 NA 14.29 K jcn_only_AD smi35A,E_chr2L_14222082_14233578,E_chr2L_14222082_14233893,RI_chr2L_14233579_14233647 chr2L - chr2L_14222082_14229531 chr2L_14222082_14229458 chr2L_14222060_14222081;chr2L_14229532_14229536 85.91 NA NA NA NA NA NA 81.82 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 90.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention I_chr3R_17846331_17846423,CG6028 chr3R - chr3R_17850577_17850647 chr3R_17850576_17850577;chr3R_17850647_17850648 chr3R_17849871_17850576;chr3R_17850648_17850775 0.00 0.00 0.00 9.09 0.00 0.00 0.00 0.00 1.59 0.00 0.00 2.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.35 0.00 0.00 0.00 0.00 0.00 8.70 0.00 2.78 0.00 0.00 10.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.45 K mutually_exclusive CG2316,I_chr4_208796_210623,I_chr4_209150_214298,I_chr4_209369_210623,I_chr4_209875_210055,I_chr4_209875_210628,I_chr4_209875_213969,RI_chr4_209875_214450,I_chr4_210688_211303,RI_chr4_210688_211927,I_chr4_210688_213991,I_chr4_210688_214019,I_chr4_210688_214049,RI_chr4_210688_214450 chr4 - chr4_209150_210623,chr4_210688_214298 chr4_209150_209203,chr4_209875_214298 chr4_210624_210687 chr4_209204_209874 chr4_209051_209149;chr4_214299_214311 100.00 100.00 93.75 90.91 100.00 91.67 97.62 96.08 96.97 NA 100.00 96.88 100.00 100.00 100.00 96.97 100.00 90.91 100.00 100.00 66.67 100.00 94.44 100.00 100.00 90.00 100.00 100.00 100.00 85.71 92.31 100.00 NA 97.50 92.31 100.00 100.00 100.00 100.00 100.00 NA 96.55 100.00 85.71 NA 90.00 83.33 100.00 97.22 100.00 93.75 100.00 100.00 100.00 93.33 100.00 85.71 85.71 K jcn_only_AA CG7995,EF_chr3L_1739282_1743211 chr3L + chr3L_1738745_1743211 chr3L_1738745_1743207 chr3L_1738599_1738744;chr3L_1743212_1743311 100.00 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA 92.00 NA NA NA NA NA NA NA NA 100.00 NA 96.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 K alternative_acceptor CG40351 chr3LHet + chr3LHet_594526_594779;chr3LHet_594526_594765 chr3LHet_594526_594756 chr3LHet_594511_594525;chr3LHet_594780_595060 43.18 NA NA 50.00 NA NA NA NA 36.36 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD Dlic chrX + chrX_11048699_11049066 chrX_11048724_11049066 chrX_11049067_11049261;chrX_11048472_11048698 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.25 0.00 1.59 1.85 0.00 1.75 0.88 0.00 0.00 0.00 1.72 0.00 0.00 2.33 0.00 0.00 0.00 0.00 0.00 0.00 2.50 0.00 0.00 0.00 0.00 0.00 0.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.33 0.00 0.00 K intron_retention sd,noncoding_23930,RI_chrX_15706472_15707633,RI_chrX_15706568_15707633 chrX + chrX_15707636_15707768 chrX_15707635_15707636;chrX_15707768_15707769 chrX_15707634_15707635;chrX_15707769_15708328 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 94.44 100.00 100.00 90.91 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 93.33 100.00 93.75 NA 100.00 100.00 100.00 100.00 NA NA 100.00 94.74 92.31 100.00 100.00 NA NA 91.67 NA 95.00 95.83 NA 100.00 100.00 NA NA 100.00 NA NA 92.31 K cassette Gmap,I_chrX_15393496_15401194,I_chrX_15400854_15401194,I_chrX_15402291_15403750 chrX + chrX_15393496_15401194 chrX_15393496_15397618;chrX_15400495_15401194 chrX_15397619_15400494 chrX_15393449_15393495;chrX_15401195_15401294 99.22 96.83 98.21 100.00 97.73 100.00 97.50 98.81 100.00 98.51 100.00 99.01 97.87 100.00 100.00 100.00 100.00 100.00 100.00 99.22 100.00 98.89 97.92 100.00 100.00 100.00 97.33 100.00 98.33 98.53 100.00 98.15 100.00 100.00 97.96 97.10 100.00 98.88 100.00 99.06 98.31 99.13 97.78 100.00 98.53 98.70 100.00 100.00 99.08 100.00 98.11 100.00 98.72 100.00 98.51 100.00 98.92 100.00 K jcn_only_AA tacc,I_chr3R_570388_572101,I_chr3R_574271_574512 chr3R - chr3R_563503_565232;chr3R_563485_565232 chr3R_563461_565232 chr3R_565233_565290;chr3R_563195_563460 11.41 NA NA 0.00 NA NA 26.67 10.34 10.91 NA NA 13.64 NA NA 15.00 NA NA NA NA 25.00 NA NA NA NA NA NA NA NA NA NA 10.71 NA NA 22.58 NA NA NA NA NA NA NA 11.90 NA NA NA NA NA NA 9.76 NA NA NA NA NA 0.00 NA NA NA N intron_retention CG15099 chr2R - chr2R_14725051_14725138 chr2R_14725050_14725051;chr2R_14725138_14725139 chr2R_14724985_14725050;chr2R_14725139_14725207 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 37.25 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor bol,RI_chr3L_9117011_9118271 chr3L - chr3L_9117011_9118271;chr3L_9116901_9118271 chr3L_9116877_9118271 chr3L_9118272_9118272;chr3L_9116716_9116876 0.00 NA NA NA NA NA NA NA 0.00 NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 12.50 NA NA NA NA NA NA NA NA NA N jcn_only_AA nimC1,I_chr2L_13975880_13975977 chr2L - chr2L_13975880_13976476 chr2L_13976221_13976476 chr2L_13976477_13976753;chr2L_13975780_13975879 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA NA 0.00 NA NA NA NA 31.43 NA NA 0.00 NA NA 0.00 NA NA NA NA 0.00 0.00 NA NA NA NA NA 0.00 NA NA 0.00 NA NA 0.00 NA NA NA K alternative_acceptor CG11163,I_chr2R_1666219_1669711 chr2R - chr2R_1662576_1662764 chr2R_1662702_1662764 chr2R_1662765_1662934;chr2R_1662507_1662575 97.30 97.14 100.00 97.62 94.44 96.30 100.00 97.96 98.33 90.00 96.43 96.67 100.00 97.06 97.22 97.67 95.65 97.30 96.43 98.53 96.55 100.00 97.30 93.55 100.00 96.30 96.67 NA 85.71 100.00 97.44 93.75 100.00 97.73 88.00 90.00 96.88 96.43 100.00 100.00 90.91 98.18 95.45 100.00 100.00 96.55 96.77 100.00 98.25 91.89 100.00 100.00 100.00 100.00 100.00 96.97 98.11 95.24 K alternative_acceptor CG14982 chr3L + chr3L_3943295_3943355 chr3L_3943295_3943346 chr3L_3942936_3943294;chr3L_3943356_3944341 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD Zyx102EF,I_chr4_1080463_1081366,REF_chr4_1081261_1081452,F_chr4_1081280_1081398,F_chr4_1081280_1081452 chr4 - chr4_1078199_1078263 chr4_1078199_1078258 chr4_1078191_1078198;chr4_1078264_1078326 94.66 94.59 94.29 94.00 95.24 87.88 93.44 94.94 94.23 NA NA 91.07 95.65 90.62 94.87 98.15 100.00 96.77 90.70 92.65 NA NA 85.29 96.88 70.00 92.86 94.74 NA NA 100.00 93.22 96.77 NA 93.55 92.00 100.00 NA NA NA 92.86 95.83 88.06 93.02 89.66 95.83 95.45 95.00 NA 95.00 97.96 94.74 100.00 94.34 95.65 96.00 92.86 94.44 100.00 K intron_retention CG1674,F_chr4_258186_259747,R_chr4_261460_261560,I_chr4_263840_263891,I_chr4_264634_265805 chr4 + chr4_261460_263795 chr4_261459_261460;chr4_263795_263796 chr4_261360_261459;chr4_263796_263839 93.75 NA 90.00 NA NA NA 100.00 84.62 93.75 NA NA 93.75 42.86 100.00 87.50 100.00 NA NA 88.89 94.44 NA NA NA NA NA NA NA NA NA NA 88.89 NA NA 92.31 NA NA NA NA NA 100.00 NA 100.00 100.00 NA NA NA NA NA 100.00 NA NA NA NA NA 88.89 NA NA NA K jcn_only_AD M(2)21AB,I_chr2L_107839_110405,I_chr2L_107957_108587,I_chr2L_110878_111037,I_chr2L_112022_112689,RI_chr2L_132256_132482 chr2L + chr2L_108347_108587;chr2L_108227_108587;chr2L_108102_108587 chr2L_107839_108587 chr2L_108588_108687;chr2L_107833_107838 0.00 0.00 0.00 0.00 0.00 0.00 0.42 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.29 0.00 0.18 0.00 0.00 0.00 0.00 0.00 0.27 0.00 0.00 0.00 0.85 0.65 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.75 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD ytr,eIF6,RI_chr2R_19738391_19738783 chr2R - chr2R_19736323_19738093 chr2R_19736323_19738079 chr2R_19734681_19736322;chr2R_19738094_19738171 6.14 6.27 14.06 4.11 3.70 6.57 6.17 6.00 6.33 4.76 5.32 3.65 1.92 5.80 NA 12.07 3.23 4.84 10.96 5.45 6.14 6.98 3.74 6.31 5.92 4.35 4.69 6.85 6.16 10.04 8.79 6.13 6.85 5.59 7.89 5.19 4.40 5.63 6.25 6.89 4.56 5.57 5.94 6.99 5.71 6.17 6.63 10.00 4.05 6.54 8.66 6.28 6.15 5.81 5.80 6.83 7.69 9.00 N intron_retention Droj2,RI_chr3R_9207981_9208471,RI_chr3R_9208529_9209185 chr3R + chr3R_9207981_9209956 chr3R_9207980_9207981;chr3R_9209956_9209957 chr3R_9207926_9207980;chr3R_9209957_9210301 95.74 100.00 100.00 73.73 100.00 100.00 94.86 88.10 95.17 100.00 100.00 92.89 93.88 93.33 100.00 96.49 100.00 100.00 95.03 100.00 100.00 93.48 95.11 100.00 88.29 85.88 90.34 91.53 95.91 95.14 100.00 92.51 100.00 93.78 100.00 94.40 96.43 95.78 94.80 96.11 93.18 96.92 100.00 91.77 94.43 93.66 100.00 96.33 95.17 100.00 95.74 100.00 95.38 100.00 95.35 95.45 93.42 97.07 K jcn_only_AA CG3499,I_chr2R_18772777_18772819 chr2R - chr2R_18772185_18772242 chr2R_18772188_18772242 chr2R_18772243_18772316;chr2R_18771871_18772184 33.33 25.81 32.86 40.40 33.33 27.27 30.48 33.33 35.34 38.71 37.21 39.47 40.38 41.18 29.87 32.74 42.86 23.53 31.75 31.88 29.55 34.33 32.38 35.42 25.00 34.52 27.37 38.67 33.85 41.54 39.76 48.00 36.07 37.50 28.99 40.00 27.78 20.29 32.10 33.99 34.29 33.33 29.17 32.86 43.75 36.54 32.22 38.46 38.03 30.11 29.31 26.32 37.50 33.33 26.58 38.75 26.51 24.19 K intron_retention I_chr3R_25628402_25628511,ncd,I_chr3R_25632049_25632125,RI_chr3R_25658089_25658914 chr3R - chr3R_25632067_25632125 chr3R_25632066_25632067;chr3R_25632125_25632126 chr3R_25631983_25632066;chr3R_25632126_25632194 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.30 1.22 1.61 0.00 0.00 0.00 0.00 1.09 0.00 0.00 0.28 0.00 0.00 0.00 0.69 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor Dsp1,I_chrX_16231287_16231413 chrX + chrX_16227752_16228333;chrX_16228273_16228333;chrX_16227804_16228333;chrX_16227677_16228333 chrX_16227797_16228333 chrX_16228334_16228446;chrX_16227667_16227676 4.76 10.34 3.45 4.88 9.52 8.00 2.22 6.78 9.72 5.56 5.56 4.84 2.70 12.12 3.57 3.23 10.71 3.70 9.52 2.78 5.26 0.00 1.96 3.45 3.23 4.17 5.13 0.00 4.35 0.00 3.03 7.14 4.17 6.35 4.76 3.03 3.33 5.88 8.82 4.08 0.00 3.45 3.33 2.86 0.00 5.26 4.76 10.71 4.76 3.70 2.70 7.69 12.50 0.00 8.82 4.76 5.00 6.67 K intron_retention Lmpt,I_chr3L_16904980_16905228 chr3L + chr3L_16914467_16914536 chr3L_16914466_16914467;chr3L_16914536_16914537 chr3L_16914280_16914466;chr3L_16914537_16915289 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 8.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA K cassette Stat92E,RE_chr3R_16362268_16362911,att-ORFB chr3R - chr3R_16362268_16364942 chr3R_16362268_16362915;chr3R_16363186_16364942 chr3R_16362916_16363185 chr3R_16362168_16362267;chr3R_16364943_16365057 100.00 100.00 100.00 97.71 100.00 100.00 99.59 99.71 99.50 100.00 100.00 99.65 99.53 99.43 100.00 99.42 100.00 100.00 99.55 100.00 99.11 95.89 99.49 99.33 100.00 99.30 100.00 100.00 95.12 100.00 99.59 98.78 100.00 99.70 100.00 98.96 100.00 100.00 99.12 98.97 98.81 100.00 100.00 100.00 100.00 99.18 100.00 100.00 99.74 99.28 100.00 100.00 100.00 100.00 100.00 100.00 99.47 100.00 N alternative_acceptor RpL13A,I_chr3R_1450243_1451235,EI_chr3R_1450853_1451054,snoRNA:Me28S-U2134b,snoRNA:Me28S-U2134a chr3R + chr3R_1450853_1451235;chr3R_1450853_1451054 chr3R_1450853_1451134 chr3R_1450753_1450852;chr3R_1451236_1451335 0.00 0.00 0.00 0.01 0.00 0.00 0.18 0.01 0.01 0.00 0.00 0.01 0.00 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.03 0.12 0.01 0.00 0.01 0.12 0.00 0.01 0.00 0.00 0.00 0.00 0.03 0.01 0.00 0.00 0.00 0.01 0.00 0.01 0.18 0.00 0.00 0.00 0.00 0.00 0.00 0.05 0.00 0.00 0.00 0.02 0.01 0.00 0.00 0.01 0.01 0.00 K intron_retention CG17333 chrX + chrX_10742279_10742397 chrX_10742278_10742279;chrX_10742397_10742398 chrX_10741803_10742278;chrX_10742398_10742485 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.67 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.14 0.00 0.00 0.00 0.00 0.00 0.00 3.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG12703 chrX + chrX_19652310_19652376 chrX_19652309_19652310;chrX_19652376_19652377 chrX_19652135_19652309;chrX_19652377_19653323 0.00 0.00 0.56 0.00 0.00 0.00 0.00 0.50 0.29 0.00 0.00 0.34 0.00 0.00 0.62 0.00 0.00 0.00 0.00 0.63 0.00 0.90 0.00 0.49 0.65 0.00 0.50 2.76 7.24 0.00 0.00 0.69 0.00 0.00 0.00 0.00 0.00 0.00 0.34 0.00 0.79 0.69 0.00 0.00 1.01 0.00 0.00 0.48 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG3964,I_chr2L_3864196_3864278 chr2L + chr2L_3866987_3867068 chr2L_3866986_3866987;chr2L_3867068_3867069 chr2L_3865978_3866986;chr2L_3867069_3867424 0.00 0.00 NA NA NA 0.00 NA 3.85 0.00 NA NA 0.00 NA NA NA NA NA 0.00 NA 0.00 NA 0.00 NA 0.00 NA NA 26.67 20.00 4.76 NA 5.56 0.00 0.00 0.00 NA NA 9.09 NA 0.00 0.00 14.29 0.00 NA NA 0.00 5.13 0.00 0.00 6.67 0.00 NA NA 0.00 0.00 NA 0.00 0.00 3.45 N multi_cassette Caki chr3R - chr3R_17613003_17615170 chr3R_17613003_17613507;chr3R_17613631_17613704;chr3R_17613825_17615170 chr3R_17613508_17613630;chr3R_17613705_17613824 chr3R_17612895_17613002;chr3R_17615171_17615309 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.47 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention gce chrX + chrX_15211516_15211580 chrX_15211515_15211516;chrX_15211580_15211581 chrX_15211376_15211515;chrX_15211581_15211595 20.78 NA NA NA NA NA 10.81 55.56 NA NA NA NA NA NA NA NA NA NA NA 27.27 NA NA NA NA NA NA 41.67 NA NA NA NA NA NA NA NA NA NA NA NA 14.29 NA NA NA NA NA NA NA 12.50 NA NA NA NA NA NA NA NA NA NA K alternative_donor plexA,RI_chr4_1036247_1047588,RI_chr4_1040642_1047395,RI_chr4_1044307_1046841,RF_chr4_1044307_1047399 chr4 - chr4_1044307_1047395;chr4_1044307_1047399 chr4_1044307_1047588 chr4_1044207_1044306;chr4_1047589_1047625 50.00 50.00 50.00 46.67 NA 57.14 40.00 42.31 44.83 NA NA 59.26 46.67 35.71 NA 58.54 60.00 NA 46.15 52.94 NA 87.50 41.67 NA 20.00 NA 50.00 NA 50.00 60.00 71.43 NA NA 23.53 40.00 70.00 NA NA NA 50.00 NA 26.67 42.86 69.23 NA NA NA 70.00 45.00 NA 69.23 33.33 NA NA 33.33 NA NA NA K alternative_acceptor EDTP chr2R - chr2R_13320630_13320695 chr2R_13320636_13320695 chr2R_13320696_13320839;chr2R_13320279_13320629 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 NA NA 90.00 94.12 NA 100.00 94.74 100.00 100.00 NA 100.00 NA 100.00 100.00 NA NA NA 100.00 NA 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 90.91 100.00 100.00 NA 100.00 100.00 91.67 100.00 100.00 87.50 100.00 100.00 100.00 NA K alternative_acceptor CG10038 chr3R - chr3R_8176185_8176265 chr3R_8176188_8176265 chr3R_8176266_8176360;chr3R_8176096_8176184 87.62 88.89 NA 85.71 NA NA 100.00 91.67 86.36 NA NA 90.00 NA 90.91 NA 88.89 NA NA NA 75.00 NA NA NA NA NA 100.00 NA NA NA NA NA NA NA 80.00 NA NA NA NA NA NA NA 81.25 90.00 NA NA NA NA NA 83.33 66.67 76.92 NA NA NA 100.00 NA 85.71 NA K alternative_acceptor how chr3R + chr3R_17900667_17903085 chr3R_17900667_17903005 chr3R_17900174_17900666;chr3R_17903086_17903573 96.97 100.00 96.67 97.83 100.00 93.55 97.06 98.11 98.51 85.71 100.00 97.73 100.00 96.00 100.00 97.06 100.00 95.24 96.67 94.12 90.48 98.04 100.00 96.88 95.00 87.50 97.06 96.00 100.00 96.97 100.00 100.00 97.37 95.56 92.00 90.62 100.00 100.00 92.11 98.33 100.00 95.24 100.00 100.00 90.91 94.29 96.97 97.30 97.96 85.71 93.94 100.00 91.67 96.55 96.67 95.65 96.67 94.44 K alternative_donor Tfb1 chr2R + chr2R_10250584_10250749 chr2R_10250627_10250749 chr2R_10250750_10251018;chr2R_10250565_10250583 10.12 NA NA 9.52 NA 12.50 NA 7.69 7.14 NA NA 11.76 NA NA 7.14 NA NA NA NA 5.00 7.69 NA NA NA NA NA NA NA NA NA NA NA 54.55 5.56 NA NA NA NA NA 33.33 NA 10.71 NA NA 14.29 NA NA 50.00 4.35 NA NA NA NA NA NA NA NA 33.33 K jcn_only_AD CG5482,I_chr2R_14519136_14519239 chr2R - chr2R_14519136_14519367;chr2R_14519136_14519254 chr2R_14519136_14519239 chr2R_14519036_14519135;chr2R_14519368_14519403 0.00 2.70 0.00 0.00 3.70 2.33 1.75 1.19 2.67 NA 0.00 1.39 3.33 0.00 0.00 4.17 0.00 0.00 2.33 0.93 0.00 0.00 0.00 0.00 0.00 0.00 2.04 NA 3.57 0.00 1.69 0.00 NA 0.00 2.70 0.00 0.00 2.70 0.00 0.00 NA 1.19 0.00 0.00 3.03 0.00 0.00 0.00 1.16 0.00 1.89 3.85 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG12077,F_chr3L_3318595_3318666,RI_chr3L_3318595_3318691 chr3L - chr3L_3318590_3318691 chr3L_3318595_3318691 chr3L_3318692_3318766;chr3L_3318495_3318589 0.00 NA 0.00 0.00 NA NA 0.00 0.00 0.00 NA NA 0.00 NA NA NA 0.00 NA NA NA 3.23 NA 0.00 2.86 0.00 0.00 NA 0.00 0.00 NA NA NA NA 0.00 0.00 0.00 0.00 0.00 0.00 4.00 0.00 NA 0.00 NA 0.00 NA 0.00 NA NA 0.00 0.00 5.26 NA NA NA NA 0.00 NA NA K jcn_only_AD CG9674,I_chr3L_16793055_16793171,I_chr3L_16793055_16793190,I_chr3L_16793055_16800660 chr3L - chr3L_16793055_16793196;chr3L_16793055_16793173 chr3L_16793055_16793200 chr3L_16792955_16793054;chr3L_16793201_16793268 96.15 NA NA 100.00 NA NA 94.74 90.62 89.80 NA 100.00 NA NA NA NA 100.00 NA NA 95.65 93.94 NA 95.45 100.00 NA NA NA NA 96.15 96.77 NA 93.55 NA 96.30 96.15 95.00 NA NA NA NA 95.45 NA 100.00 NA NA NA NA NA 96.67 96.30 NA NA NA NA NA NA NA NA NA K alternative_acceptor CG18213 chr3R - chr3R_12865398_12865459 chr3R_12865407_12865459 chr3R_12865460_12865528;chr3R_12865340_12865397 100.00 NA 91.67 95.45 NA NA 100.00 100.00 100.00 100.00 100.00 93.75 100.00 92.31 100.00 100.00 88.89 100.00 90.91 96.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 88.24 100.00 100.00 100.00 NA NA 95.45 100.00 100.00 100.00 90.00 100.00 100.00 NA 100.00 100.00 100.00 NA NA NA NA 94.74 100.00 100.00 90.91 NA NA 93.33 NA NA NA K intron_retention rho-4,CG1703 chrX + chrX_11498707_11498768 chrX_11498706_11498707;chrX_11498768_11498769 chrX_11498345_11498706;chrX_11498769_11499111 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.68 0.34 0.00 0.00 0.00 0.00 0.00 0.65 2.10 0.00 0.00 0.00 0.60 1.26 0.42 0.36 0.33 0.00 0.00 0.00 0.48 0.00 0.00 0.00 0.00 0.00 0.97 0.00 0.00 0.74 0.00 0.00 0.00 0.95 0.70 0.00 1.06 1.18 0.42 0.00 0.00 0.74 0.69 0.00 0.67 0.00 0.00 0.00 0.00 0.00 0.00 K cassette RpS12,I_chr3L_13016626_13017469 chr3L + chr3L_13016626_13017469 chr3L_13016626_13016831;chr3L_13016967_13017469 chr3L_13016832_13016966 chr3L_13016588_13016625;chr3L_13017470_13017569 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.98 100.00 99.96 100.00 100.00 100.00 100.00 100.00 100.00 99.84 100.00 99.95 100.00 100.00 100.00 100.00 99.97 99.99 100.00 100.00 99.98 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.98 100.00 100.00 99.98 100.00 100.00 K alternative_acceptor CG17508,RI_chr2R_1496995_1497120,chr2R_1497138_1497448.0 chr2R + chr2R_1496995_1497120;chr2R_1496995_1497637 chr2R_1496995_1497568 chr2R_1496895_1496994;chr2R_1497638_1497761 91.18 93.02 93.55 80.26 92.86 91.89 78.38 87.74 90.52 92.31 95.12 88.31 82.50 88.89 94.23 90.32 94.55 95.83 88.06 91.21 95.45 95.00 93.33 94.12 78.26 92.68 89.36 88.89 83.33 93.94 92.98 92.86 90.62 88.64 87.10 87.50 96.77 93.10 94.29 92.86 86.36 90.22 95.83 95.24 95.65 89.36 88.46 95.24 89.62 89.13 90.74 92.11 87.50 85.71 92.19 90.70 91.18 88.46 K jcn_only_AA tomosyn,I_chrX_12527065_12527950,I_chrX_12531219_12531470,I_chrX_12534873_12541731,I_chrX_12548772_12549203 chrX + chrX_12525847_12529764;chrX_12525847_12527950 chrX_12525847_12527945 chrX_12525686_12525846 12.50 NA 10.00 13.73 NA NA 6.98 8.89 9.59 NA 16.67 9.76 5.00 10.34 NA 10.00 NA 7.41 6.06 8.70 7.41 NA 16.67 NA 9.52 12.50 14.29 NA NA NA 13.04 NA 10.00 15.91 33.33 13.04 NA NA NA 12.50 NA 16.28 20.00 NA NA NA 16.00 NA 13.89 NA NA NA NA NA 16.13 NA NA NA K jcn_only_AA CG31150,Hmt-1 chr3R - chr3R_11674738_11674860 chr3R_11674750_11674860 chr3R_11674861_11675363;chr3R_11674622_11674737 2.04 2.60 1.98 3.96 1.48 2.96 2.67 2.88 0.88 4.79 2.42 2.02 1.52 2.23 1.26 0.47 1.84 1.76 3.19 2.04 2.42 1.46 2.40 1.82 1.60 3.17 1.44 2.78 1.61 1.30 1.11 2.80 2.66 1.53 2.12 2.17 1.09 2.53 1.44 2.29 3.12 2.24 1.76 1.31 0.83 2.88 2.40 1.31 1.83 2.29 2.65 4.12 2.77 2.57 0.87 0.70 0.52 1.54 K intron_retention FucTB chr2L - chr2L_9429590_9430022 chr2L_9429589_9429590;chr2L_9430022_9430023 chr2L_9429412_9429589;chr2L_9430023_9430429 20.00 NA NA NA NA NA NA 8.70 20.00 NA NA 15.38 NA NA NA 36.36 NA NA NA 13.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 23.53 NA NA NA 20.00 NA NA 23.08 NA NA NA NA NA NA NA NA NA K alternative_acceptor Pino,I_chr2L_1118700_1128128,RI_chr2L_1123440_1128128,RI_chr2L_1128073_1128128 chr2L - chr2L_1117517_1128128 chr2L_1128073_1128128 chr2L_1128129_1128228;chr2L_1117444_1117516 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA Pp1-87B chr3R - chr3R_8249909_8250332 chr3R_8250239_8250332 chr3R_8250333_8251639;chr3R_8249673_8249908 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.80 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.77 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.67 100.00 100.00 100.00 99.55 100.00 100.00 100.00 99.81 99.63 99.22 100.00 99.37 100.00 100.00 100.00 100.00 100.00 K intron_retention CG14785,CG14786,ns3 chrX - chrX_1349983_1350055 chrX_1349982_1349983;chrX_1350055_1350056 chrX_1349783_1349982;chrX_1350056_1350840 20.84 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 16.67 NA NA NA 25.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_acceptor CG8128,I_chrX_15591697_15591816 chrX + chrX_15591697_15592065;chrX_15591697_15592355 chrX_15591697_15591816 chrX_15591597_15591696;chrX_15592356_15592720 5.13 6.67 5.26 5.56 NA 6.25 4.35 3.33 11.11 0.00 14.29 13.79 12.50 5.56 4.76 3.12 0.00 9.52 5.88 6.25 0.00 8.33 3.45 8.33 15.00 5.00 3.33 6.25 4.76 0.00 4.76 4.35 3.23 7.41 0.00 4.55 12.00 7.69 7.69 4.44 11.11 2.70 6.25 9.52 11.11 2.50 7.14 4.35 2.94 9.09 4.88 4.55 6.67 6.67 4.76 3.70 3.12 3.23 K alternative_donor CG3164,I_chr2L_125267_126140,I_chr2L_125267_128799,RI_chr2L_126228_126309 chr2L - chr2L_126228_128799 chr2L_126228_126309 chr2L_126141_126227;chr2L_128800_128899 1.96 1.96 1.71 3.54 1.32 1.28 2.27 1.81 1.37 1.31 0.93 1.33 1.45 1.18 1.39 2.54 1.17 1.32 1.79 2.01 1.63 2.89 2.08 2.82 3.20 1.03 4.13 4.71 2.67 2.45 1.64 2.97 2.74 1.61 2.90 3.31 1.84 1.47 2.12 2.78 3.03 1.37 1.55 1.87 2.27 2.40 2.61 1.92 1.22 4.38 2.94 1.94 1.89 3.80 1.01 3.33 3.73 2.05 K alternative_acceptor CG8798,I_chr3L_19602800_19602865 chr3L - chr3L_19604308_19604424 chr3L_19604362_19604424 chr3L_19604425_19604680;chr3L_19603902_19604307 9.52 3.85 10.00 16.33 4.35 4.55 13.16 15.15 10.00 2.94 19.05 12.00 19.05 22.22 6.67 12.50 10.71 6.67 16.67 14.00 10.71 4.65 8.51 7.89 0.00 3.33 11.76 5.77 6.12 6.82 5.41 10.53 5.08 8.89 13.33 5.88 8.70 6.25 2.86 4.65 7.50 10.91 6.25 10.87 12.00 9.52 15.00 8.47 16.67 15.79 5.56 16.67 4.76 12.50 12.12 9.52 14.81 7.69 K jcn_only_AD Lar,I_chr2L_19644636_19644695,REI_chr2L_19702035_19702145 chr2L + chr2L_19702026_19714888 chr2L_19702035_19714888 chr2L_19714889_19714989;chr2L_19701935_19702025 100.00 100.00 NA 96.88 95.65 100.00 97.06 100.00 97.18 97.67 100.00 98.00 NA NA 95.45 100.00 NA NA NA 100.00 NA 100.00 98.04 93.55 97.50 100.00 100.00 100.00 100.00 94.29 96.00 NA 100.00 100.00 NA 96.55 100.00 100.00 100.00 100.00 NA 93.48 NA 100.00 NA NA NA 88.00 100.00 NA 97.14 100.00 NA NA 96.15 NA NA NA K intron_retention CG31033,RI_chr3R_25658089_25658914 chr3R - chr3R_25653880_25653947 chr3R_25653879_25653880;chr3R_25653947_25653948 chr3R_25653795_25653879;chr3R_25653948_25654248 0.00 0.00 0.00 4.00 0.00 0.00 1.43 0.00 1.83 0.00 0.00 0.00 3.57 0.00 0.00 0.00 0.00 0.00 0.00 2.60 2.63 0.00 0.00 1.43 0.00 0.00 4.29 0.00 0.00 0.00 0.00 2.00 3.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.45 3.23 2.70 0.00 0.00 0.00 4.35 0.99 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.45 0.00 0.00 K alternative_acceptor CG7834,I_chr3R_25628402_25628511,I_chr3R_25632049_25632125,RI_chr3R_25658089_25658914 chr3R - chr3R_25628382_25628511 chr3R_25628402_25628511 chr3R_25628512_25628565;chr3R_25628302_25628381 0.00 0.00 0.00 0.60 0.00 0.00 0.00 0.00 0.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.36 0.00 0.00 0.00 2.49 1.15 0.00 0.00 0.00 1.45 0.63 0.00 0.67 0.36 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.58 0.00 0.00 0.00 0.86 0.00 0.49 0.00 0.00 0.58 0.00 0.51 0.48 0.56 0.31 0.00 0.54 0.00 K intron_retention drk,RI_chr2R_9389255_9389317,I_chr2R_9389597_9389751,I_chr2R_9389597_9389907,I_chr2R_9389597_9389940,I_chr2R_9389597_9390151,I_chr2R_9389597_9390271,I_chr2R_9389714_9390195 chr2R - chr2R_9389597_9389940 chr2R_9389596_9389597;chr2R_9389940_9389941 chr2R_9389497_9389596;chr2R_9389941_9389954 100.00 94.74 95.45 100.00 100.00 100.00 100.00 97.87 98.25 93.33 94.44 97.67 95.65 100.00 96.55 95.74 94.44 100.00 97.14 97.73 100.00 100.00 100.00 96.77 100.00 95.45 100.00 100.00 100.00 100.00 96.15 100.00 97.96 100.00 95.83 100.00 100.00 100.00 94.44 96.00 96.00 100.00 100.00 100.00 100.00 95.83 96.67 100.00 96.67 100.00 96.88 95.65 100.00 100.00 96.97 100.00 100.00 100.00 K alternative_acceptor sda,I_chr3R_22742285_22742350,RI_chr3R_22750984_22752737 chr3R + chr3R_22769923_22769989 chr3R_22769923_22769968 chr3R_22769779_22769922;chr3R_22769990_22770999 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor Su(var)2-10,RI_chr2R_5006333_5006392 chr2R + chr2R_5006553_5008282;chr2R_5006553_5007804;chr2R_5006553_5008598 chr2R_5006553_5008568 chr2R_5006405_5006552;chr2R_5008599_5008637 1.61 2.27 2.38 2.50 3.03 3.03 1.52 2.44 1.20 0.00 0.00 0.00 2.70 3.57 2.33 2.00 3.45 3.57 2.56 0.98 3.23 0.00 1.28 0.00 0.00 5.26 1.72 0.00 0.00 0.00 6.45 1.96 1.47 1.67 0.00 1.69 0.00 0.00 0.00 1.06 1.75 1.35 2.94 0.00 0.00 1.69 0.00 1.47 1.43 1.75 1.61 0.00 2.33 0.00 2.08 1.85 1.79 1.35 K intron_retention CG14235,noncoding_24847,CG18809,noncoding_24848 chrX - chrX_19635199_19637988 chrX_19635198_19635199;chrX_19637988_19637989 chrX_19634765_19635198;chrX_19637989_19638057 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 NA NA 100.00 100.00 90.00 100.00 NA 100.00 NA 94.74 100.00 88.89 NA 100.00 87.50 NA 100.00 100.00 91.67 100.00 94.12 100.00 NA 100.00 91.67 NA 100.00 100.00 88.89 100.00 NA 90.00 95.24 95.00 90.91 100.00 100.00 100.00 100.00 NA 93.33 100.00 100.00 100.00 100.00 93.75 K intron_retention CG8080,REI_chr2R_4979159_4979234,I_chr2R_4979276_4979936 chr2R - chr2R_4977527_4977587 chr2R_4977526_4977527;chr2R_4977587_4977588 chr2R_4977279_4977526;chr2R_4977588_4977990 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.18 0.00 0.00 0.00 0.00 0.00 0.00 3.39 0.00 0.00 0.00 3.57 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.56 0.00 1.64 0.00 3.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA RN-tre chr2R - chr2R_9873550_9875877 chr2R_9873601_9875877 chr2R_9875878_9875942;chr2R_9873495_9873549 99.38 100.00 99.04 99.44 100.00 100.00 100.00 99.38 98.88 100.00 98.36 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.03 96.83 99.35 99.23 99.12 98.41 100.00 99.08 100.00 100.00 98.86 100.00 99.02 96.36 98.72 98.77 100.00 99.15 99.00 99.32 97.99 100.00 100.00 100.00 100.00 100.00 99.31 100.00 98.36 98.06 98.68 99.31 100.00 98.39 100.00 99.17 99.07 100.00 97.06 K intron_retention CoRest,RF_chrX_19418197_19422673,F_chrX_19421868_19422673 chrX + chrX_19421868_19422667 chrX_19421867_19421868;chrX_19422667_19422668 chrX_19421807_19421867;chrX_19422668_19422856 7.41 12.50 20.00 16.67 NA NA NA 0.00 5.88 NA NA 19.05 NA NA 7.14 5.88 NA NA NA 11.11 NA 21.43 5.88 9.52 NA NA 7.14 NA 13.33 NA NA NA 25.00 NA 11.76 12.00 7.41 NA 5.00 7.14 NA 12.00 NA NA NA 0.00 15.38 10.00 7.41 0.00 NA NA NA NA NA 6.25 0.00 0.00 N jcn_only_AA CG8108,EI_chr3L_9859462_9859590,chr3L_9859594_9859878.0 chr3L + chr3L_9859462_9860377;chr3L_9859462_9859590 chr3L_9859462_9860413 chr3L_9859414_9859461;chr3L_9860414_9860844 90.18 94.96 89.04 82.89 93.06 90.41 81.82 94.44 90.54 86.21 92.11 90.18 87.27 94.12 92.73 85.19 95.52 97.14 96.97 83.94 84.34 94.12 87.85 88.71 88.89 82.35 90.18 83.33 85.37 88.89 47.26 84.31 88.78 91.00 89.66 75.00 90.22 90.15 94.26 87.39 90.00 94.77 91.30 85.53 92.54 94.51 89.74 91.38 88.41 92.86 88.27 87.88 99.04 96.19 91.67 94.50 97.79 98.78 K alternative_acceptor Rbcn-3A chrX - chrX_6137848_6137905 chrX_6137866_6137905 chrX_6137906_6138157;chrX_6137623_6137847 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG2316,I_chr4_208796_210623,I_chr4_209150_214298,I_chr4_209369_210623,I_chr4_209875_213969,RI_chr4_209875_214450,I_chr4_210688_213991,RI_chr4_210688_214450 chr4 - chr4_205241_205298 chr4_205241_205295 chr4_205175_205240;chr4_205299_205344 97.05 92.63 97.85 97.46 98.31 96.23 96.55 96.73 97.84 100.00 96.15 96.95 98.85 96.30 95.74 97.58 98.02 97.37 95.86 94.48 98.51 97.14 98.31 100.00 97.50 96.72 96.63 100.00 NA 98.04 96.69 98.18 97.44 93.71 95.65 97.37 100.00 97.96 95.92 95.96 93.33 96.79 97.73 96.88 100.00 100.00 96.83 96.77 95.76 97.65 96.36 93.55 92.31 100.00 98.06 96.05 96.95 98.48 K cassette eIF-4B,I_chr2RHet_2912605_2917250 chr2RHet + chr2RHet_2912605_2917250 chr2RHet_2912605_2915424;chr2RHet_2915525_2917250 chr2RHet_2915425_2915524 chr2RHet_2912544_2912604;chr2RHet_2917251_2917256 100.00 100.00 100.00 95.95 100.00 100.00 96.67 97.96 97.14 NA NA 100.00 NA 100.00 100.00 98.11 94.44 100.00 96.43 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 87.50 100.00 97.96 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.43 97.62 100.00 100.00 95.65 100.00 100.00 100.00 100.00 100.00 95.65 100.00 96.97 100.00 96.67 96.15 100.00 100.00 K intron_retention CG16791 chr3R - chr3R_17147142_17147517 chr3R_17147141_17147142;chr3R_17147517_17147518 chr3R_17146944_17147141;chr3R_17147518_17147834 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.70 0.00 0.00 8.62 0.00 0.00 0.00 0.00 0.00 0.00 1.96 0.00 0.00 0.00 0.00 2.13 0.00 3.45 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention rut,I_chrX_14718760_14718821 chrX - chrX_14686462_14687506 chrX_14686461_14686462;chrX_14687506_14687507 chrX_14685281_14686461;chrX_14687507_14688185 88.89 70.00 NA 45.45 88.89 70.00 NA 66.67 100.00 NA NA 87.50 NA 90.91 90.91 NA 87.50 66.67 75.00 84.00 NA 57.14 75.00 91.67 NA NA 90.00 NA 61.54 93.75 90.00 88.89 82.35 91.67 100.00 NA 100.00 72.73 92.86 100.00 NA 85.71 NA 94.12 91.67 100.00 87.50 84.00 92.31 NA 91.67 NA NA 87.50 81.82 NA NA 100.00 N jcn_only_AA CG8839,I_chr2R_8229288_8231538 chr2R - chr2R_8227962_8228070 chr2R_8228010_8228070 chr2R_8228071_8228645;chr2R_8227126_8227961 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.65 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention g,I_chrX_13628772_13629563 chrX - chrX_13627475_13627528 chrX_13627474_13627475;chrX_13627528_13627529 chrX_13627345_13627474;chrX_13627529_13627669 0.00 0.00 2.70 3.17 0.00 0.00 0.00 0.00 3.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.06 0.00 0.00 2.99 0.00 0.00 0.00 0.00 0.00 13.79 2.63 2.94 0.00 0.00 1.64 0.00 14.29 2.70 0.00 0.00 0.00 5.56 0.00 0.00 0.00 0.00 3.45 0.00 0.00 3.57 0.00 0.00 2.00 0.00 0.00 0.00 0.00 3.23 5.26 K alternative_donor gw,RI_chr4_679135_679703,I_chr4_679135_680299,RI_chr4_679135_680693,I_chr4_679135_681047,I_chr4_679135_681671 chr4 - chr4_679135_680185;chr4_679135_680594;chr4_679135_680270;chr4_679135_680503 chr4_679135_680546 chr4_679035_679134;chr4_680595_680603 0.00 0.00 20.00 6.67 0.00 0.00 0.00 13.04 4.76 NA 0.00 14.29 28.57 11.11 20.00 10.53 0.00 25.00 0.00 18.18 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 14.29 NA 0.00 16.67 0.00 0.00 0.00 0.00 NA 0.00 NA 7.69 0.00 0.00 NA 0.00 NA 0.00 6.25 NA 0.00 0.00 NA NA 0.00 NA NA NA K jcn_only_AD cryptocephal,noncoding_4181,I_chr2L_21311307_21311752,RI_chr2L_21312044_21312124,I_chr2L_21312209_21314626 chr2L + chr2L_21311033_21311752;chr2L_21311532_21311752;chr2L_21311215_21311752 chr2L_21311307_21311752 chr2L_21311753_21311852;chr2L_21310948_21311032 0.34 0.38 0.25 0.24 0.79 0.30 0.28 0.04 0.19 0.00 0.42 0.34 0.10 0.36 0.12 0.99 0.14 0.17 0.32 0.00 0.69 0.28 0.70 0.00 0.49 0.18 0.38 0.36 2.74 0.50 0.51 0.78 0.95 0.25 0.46 0.91 0.73 0.32 0.30 1.32 0.51 0.19 0.24 1.45 1.36 0.80 0.32 1.05 0.17 0.49 0.34 1.18 0.00 0.00 0.17 1.57 0.00 0.38 N alternative_donor CG10353,I_chrX_11775936_11778830,I_chrX_11778617_11778830,RI_chrX_11780885_11780988 chrX - chrX_11775936_11777234;chrX_11775936_11776058;chrX_11775936_11777220;chrX_11775936_11776142 chrX_11775936_11777133 chrX_11775836_11775935;chrX_11777235_11777654 40.48 50.00 38.24 40.00 44.12 51.61 56.00 62.79 53.26 46.67 68.00 55.00 60.87 57.14 35.00 51.02 51.72 54.29 52.38 41.89 50.00 34.21 39.02 40.00 32.00 40.00 48.65 23.53 11.11 36.67 35.71 27.78 38.64 48.21 33.33 32.43 42.86 43.33 36.36 42.31 36.36 37.70 47.06 36.36 17.39 40.00 50.00 34.48 45.45 33.33 47.22 42.11 36.84 35.29 29.03 39.13 47.83 40.48 K intron_retention tra2,REFI_chr2R_10491644_10491701 chr2R - chr2R_10490795_10490852 chr2R_10490794_10490795;chr2R_10490852_10490853 chr2R_10490666_10490794;chr2R_10490853_10491006 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.43 1.75 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.88 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention yrt chr3R - chr3R_9255492_9255914 chr3R_9255491_9255492;chr3R_9255914_9255915 chr3R_9254589_9255491;chr3R_9255915_9256472 0.00 NA 5.88 9.09 NA 5.26 3.23 0.00 11.76 NA 5.00 12.00 NA 14.29 0.00 0.00 12.50 NA 0.00 5.71 0.00 11.11 3.57 0.00 NA 5.56 4.35 NA 0.00 NA 0.00 5.00 0.00 0.00 0.00 NA 9.09 0.00 0.00 4.44 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 11.76 3.85 0.00 NA 0.00 0.00 0.00 0.00 4.00 0.00 K jcn_only_AA Pak3 chr3R - chr3R_12272857_12276688 chr3R_12272880_12276688 chr3R_12276689_12277858;chr3R_12272468_12272856 0.00 0.79 0.00 0.49 0.00 0.85 0.00 0.00 0.00 1.28 0.00 0.45 0.00 0.00 0.00 0.65 1.22 0.93 0.00 0.40 0.87 0.00 0.00 0.61 0.00 0.00 2.21 0.00 0.69 1.00 0.00 0.83 0.32 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.47 0.88 0.00 0.00 0.56 0.00 0.37 0.47 0.00 0.51 0.00 0.00 0.00 0.63 0.93 0.00 0.54 K alternative_acceptor Lap1 chr2R + chr2R_10823524_10823631;chr2R_10823524_10823599 chr2R_10823524_10823596 chr2R_10823191_10823523;chr2R_10823632_10823803 85.71 100.00 87.50 89.47 NA 75.00 75.00 81.25 84.62 66.67 NA 80.00 100.00 100.00 100.00 84.62 NA 100.00 100.00 92.86 100.00 81.82 81.82 85.71 62.50 100.00 92.31 62.50 100.00 80.00 85.71 NA 91.67 87.50 66.67 81.82 85.71 71.43 72.73 88.89 NA 76.92 85.71 80.00 100.00 100.00 NA 93.33 78.57 NA 90.91 100.00 NA 80.00 100.00 NA NA 85.71 K intron_retention I_chr3R_25875159_25875219,CG34317,CG7950,noncoding_20085,F_chr3R_25908044_25945850 chr3R + chr3R_25882757_25882861 chr3R_25882756_25882757;chr3R_25882861_25882862 chr3R_25882665_25882756;chr3R_25882862_25882884 6.90 4.00 13.21 8.86 17.65 8.00 10.53 7.14 15.52 3.45 19.05 11.67 7.89 5.88 10.00 2.33 0.00 7.32 0.00 5.61 0.00 3.45 8.11 8.33 3.57 6.15 12.12 14.29 6.52 0.00 6.58 5.77 7.27 6.98 12.50 2.70 10.00 8.33 0.00 4.60 9.33 8.64 10.81 0.00 7.46 4.90 6.90 3.88 8.33 7.69 6.00 15.00 4.08 0.00 4.48 5.71 3.08 3.35 K intron_retention psq,RI_chr2R_6449696_6467831 chr2R + chr2R_6501376_6501447 chr2R_6501375_6501376;chr2R_6501447_6501448 chr2R_6501273_6501375;chr2R_6501448_6501631 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.57 0.00 0.00 2.14 0.00 1.15 0.00 0.00 0.00 0.00 0.00 0.48 0.00 4.14 0.64 1.05 0.00 2.27 2.06 0.00 7.69 0.00 0.00 0.00 0.52 0.74 0.00 0.00 0.00 0.00 0.00 1.30 1.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.75 K intron_retention CG31999,I_chr4_240711_240769,I_chr4_243657_244182 chr4 - chr4_239007_239071 chr4_239006_239007;chr4_239071_239072 chr4_238874_239006;chr4_239072_239137 0.00 0.00 0.00 6.67 0.00 0.00 0.00 2.65 1.10 0.00 0.00 1.30 4.11 2.86 2.38 1.57 1.79 0.00 3.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.28 0.00 0.00 0.00 0.00 0.00 0.00 1.22 1.49 5.56 4.44 0.00 0.00 0.00 0.00 1.32 5.17 4.65 0.00 1.80 0.00 0.00 1.62 0.00 1.80 0.00 1.41 1.41 0.00 1.41 2.42 0.00 N jcn_only_AD spir,I_chr2L_20334199_20334626,I_chr2L_20336550_20339058 chr2L + chr2L_20334731_20336286 chr2L_20334851_20336286 chr2L_20336287_20336404;chr2L_20334627_20334730 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.30 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG2519 chr3R - chr3R_1367559_1367613 chr3R_1367558_1367559;chr3R_1367613_1367614 chr3R_1367276_1367558;chr3R_1367614_1367924 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.09 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.72 0.00 0.00 1.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.35 0.00 0.00 0.00 0.00 0.00 0.00 4.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG5191,E_chr3R_16391739_16398166,CG5412 chr3R + chr3R_16392332_16396323 chr3R_16392331_16392332;chr3R_16396323_16396324 chr3R_16392151_16392331;chr3R_16396324_16396371 9.52 17.65 14.29 17.65 NA 0.00 13.04 NA 14.81 6.67 NA 4.35 NA 0.00 21.43 NA NA NA 12.50 6.25 NA 10.71 0.00 9.09 12.50 NA 21.05 4.00 NA 0.00 NA NA 10.53 5.56 NA NA 12.00 6.67 10.00 16.67 14.29 6.45 NA 10.00 NA 9.52 4.76 5.88 10.71 0.00 10.53 NA NA NA 0.00 6.67 4.35 NA K intron_retention CG16817 chr3R + chr3R_5503809_5504283 chr3R_5503808_5503809;chr3R_5504283_5504284 chr3R_5503640_5503808;chr3R_5504284_5504370 0.54 1.33 0.54 0.63 0.78 0.00 0.67 0.38 0.45 0.00 0.41 0.00 0.00 0.69 1.28 0.30 0.00 0.65 0.00 0.40 0.00 1.22 0.60 0.00 0.00 0.61 1.68 2.59 3.07 0.57 0.00 0.00 0.00 1.12 0.81 0.37 0.98 0.71 0.71 0.44 1.45 0.86 0.40 0.31 0.00 0.00 0.74 0.00 0.46 0.67 1.80 0.00 0.86 0.90 0.49 0.25 0.71 0.60 K alternative_donor del chr2L - chr2L_21146886_21146948 chr2L_21146886_21146939 chr2L_21145134_21146885;chr2L_21146949_21147823 39.58 39.13 41.67 52.94 47.37 36.36 45.71 39.58 40.00 27.27 33.33 43.59 34.62 45.00 36.36 36.54 43.75 31.25 41.38 33.96 21.05 36.84 40.62 29.17 26.32 38.10 37.84 33.33 19.05 52.17 45.00 38.46 33.33 50.00 42.86 68.18 33.33 47.37 44.00 42.86 40.00 48.84 43.75 43.75 35.71 39.13 47.06 47.06 36.73 25.00 37.50 26.09 50.00 66.67 44.44 33.33 38.10 53.33 K intron_retention CG5514,RI_chr3R_23768206_23768306,Gp93 chr3R + chr3R_23767856_23768309 chr3R_23767855_23767856;chr3R_23768309_23768310 chr3R_23765429_23767855;chr3R_23768310_23768406 16.67 14.29 10.00 18.60 16.67 18.92 13.16 16.95 10.13 10.53 10.34 21.54 19.23 24.24 14.71 16.22 15.00 15.38 7.89 11.25 25.00 30.00 8.89 19.61 13.16 23.08 17.02 32.00 20.93 25.00 23.26 26.00 12.50 20.00 22.50 25.81 10.87 17.86 16.67 15.79 15.52 12.68 18.52 20.59 19.48 16.18 9.21 24.00 22.58 13.79 14.75 27.27 10.00 18.57 11.90 18.75 9.64 10.53 K intron_retention CG11033,I_chr3R_4879198_4879257,I_chr3R_4882567_4883651 chr3R + chr3R_4878298_4879257 chr3R_4878297_4878298;chr3R_4879257_4879258 chr3R_4878279_4878297;chr3R_4879258_4879357 67.95 NA NA 90.91 NA NA 63.64 61.11 62.50 NA 54.55 73.33 NA NA 91.67 63.64 NA 69.23 63.64 80.95 NA 83.33 64.71 64.29 NA 64.29 66.67 63.64 78.57 66.67 100.00 NA 75.00 75.00 NA 70.00 64.71 63.64 NA 66.67 NA 70.59 NA 75.00 NA NA NA 81.25 47.62 60.00 77.78 81.82 NA NA 83.33 NA NA NA K intron_retention CG4880 chrX + chrX_16781444_16781655 chrX_16781443_16781444;chrX_16781655_16781656 chrX_16780828_16781443;chrX_16781656_16782762 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.82 0.00 5.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG31431 chr3R + chr3R_17696730_17697693 chr3R_17696729_17696730;chr3R_17697693_17697694 chr3R_17696406_17696729;chr3R_17697694_17697862 47.53 58.33 54.55 42.86 42.86 35.71 43.33 50.00 45.16 NA 33.33 58.62 60.00 40.00 56.25 50.00 40.00 41.18 40.00 45.95 NA NA 50.00 46.15 52.94 93.33 54.55 50.00 70.00 NA 47.06 NA 50.00 48.00 NA NA 38.46 NA 35.71 62.50 41.67 42.86 58.33 52.63 NA 42.86 58.33 46.67 55.56 NA 43.75 50.00 NA NA 52.00 45.45 NA 36.36 K alternative_donor for,I_chr2L_3627621_3631522 chr2L - chr2L_3627636_3631522;chr2L_3627636_3631804;chr2L_3627636_3631962 chr2L_3627636_3631976 chr2L_3626337_3627635;chr2L_3631977_3632151 0.00 NA NA 0.00 NA NA NA 0.00 0.00 NA NA 0.00 NA NA NA 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 NA NA 0.00 NA NA 0.00 0.00 NA 0.00 0.00 0.00 NA NA NA NA 0.00 NA 0.00 NA NA NA NA 0.00 0.00 0.00 0.00 0.00 NA NA NA NA NA NA NA K alternative_donor Pdp1,RI_chr3L_7809841_7810536,I_chr3L_7813130_7818683,I_chr3L_7831960_7846282 chr3L - chr3L_7810763_7811177 chr3L_7810763_7811168 chr3L_7810537_7810762;chr3L_7811178_7811323 75.61 72.00 93.75 87.88 78.12 66.67 75.00 84.44 72.60 84.38 88.46 83.33 94.74 71.88 63.16 83.33 80.00 74.07 78.12 82.28 80.95 66.67 81.25 74.29 74.19 81.25 66.67 74.07 63.16 65.00 72.55 63.16 75.61 81.25 78.57 72.41 75.93 76.00 73.81 74.47 52.94 77.59 82.76 74.42 66.67 80.00 76.47 72.41 78.95 82.61 72.73 76.47 66.67 77.78 85.29 71.43 70.83 70.00 K jcn_only_AD CG15618,RI_chrX_19759043_19759112 chrX - chrX_19759043_19759117 chrX_19759043_19759112 chrX_19758943_19759042;chrX_19759118_19759212 10.46 6.45 3.70 NA NA 9.38 4.76 8.11 13.33 13.64 18.18 0.00 13.64 NA 10.71 3.03 26.92 3.85 10.00 7.50 0.00 NA 2.78 7.32 NA 14.29 16.00 4.35 NA 30.00 38.46 4.00 11.29 13.64 8.00 24.00 8.77 12.82 12.50 11.76 NA 8.33 NA 34.62 17.24 6.90 12.00 15.38 10.20 10.00 13.89 NA 13.79 NA 8.33 NA 6.67 11.11 K intron_retention Ide,I_chr3L_20366301_20366354,I_chr3L_20368443_20368519 chr3L - chr3L_20367665_20367714 chr3L_20367664_20367665;chr3L_20367714_20367715 chr3L_20367462_20367664;chr3L_20367715_20367943 9.52 5.26 11.76 12.20 0.00 8.57 7.14 6.25 9.52 23.08 6.67 8.20 0.00 7.41 10.81 14.29 0.00 4.35 2.78 5.56 6.90 57.14 18.87 7.50 26.47 12.12 15.69 21.74 23.53 6.90 18.00 5.00 13.16 11.36 9.52 30.00 13.04 4.35 18.75 10.87 20.69 5.88 6.25 10.34 0.00 17.65 0.00 11.76 6.52 17.14 9.30 18.75 11.11 0.00 6.52 9.52 3.85 0.00 K jcn_only_AD uzip,I_chr2R_20916008_20916468 chr2R + chr2R_20899732_20900155;chr2R_20899685_20900155 chr2R_20899701_20900155 chr2R_20900156_20900229;chr2R_20899603_20899684 96.10 94.64 98.33 93.94 97.22 92.59 90.62 94.32 96.30 95.12 100.00 94.00 94.74 93.02 96.36 96.15 98.36 97.73 95.45 92.54 100.00 97.14 97.98 98.67 96.97 95.74 96.23 95.65 92.16 100.00 96.77 100.00 96.30 97.98 95.40 96.61 91.67 100.00 94.59 94.74 98.04 95.45 90.00 98.51 97.96 98.44 95.24 92.50 94.00 97.56 100.00 94.67 91.18 95.65 94.19 96.10 100.00 94.92 K alternative_acceptor CG31431 chr3R + chr3R_17696730_17697680;chr3R_17696730_17697703 chr3R_17696730_17697693 chr3R_17696406_17696729;chr3R_17697704_17697862 6.06 6.42 4.10 7.77 6.25 6.48 9.09 4.74 5.13 2.70 7.14 5.94 3.92 4.69 5.11 5.92 6.45 6.30 6.06 5.19 3.30 2.27 8.70 5.21 9.30 4.30 8.70 8.20 9.09 6.98 6.80 7.84 5.49 5.88 6.35 4.76 7.87 5.45 6.06 5.00 5.97 6.84 6.10 7.44 1.72 6.06 5.19 5.26 5.96 7.46 6.84 5.94 11.63 3.92 6.99 6.17 5.33 6.90 K intron_retention Su(var)3-9,I_chr3R_11088444_11088825 chr3R - chr3R_11085106_11085171 chr3R_11085105_11085106;chr3R_11085171_11085172 chr3R_11084232_11085105;chr3R_11085172_11085408 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.73 0.00 0.00 0.00 0.00 1.84 1.62 2.59 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.38 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD I_chr3L_18664773_18665233,GNBP2,I_chr3L_18667579_18667644 chr3L - chr3L_18668078_18668437;chr3L_18668078_18668318 chr3L_18668078_18668478 chr3L_18667645_18668077;chr3L_18668479_18668494 4.00 0.00 2.78 2.82 3.45 0.00 4.60 2.60 7.69 NA 10.34 8.22 9.68 2.86 4.35 4.35 2.50 4.76 4.76 9.57 3.03 4.00 2.50 10.00 17.39 3.23 2.86 NA NA NA 10.71 4.00 0.00 3.08 NA 0.00 15.00 NA 16.13 10.00 NA 5.48 10.81 0.00 9.09 3.85 17.14 0.00 6.25 12.12 3.57 4.00 NA NA 8.89 3.23 0.00 2.78 K intron_retention Mtor,I_chr2R_7747557_7747819 chr2R + chr2R_7747569_7747819 chr2R_7747568_7747569;chr2R_7747819_7747820 chr2R_7747435_7747568;chr2R_7747820_7747919 0.00 0.00 4.35 0.00 0.00 0.00 0.00 0.00 0.94 0.00 0.00 1.03 0.00 0.00 2.78 0.00 0.00 0.00 0.00 0.00 0.00 6.06 0.73 0.00 0.00 4.65 2.50 2.97 0.00 2.99 0.00 0.00 1.28 0.00 2.35 0.00 0.00 0.00 0.65 1.19 2.06 1.48 0.00 0.00 0.00 0.81 0.00 2.22 0.83 0.83 1.71 1.67 0.00 0.00 0.00 0.00 0.88 1.36 K multi_cassette Pfk,I_chr2R_5999081_6000140,E_chr2R_6001157_6001630 chr2R + chr2R_6000676_6002421 chr2R_6000676_6001047;chr2R_6001157_6001630;chr2R_6001740_6002421 chr2R_6001048_6001156;chr2R_6001631_6001739 chr2R_6000521_6000675;chr2R_6002422_6002610 10.00 NA NA NA NA NA NA NA NA 10.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 10.00 6.67 NA 11.11 NA NA NA NA NA NA 5.56 8.33 0.00 NA NA NA NA NA NA 10.00 NA NA NA NA 10.00 NA NA NA NA NA NA NA K jcn_only_AD CG31612,E_chr2L_21775447_21821182,CG11630 chr2L - chr2L_21775447_21795393 chr2L_21775447_21795245 chr2L_21775400_21775446;chr2L_21795394_21795445 100.00 NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA K intron_retention I_chr3L_17833072_17833135,CG5567,MED19 chr3L - chr3L_17837815_17837879 chr3L_17837814_17837815;chr3L_17837879_17837880 chr3L_17836777_17837814;chr3L_17837880_17837994 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.64 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.91 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.33 0.00 0.00 0.00 K cassette CG32521,I_chrX_21077138_21082106,I_chrX_21077612_21082713,EI_chrX_21080561_21082106,I_chrX_21080906_21082713,CREF_chrX_21082827_21152068,EF_chrX_21094675_21152068 chrX - chrX_21080906_21082713;chrX_21077612_21082713 chrX_21080906_21082106,chrX_21077612_21082106;chrX_21082302_21082713 chrX_21082107_21082301 chrX_21077512_21077611;chrX_21082714_21082813 100.00 99.78 100.00 100.00 100.00 100.00 100.00 99.59 99.84 99.70 99.29 100.00 100.00 99.49 100.00 100.00 100.00 100.00 100.00 99.85 100.00 99.37 100.00 100.00 100.00 100.00 99.72 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.68 99.85 100.00 99.84 100.00 100.00 100.00 99.43 99.77 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.62 100.00 99.86 100.00 K intron_retention wdb,I_chr3R_23394314_23406731,I_chr3R_23394314_23406794,I_chr3R_23394314_23407159,RI_chr3R_23394314_23407186,I_chr3R_23394314_23407412,I_chr3R_23394314_23407715,I_chr3R_23394314_23407721,RI_chr3R_23406048_23406731,RI_chr3R_23406048_23406794,I_chr3R_23406048_23406928,RI_chr3R_23406048_23407402 chr3R - chr3R_23394314_23407723 chr3R_23394313_23394314;chr3R_23407723_23407724 chr3R_23394214_23394313;chr3R_23407724_23407815 4.20 4.38 4.24 3.56 0.00 5.04 5.41 5.36 4.73 2.56 14.13 5.14 4.17 3.10 4.35 2.75 2.90 10.29 4.91 2.33 10.24 15.74 5.23 3.75 6.90 7.25 9.85 6.59 9.72 3.62 3.27 3.05 2.09 4.05 6.25 6.67 3.35 3.79 3.80 3.69 3.92 5.73 4.20 5.85 2.31 3.72 3.74 3.53 3.56 10.19 6.74 4.42 4.44 3.57 3.61 3.81 5.26 1.65 K jcn_only_AA Fmr1,I_chr3R_5930712_5930781,I_chr3R_5934794_5935245,I_chr3R_5934801_5935537 chr3R - chr3R_5930712_5930790 chr3R_5930733_5930790 chr3R_5930791_5930881;chr3R_5930612_5930711 98.64 98.94 98.64 98.49 98.43 99.33 100.00 99.39 99.43 96.67 98.71 97.64 98.31 99.41 98.19 98.76 97.22 98.68 99.07 99.28 99.54 100.00 98.28 97.55 97.30 97.33 98.69 96.63 97.22 98.01 98.11 97.94 99.38 99.01 97.86 98.09 99.64 98.31 98.91 98.92 100.00 98.57 99.38 99.45 98.66 96.55 97.42 98.04 98.33 99.30 99.15 98.44 100.00 98.55 98.80 96.00 97.58 99.49 K intron_retention CG5931 chr3L - chr3L_15955151_15955214 chr3L_15955150_15955151;chr3L_15955214_15955215 chr3L_15954976_15955150;chr3L_15955215_15958041 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.88 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG8177,E_chr3L_9756800_9772650,I_chr3L_9773534_9773635,I_chr3L_9774319_9774602 chr3L + chr3L_9756807_9757000 chr3L_9756806_9756807;chr3L_9757000_9757001 chr3L_9756676_9756806;chr3L_9757001_9757161 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.67 100.00 NA 100.00 100.00 95.65 100.00 100.00 97.96 100.00 100.00 100.00 98.21 100.00 100.00 100.00 100.00 100.00 96.15 100.00 100.00 96.88 100.00 96.30 100.00 97.30 100.00 100.00 100.00 NA 100.00 100.00 97.30 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 NA NA 100.00 K alternative_acceptor CG17598 chrX - chrX_21938828_21939091 chrX_21938831_21939091 chrX_21939092_21940557;chrX_21938690_21938827 96.00 100.00 100.00 96.30 94.44 93.33 100.00 97.44 95.00 92.59 100.00 95.35 86.96 100.00 92.31 95.83 94.12 95.45 94.12 98.18 94.74 100.00 96.55 97.14 96.00 100.00 93.33 85.19 96.77 96.77 95.00 94.59 96.08 96.30 96.15 100.00 100.00 96.55 93.18 95.65 93.02 89.19 88.24 93.55 100.00 98.11 100.00 93.88 92.11 96.00 97.14 100.00 95.65 96.88 100.00 97.78 95.35 91.67 K intron_retention RpL3,E_chr3R_7047964_7050565,I_chr3R_7048451_7049116,I_chr3R_7048452_7048540,I_chr3R_7048452_7049579,snoRNA:Me18S-A425,snoRNA:Psi28S-291,I_chr3R_7049970_7050189 chr3R + chr3R_7048452_7048540 chr3R_7048451_7048452;chr3R_7048540_7048541 chr3R_7048352_7048451;chr3R_7048541_7048564 98.33 100.00 100.00 97.62 100.00 100.00 100.00 100.00 98.51 100.00 100.00 98.00 100.00 100.00 100.00 94.12 100.00 94.44 100.00 98.57 100.00 70.83 100.00 97.62 100.00 95.65 98.15 95.56 94.44 94.44 90.91 90.00 96.67 97.44 100.00 97.30 97.87 100.00 97.56 100.00 100.00 98.33 100.00 96.15 97.22 97.30 96.43 100.00 98.46 97.78 97.50 100.00 96.15 95.65 96.97 100.00 97.62 100.00 K intron_retention mri,RI_chr3L_201061_201173,I_chr3L_212783_212843 chr3L + chr3L_201061_201173 chr3L_201060_201061;chr3L_201173_201174 chr3L_200990_201060;chr3L_201174_201273 66.67 NA 70.00 63.16 77.78 NA NA 70.00 76.92 NA NA NA NA NA 87.50 NA NA NA NA 63.64 NA 46.67 66.67 66.67 NA NA 90.00 72.73 NA NA 80.00 NA NA 70.00 NA NA 30.77 NA NA NA NA NA NA 60.00 NA 63.64 63.64 NA 73.33 63.64 50.00 NA NA NA NA NA 54.55 NA K intron_retention Edem1,I_chrX_1798310_1798525,I_chrX_1798315_1798577 chrX - chrX_1798310_1798525 chrX_1798309_1798310;chrX_1798525_1798526 chrX_1798215_1798309;chrX_1798526_1798625 92.86 NA NA 94.74 90.00 100.00 100.00 94.74 95.24 NA NA 92.86 90.00 100.00 100.00 100.00 88.89 NA 90.91 93.33 NA NA 92.86 90.91 NA 88.89 90.00 90.00 NA NA 100.00 NA 100.00 94.44 NA 90.00 NA NA 88.89 92.31 100.00 90.91 NA 100.00 100.00 100.00 92.31 84.62 92.31 NA 90.91 NA NA NA 92.86 87.50 87.50 NA K alternative_acceptor dre4,I_chr3L_1875590_1875651,F_chr3L_1877432_1877517 chr3L - chr3L_1875587_1875651 chr3L_1875590_1875651 chr3L_1875652_1875751;chr3L_1875490_1875586 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.80 0.51 0.00 0.00 0.00 1.69 1.16 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N jcn_only_AD MB8.chr3R.pasa.66,alpha-Est10,I_chr3R_3314337_3319450 chr3R - chr3R_3314337_3317062 chr3R_3314337_3314410 chr3R_3314237_3314336;chr3R_3317063_3317412 0.00 NA NA 50.00 NA NA NA 0.00 0.00 0.00 NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA 0.00 NA NA 0.00 NA 0.00 NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_acceptor e(y)3,I_chrX_19530503_19530884,I_chrX_19530503_19531405 chrX - chrX_19530473_19531650 chrX_19530503_19531650 chrX_19531651_19532371;chrX_19530403_19530472 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.15 100.00 97.44 100.00 100.00 100.00 100.00 100.00 95.00 95.24 100.00 95.24 97.37 100.00 97.22 100.00 100.00 100.00 100.00 100.00 100.00 96.00 100.00 100.00 100.00 95.45 96.55 98.53 93.94 100.00 98.11 100.00 95.65 100.00 96.88 100.00 100.00 100.00 97.30 97.30 100.00 100.00 100.00 100.00 100.00 100.00 94.44 100.00 100.00 K intron_retention CG3209,RI_chr2R_19957766_19960227 chr2R + chr2R_19959748_19960227 chr2R_19959747_19959748;chr2R_19960227_19960228 chr2R_19959680_19959747;chr2R_19960228_19960327 33.33 27.27 29.63 54.55 25.00 41.18 42.31 40.00 35.29 43.48 24.32 17.74 77.78 40.91 40.00 32.14 12.00 10.29 56.00 22.09 17.65 70.00 34.62 25.81 35.48 24.14 43.59 41.38 40.74 45.16 23.53 26.09 45.45 20.45 54.55 26.67 23.88 43.18 26.15 41.07 55.00 31.91 50.00 30.77 22.86 26.19 33.33 53.85 33.33 57.14 34.88 43.75 17.07 26.83 27.27 29.41 20.37 27.03 K alternative_acceptor CG11006,F_chr3L_12799159_12799339 chr3L + chr3L_12799438_12800192;chr3L_12799438_12799955;chr3L_12799438_12800078;chr3L_12799438_12799967 chr3L_12799438_12799952 chr3L_12799340_12799437;chr3L_12800193_12800930 0.00 NA NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA NA NA NA NA NA NA 0.00 NA 6.25 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 NA NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 NA NA 0.00 NA 0.00 K alternative_acceptor CG7203,cdc14,RI_chr2L_7806524_7806667 chr2L - chr2L_7803744_7804570;chr2L_7803044_7804570 chr2L_7803577_7804570 chr2L_7804571_7804915;chr2L_7802415_7803043 16.67 NA NA 33.33 NA NA NA NA 16.67 NA NA 40.00 NA NA 20.00 NA NA NA NA 40.00 NA 20.00 12.50 25.00 NA NA NA NA 16.67 NA NA NA 20.00 NA NA 28.57 7.69 11.11 16.67 NA NA 16.67 NA 16.67 14.29 33.33 NA 14.29 14.29 NA NA NA 9.09 NA NA 33.33 NA 33.33 K jcn_only_AD Tak1,I_chrX_20388150_20389255 chrX - chrX_20388150_20388725;chrX_20388150_20389255 chrX_20388150_20392250 chrX_20388050_20388149;chrX_20392251_20392299 57.76 61.78 56.64 65.45 57.02 61.05 56.11 65.41 54.78 57.28 56.64 64.47 57.61 53.85 55.05 50.88 56.73 49.69 57.76 62.00 66.67 54.23 57.32 66.67 54.81 54.72 63.58 48.94 62.77 63.83 58.52 63.92 64.13 57.80 60.19 55.56 67.36 65.06 62.71 62.30 62.89 58.10 67.62 56.64 73.97 52.56 47.78 54.17 63.72 54.35 45.20 51.52 53.12 60.20 53.64 63.87 48.05 65.57 K alternative_last_exon alpha-Spec,dlt chr3L - chr3L_1789102_1795198 chr3L_1793501_1795198 chr3L_1789017_1789101 chr3L_1789625_1793500 chr3L_1795199_1795295 18.69 25.58 22.22 10.87 27.50 27.03 9.68 13.48 16.03 23.08 18.92 14.41 12.50 13.24 33.33 12.23 17.31 30.23 13.64 17.35 23.53 16.85 16.82 22.73 10.34 15.00 25.86 38.18 12.73 17.14 14.71 29.03 26.92 14.85 13.64 6.06 31.37 37.50 35.42 19.79 12.73 19.23 16.07 17.57 42.86 22.06 26.53 14.78 18.69 17.14 19.10 16.13 28.00 45.00 18.33 26.19 36.36 25.00 K alternative_donor nes chr3L - chr3L_19253331_19253636;chr3L_19253331_19253609;chr3L_19253331_19253676;chr3L_19253331_19253648;chr3L_19253331_19253745;chr3L_19253331_19253764 chr3L_19253331_19253632 chr3L_19253215_19253330;chr3L_19253765_19253779 63.64 60.00 58.33 53.85 63.64 55.56 52.63 52.63 62.50 57.14 66.67 68.75 50.00 63.64 50.00 64.29 71.43 62.50 63.64 56.25 50.00 50.00 71.43 75.00 63.64 70.00 60.00 60.00 70.00 100.00 54.55 60.00 75.00 52.63 85.71 66.67 42.86 50.00 70.00 71.43 57.14 66.67 71.43 85.71 62.50 69.23 55.56 78.57 63.64 75.00 66.67 60.00 100.00 100.00 53.33 50.00 60.00 80.00 K alternative_acceptor aPKC,I_chr2R_10833552_10833654,RI_chr2R_10849347_10850391 chr2R - chr2R_10833552_10833654;chr2R_10832733_10833654 chr2R_10833596_10833654 chr2R_10833655_10833754;chr2R_10832714_10832732 95.65 94.44 95.00 95.74 87.50 93.33 97.96 98.00 94.83 80.00 90.91 95.24 95.65 96.43 94.12 94.55 94.74 88.24 96.30 97.14 93.33 100.00 94.29 92.00 100.00 92.31 95.24 90.00 95.65 100.00 95.83 85.71 96.43 96.00 96.00 96.00 100.00 100.00 92.86 97.62 92.59 94.74 86.36 96.15 88.24 97.44 100.00 92.86 97.78 96.30 96.97 100.00 92.31 100.00 95.45 100.00 100.00 95.12 K intron_retention CG1544 chr3R + chr3R_27025663_27026125 chr3R_27025662_27025663;chr3R_27026125_27026126 chr3R_27025464_27025662;chr3R_27026126_27026287 0.00 NA NA NA NA NA NA NA 5.00 NA NA NA NA NA 7.14 NA NA NA NA 0.00 0.00 NA 0.00 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 0.00 NA 0.00 NA NA NA 0.00 NA 0.00 0.00 NA 0.00 NA NA 0.00 0.00 NA NA NA K jcn_only_AD Shawn_Tyler,CG14216,Zw chrX + chrX_19558903_19558967 chrX_19558906_19558967 chrX_19558968_19559226;chrX_19558618_19558902 97.96 94.94 97.18 98.94 97.73 98.11 97.65 100.00 97.42 96.77 92.31 99.21 100.00 100.00 98.85 98.51 96.83 98.55 100.00 97.59 94.12 93.44 99.18 97.96 97.78 100.00 95.00 93.62 98.59 100.00 98.45 97.37 95.92 98.86 100.00 98.31 96.58 97.96 99.07 99.09 98.08 97.78 96.67 96.46 94.94 98.72 96.74 97.44 98.28 100.00 93.48 96.49 100.00 94.59 98.48 97.67 96.00 100.00 K intron_retention CG8929 chr2R + chr2R_16214899_16215831 chr2R_16214898_16214899;chr2R_16215831_16215832 chr2R_16214792_16214898;chr2R_16215832_16216526 16.91 14.81 17.14 15.91 15.79 15.38 17.65 19.51 18.75 NA 19.05 21.54 22.73 18.75 22.22 39.02 16.67 12.50 29.41 18.33 19.05 8.82 16.36 14.58 15.38 12.82 41.38 16.00 34.38 5.88 34.55 9.09 5.26 26.19 20.69 22.50 8.70 10.34 12.12 29.41 45.00 16.67 28.57 17.86 12.00 10.42 9.26 15.38 21.43 15.15 18.57 17.24 9.09 9.09 19.44 19.35 10.26 11.63 K intron_retention Hrb87F chr3R - chr3R_9484236_9484487 chr3R_9484235_9484236;chr3R_9484487_9484488 chr3R_9484184_9484235;chr3R_9484488_9484529 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.86 99.88 99.78 100.00 100.00 100.00 99.86 100.00 100.00 99.86 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Mlf,noncoding_7111,CEI_chr2R_11826763_11827279 chr2R - chr2R_11824832_11825183 chr2R_11824831_11824832;chr2R_11825183_11825184 chr2R_11824765_11824831;chr2R_11825184_11825384 28.57 34.21 31.25 7.14 26.67 18.18 72.22 42.31 28.05 22.22 22.73 36.07 52.63 39.13 37.93 31.71 41.38 56.25 34.62 28.21 30.00 23.88 23.81 35.42 24.00 7.41 28.57 35.42 33.33 21.21 28.57 28.57 10.87 30.23 32.00 20.93 21.74 31.82 32.20 34.04 17.65 40.00 36.84 26.83 14.29 24.39 22.22 23.08 29.82 20.93 29.27 35.71 23.33 33.33 27.03 24.32 24.07 7.41 N intron_retention Taf4,I_chr3L_16107821_16107893 chr3L + chr3L_16107821_16110644 chr3L_16107820_16107821;chr3L_16110644_16110645 chr3L_16107721_16107820;chr3L_16110645_16111208 100.00 NA NA NA NA NA NA NA 100.00 100.00 100.00 100.00 NA NA NA NA NA NA NA NA NA 58.62 100.00 NA NA NA NA NA 100.00 100.00 NA NA 100.00 NA NA NA 100.00 NA 100.00 100.00 NA 100.00 NA 100.00 NA 100.00 NA 100.00 NA NA NA NA NA NA NA NA NA 100.00 K intron_retention yuri,F_chr2L_15260838_15261717 chr2L - chr2L_15262627_15262969 chr2L_15262626_15262627;chr2L_15262969_15262970 chr2L_15262375_15262626;chr2L_15262970_15263128 0.87 2.44 1.41 1.82 0.00 1.77 0.00 1.92 2.50 0.00 0.00 3.11 7.87 2.56 1.75 3.25 0.00 0.68 1.82 2.15 1.79 1.42 2.48 0.62 0.00 0.00 1.68 0.00 0.00 0.67 3.20 1.37 0.60 2.72 2.26 0.00 1.54 0.00 0.00 1.89 0.00 1.48 3.03 0.52 0.00 0.47 2.40 0.00 1.56 0.00 1.20 0.00 0.00 0.87 0.00 0.00 0.00 0.00 K alternative_acceptor CG40042 chr2LHet - chr2LHet_168746_168843 chr2LHet_168796_168843 chr2LHet_168844_169120;chr2LHet_168463_168745 2.38 2.81 1.90 3.42 1.05 3.28 2.46 2.15 2.12 3.81 2.04 2.01 2.22 2.46 0.88 2.15 2.76 2.17 2.16 1.81 0.73 2.68 2.30 3.65 4.95 2.38 2.30 3.31 3.15 2.63 5.79 2.99 2.56 2.51 1.48 1.97 2.50 3.39 2.92 2.44 1.97 1.94 2.33 3.09 0.65 2.21 2.38 2.30 2.01 3.31 3.40 3.64 0.44 2.63 1.69 2.91 1.73 1.36 K alternative_acceptor I_chr2R_8626010_8636417,CG12488,I_chr2R_8637781_8637845 chr2R + chr2R_8637781_8637845 chr2R_8637781_8637842 chr2R_8637681_8637780;chr2R_8637846_8637945 92.86 89.29 86.21 93.33 94.74 89.66 90.91 93.10 94.29 94.44 86.96 90.00 94.74 94.44 96.55 94.12 92.86 81.82 94.74 95.65 94.12 100.00 83.78 97.30 83.33 92.59 91.18 96.00 96.00 93.75 92.86 86.96 90.70 89.19 91.67 81.48 91.30 93.55 94.23 98.15 93.55 93.75 85.71 86.96 83.72 92.11 95.65 91.67 88.37 92.86 91.67 85.00 93.10 96.67 93.55 96.67 88.89 92.31 N intron_retention Dscam,F_chr2R_3219886_3228832,F_chr2R_3226043_3235353,F_chr2R_3227948_3235353,F_chr2R_3228738_3235353,FI_chr2R_3229124_3235353,FI_chr2R_3236481_3242386,I_chr2R_3244812_3249222,FI_chr2R_3249373_3251385,FI_chr2R_3251554_3255892 chr2R - chr2R_3232857_3232989 chr2R_3232856_3232857;chr2R_3232989_3232990 chr2R_3232566_3232856;chr2R_3232990_3233013 100.00 NA NA 100.00 NA 100.00 NA 100.00 100.00 NA NA 52.17 NA NA NA NA NA NA NA 41.18 NA NA NA NA NA NA NA NA NA NA 100.00 NA NA 100.00 NA NA NA NA NA 100.00 NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA N jcn_only_AA RpS20 chr3R + chr3R_16647996_16648154 chr3R_16647996_16648139 chr3R_16647888_16647995;chr3R_16648155_16648294 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 93.60 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor CG14425,Sxl,CG14425_Sxl,CEF_chrX_6984538_6992033 chrX - chrX_6986156_6991977 chrX_6986204_6991977 chrX_6991978_6992086;chrX_6985708_6986155 100.00 NA NA 100.00 NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA 100.00 NA 100.00 100.00 NA NA NA NA NA NA NA 100.00 NA 100.00 100.00 NA NA NA NA NA 100.00 NA NA NA 100.00 NA NA NA 100.00 100.00 NA NA NA NA NA NA NA NA NA K intron_retention CG32373,CG12262 chr3L + chr3L_7713517_7713576 chr3L_7713516_7713517;chr3L_7713576_7713577 chr3L_7713160_7713516;chr3L_7713577_7714693 15.38 15.38 5.41 20.45 7.41 7.41 20.00 6.52 9.68 8.33 28.57 9.84 14.29 21.05 22.50 54.05 10.53 9.68 11.11 7.41 0.00 19.10 15.91 12.35 22.22 12.12 17.86 28.26 26.42 27.78 19.35 25.93 25.81 14.58 11.43 18.87 10.94 10.53 14.49 20.93 31.15 11.11 5.26 13.56 20.97 27.27 10.14 30.00 17.86 20.00 7.59 15.38 11.43 14.93 17.24 15.69 6.74 18.37 K alternative_acceptor CG11790,CG11791 chr3R + chr3R_20875669_20876344;chr3R_20875669_20876354 chr3R_20875669_20876902 chr3R_20875600_20875668;chr3R_20876903_20877278 19.23 26.47 10.00 21.88 25.81 10.71 17.31 12.28 15.00 44.44 7.69 12.28 29.73 6.90 10.53 11.76 6.45 32.43 16.28 12.31 4.00 10.87 23.08 21.62 8.33 8.82 11.11 23.08 22.86 18.18 9.76 25.00 17.50 10.34 19.35 12.50 29.27 24.00 21.21 27.85 28.57 14.29 12.00 25.93 35.56 24.14 28.57 37.74 8.47 32.00 25.58 19.23 46.88 12.90 19.15 30.77 35.42 53.52 K intron_retention sol chrX + chrX_21222794_21222886 chrX_21222793_21222794;chrX_21222886_21222887 chrX_21222781_21222793;chrX_21222887_21223512 83.33 75.00 90.00 87.50 88.89 100.00 88.89 95.00 73.08 NA 71.43 80.95 88.89 66.67 83.33 86.67 90.00 90.00 100.00 72.73 72.73 96.15 68.75 86.67 83.33 90.91 85.71 66.67 NA 84.62 75.00 NA 56.25 86.67 81.82 100.00 75.00 NA 90.00 77.78 NA 82.61 87.50 62.50 87.50 75.00 NA 57.14 83.33 NA 82.35 NA NA NA 64.71 NA NA 80.00 K alternative_donor CG13197,RI_chr2R_7580554_7581978 chr2R + chr2R_7580051_7581978 chr2R_7580554_7581978 chr2R_7581979_7582078;chr2R_7580004_7580050 6.67 NA NA 4.00 8.33 NA 5.00 4.76 3.45 NA 37.50 4.00 NA 7.69 0.00 3.70 NA 15.38 NA 3.33 18.18 9.09 11.11 10.00 6.67 5.88 11.11 18.18 23.08 NA 8.70 NA 8.33 4.55 NA 10.00 6.67 NA 5.00 4.76 0.00 4.76 10.00 6.67 NA 7.69 7.69 8.33 6.45 5.88 8.33 NA 8.33 NA 7.69 5.00 0.00 5.56 K intron_retention Iswi chr2R + chr2R_8524243_8524328 chr2R_8524242_8524243;chr2R_8524328_8524329 chr2R_8524226_8524242;chr2R_8524329_8524495 92.86 NA NA 93.33 NA NA 92.86 87.50 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 90.00 NA NA NA NA NA NA 92.31 NA NA NA NA NA NA NA NA NA K cassette CG42595,I_chr2RHet_3155517_3174709,RI_chr2RHet_3175044_3179353,RI_chr2RHet_3179300_3179586,I_chr2RHet_3179481_3179586 chr2RHet - chr2RHet_3175044_3179353 chr2RHet_3175044_3179091;chr2RHet_3179297_3179353 chr2RHet_3179092_3179296 chr2RHet_3174944_3175043;chr2RHet_3179354_3179453 100.00 100.00 100.00 100.00 95.00 96.88 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.88 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 93.75 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 93.75 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG4294 chr2R - chr2R_18488876_18489034 chr2R_18488875_18488876;chr2R_18489034_18489035 chr2R_18488842_18488875;chr2R_18489035_18489320 42.86 NA NA 31.25 NA NA 42.86 30.77 44.44 NA NA NA 54.55 NA NA 23.08 NA NA 45.45 33.33 NA NA NA NA NA NA NA NA NA NA NA NA NA 53.33 NA NA NA NA NA NA NA 43.75 NA NA NA NA NA NA 38.46 NA NA NA NA NA NA NA NA NA K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2387249_2389980 chrX_2387249_2388436;chrX_2388671_2389073;chrX_2389272_2389980 chrX_2388437_2388670;chrX_2389074_2389271 chrX_2387149_2387248;chrX_2389981_2390066 100.00 NA NA NA NA NA NA NA 100.00 NA NA 100.00 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA 100.00 NA 75.00 NA NA NA 75.00 NA NA NA NA NA NA NA NA NA NA K intron_retention CG42348,I_chr3L_20149990_20151579 chr3L - chr3L_20149099_20151579 chr3L_20149098_20149099;chr3L_20151579_20151580 chr3L_20149001_20149098;chr3L_20151580_20151679 1.87 0.00 5.26 7.14 0.00 0.00 4.44 2.00 1.79 0.00 6.67 1.15 0.00 2.63 7.69 3.12 0.00 12.90 0.00 1.25 4.65 6.12 3.61 3.61 8.00 2.33 2.27 NA 5.71 1.92 0.00 0.00 2.67 2.63 0.00 5.77 1.94 4.12 2.02 0.00 0.00 2.88 0.00 0.00 0.00 0.00 0.00 1.72 0.00 1.92 0.00 0.00 0.00 0.00 3.51 2.04 1.82 0.00 K alternative_acceptor RluA-2,I_chr2L_10480906_10481097 chr2L + chr2L_10481571_10481621;chr2L_10481571_10481646 chr2L_10481571_10481629 chr2L_10481509_10481570;chr2L_10481647_10481707 0.00 NA 0.00 10.00 NA 14.29 5.26 0.00 0.00 NA 0.00 0.00 0.00 0.00 7.14 0.00 0.00 0.00 0.00 7.41 12.50 0.00 7.14 0.00 0.00 15.38 0.00 NA 16.67 0.00 8.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 9.09 5.00 0.00 5.56 0.00 0.00 0.00 5.56 0.00 10.53 0.00 8.33 0.00 0.00 0.00 18.18 0.00 16.67 0.00 0.00 K jcn_only_AA nAcRbeta-21C chr2L + chr2L_545307_545370 chr2L_545307_545348 chr2L_545131_545306;chr2L_545371_545564 0.17 0.29 0.00 0.00 0.00 0.30 0.00 0.00 0.00 0.00 0.50 0.17 0.38 0.00 0.26 0.00 0.00 0.00 0.00 0.14 0.00 0.00 0.00 0.98 1.04 0.00 1.05 0.00 0.00 1.36 4.19 0.00 0.37 0.00 0.00 0.00 0.68 0.91 0.71 2.28 0.51 0.43 0.40 0.00 0.38 0.90 0.00 0.93 0.16 3.67 0.66 0.00 0.00 0.38 0.65 0.80 0.21 0.30 K intron_retention Mi-2 chr3L - chr3L_19881205_19881331 chr3L_19881204_19881205;chr3L_19881331_19881332 chr3L_19875754_19881204;chr3L_19881332_19881575 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.26 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG13384 chr2L + chr2L_8384517_8384699 chr2L_8384541_8384699 chr2L_8384700_8384895;chr2L_8384486_8384516 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA 100.00 K alternative_acceptor CG11337,I_chr3R_27230306_27230374,RI_chr3R_27230320_27230374 chr3R - chr3R_27230320_27230374;chr3R_27230306_27230374 chr3R_27230327_27230374 chr3R_27230375_27230410;chr3R_27230220_27230305 8.33 NA NA 8.33 NA NA 8.33 6.67 14.29 NA NA 10.00 NA NA NA 6.67 NA NA 11.11 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 16.67 NA NA 0.00 NA NA 12.50 NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA 9.09 NA NA NA K intron_retention CG32138 chr3L + chr3L_14062028_14062185 chr3L_14062027_14062028;chr3L_14062185_14062186 chr3L_14061908_14062027;chr3L_14062186_14062253 24.53 27.91 33.33 42.86 22.22 32.26 35.90 25.77 24.53 7.94 25.93 18.75 28.57 34.88 34.62 24.00 27.27 17.28 33.33 26.61 26.67 14.29 21.35 22.00 14.89 18.37 18.03 30.43 31.03 28.33 15.66 34.29 25.49 23.66 31.25 17.31 19.70 24.00 20.34 25.81 16.36 21.62 23.68 16.22 8.11 23.21 35.48 27.12 30.59 14.04 33.87 27.91 28.57 15.15 34.55 24.32 15.00 24.14 K jcn_only_AD eRF1,CG5618,I_chr3L_20346714_20347106,I_chr3L_20346738_20347058,I_chr3L_20348230_20348404 chr3L + chr3L_20341925_20342041;chr3L_20341636_20342041;chr3L_20341509_20342041;chr3L_20341865_20342041;chr3L_20341486_20342041;chr3L_20341522_20342041;chr3L_20341751_20342041;chr3L_20341629_20342041;chr3L_20341598_20342041;chr3L_20341759_20342041 chr3L_20341530_20342041 chr3L_20342042_20342306;chr3L_20341482_20341485 0.00 0.00 1.67 0.00 0.00 0.00 0.00 1.64 0.70 0.00 0.00 0.00 0.00 0.00 0.00 1.28 0.00 0.00 0.00 0.00 1.79 4.35 0.00 2.04 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.44 0.76 NA 0.00 0.00 0.00 0.00 1.69 0.00 1.29 0.00 0.00 0.00 0.00 0.00 0.00 0.70 2.13 0.00 2.50 3.33 NA 1.02 0.00 1.54 1.23 K intron_retention CG13585,I_chr2R_20419710_20419962,E_chr2R_20420167_20420418 chr2R + chr2R_20419258_20419962 chr2R_20419257_20419258;chr2R_20419962_20419963 chr2R_20419190_20419257;chr2R_20419963_20420062 14.04 8.70 0.00 12.00 NA 33.33 25.00 13.79 16.67 14.29 33.33 20.00 17.65 NA 15.00 16.00 NA 36.84 7.69 19.61 26.32 16.67 14.29 9.52 21.43 12.50 18.18 NA NA 5.26 13.33 0.00 NA 26.09 14.29 11.11 9.68 5.88 15.38 9.09 NA 17.95 6.67 0.00 13.33 8.11 12.50 7.69 22.50 12.50 17.65 25.00 13.79 12.50 21.05 15.38 10.00 3.45 K intron_retention CG17574,I_chr2R_8737398_8737465 chr2R - chr2R_8737402_8737465 chr2R_8737401_8737402;chr2R_8737465_8737466 chr2R_8736915_8737401;chr2R_8737466_8737543 0.00 0.00 0.00 0.00 0.00 0.00 0.53 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.44 1.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG1582,I_chrX_10792251_10792314 chrX - chrX_10793097_10793156 chrX_10793096_10793097;chrX_10793156_10793157 chrX_10792315_10793096;chrX_10793157_10793300 0.00 0.00 2.04 2.38 0.00 2.63 1.32 4.35 3.23 0.00 0.00 5.26 0.00 0.00 0.00 0.00 0.00 0.00 2.94 3.26 0.00 5.17 4.17 0.00 3.23 2.56 9.09 0.00 4.69 0.00 6.52 10.53 0.00 4.76 3.12 0.00 0.00 0.00 4.30 0.00 0.00 2.78 3.45 0.00 0.00 0.00 0.00 0.00 3.51 8.57 2.94 5.00 0.00 0.00 0.00 0.00 3.57 0.00 N intron_retention Gprk2 chr3R + chr3R_27259611_27259861 chr3R_27259610_27259611;chr3R_27259861_27259862 chr3R_27259181_27259610;chr3R_27259862_27259919 100.00 NA 100.00 100.00 NA NA 100.00 100.00 61.29 NA NA 72.73 100.00 100.00 100.00 100.00 100.00 NA 100.00 60.00 NA NA 100.00 100.00 100.00 NA 100.00 NA NA NA 66.67 NA NA 100.00 NA NA NA NA 100.00 100.00 NA 48.48 100.00 NA NA NA NA NA 64.52 NA 58.82 NA NA NA 50.00 NA NA NA K jcn_only_AA egr,I_chr2R_5970832_5970930,I_chr2R_5970999_5971058 chr2R + chr2R_5970832_5970930;chr2R_5970832_5970926 chr2R_5970832_5970908 chr2R_5970767_5970831;chr2R_5970931_5970998 78.19 75.17 78.37 82.93 76.49 74.67 82.88 80.78 78.28 75.00 74.20 77.16 80.31 78.97 77.55 82.12 75.21 80.08 80.18 79.27 78.19 75.57 77.86 76.54 80.16 81.37 71.38 82.70 77.05 79.07 80.19 80.28 79.52 80.43 78.22 69.84 73.01 76.50 76.36 75.91 83.40 77.25 76.76 80.37 75.56 78.36 77.61 79.17 81.69 73.07 76.83 77.98 75.48 75.64 82.86 79.21 76.63 78.72 K cassette CG7956 chr3R + chr3R_17350372_17351248 chr3R_17350372_17350806;chr3R_17351023_17351248 chr3R_17350807_17351022 chr3R_17350312_17350371;chr3R_17351249_17351485 8.57 8.57 6.25 4.12 6.45 4.11 4.90 4.84 7.84 4.88 9.62 7.69 3.70 5.63 6.32 7.95 7.94 10.77 8.33 7.10 5.26 1.61 7.23 10.00 13.51 9.80 7.55 10.00 18.75 7.46 16.39 12.77 12.79 8.76 13.46 13.64 8.57 9.26 12.90 8.55 10.53 8.00 7.94 11.29 12.50 9.76 7.27 14.74 6.45 11.76 9.76 10.00 16.00 9.09 6.49 10.20 7.14 10.20 K alternative_donor lig,CI_chr2R_3962006_3962916,RI_chr2R_3962875_3962977 chr2R + chr2R_3955872_3957375;chr2R_3955586_3957375;chr2R_3955788_3957375 chr2R_3955517_3957375 chr2R_3957376_3957784;chr2R_3955509_3955516 96.30 100.00 96.55 96.30 98.25 100.00 96.00 98.53 98.62 87.50 100.00 97.83 100.00 97.50 97.40 95.92 98.18 96.36 94.23 97.96 97.73 96.00 62.50 80.00 75.00 96.43 50.00 57.14 73.91 88.89 92.54 100.00 94.44 97.78 100.00 71.43 94.44 90.00 90.00 87.50 87.50 97.60 98.00 92.86 100.00 100.00 NA 85.19 96.30 NA 25.00 87.50 100.00 NA 97.53 NA NA 96.30 K alternative_donor Pp2C1,I_chrX_4577968_4578285 chrX - chrX_4577968_4579144 chrX_4577968_4578285 chrX_4577868_4577967;chrX_4579145_4580826 2.56 1.92 0.00 9.09 2.13 2.70 0.00 2.00 2.06 2.50 5.00 4.76 5.56 7.14 3.23 4.35 0.00 0.00 0.00 1.61 5.26 3.85 0.00 3.70 0.00 0.00 3.51 6.67 3.85 2.56 6.25 9.52 2.13 1.56 0.00 3.23 1.69 1.47 2.47 3.03 0.00 1.27 0.00 0.00 0.00 8.70 0.00 2.86 3.03 5.00 1.72 0.00 4.55 4.35 3.23 5.26 4.35 3.57 K intron_retention Strn-Mlck,I_chr2R_11838019_11838662 chr2R - chr2R_11835112_11835668 chr2R_11835111_11835112;chr2R_11835668_11835669 chr2R_11834432_11835111;chr2R_11835669_11836215 84.38 76.60 79.17 83.61 84.44 88.10 95.24 91.84 90.32 86.36 82.86 79.71 75.00 79.31 87.23 80.00 90.62 85.71 88.24 80.52 84.38 85.19 83.33 82.05 91.18 97.50 79.22 81.48 90.20 81.54 89.47 83.02 82.95 86.79 76.92 82.05 78.45 85.51 84.15 85.71 93.22 83.67 89.29 89.66 80.72 81.52 84.13 88.46 90.62 72.97 86.59 84.48 79.31 81.48 89.74 79.22 89.80 90.91 K intron_retention CycD,I_chrX_15803256_15803313 chrX - chrX_15801833_15801891 chrX_15801832_15801833;chrX_15801891_15801892 chrX_15801764_15801832;chrX_15801892_15801960 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.93 0.00 0.00 0.00 0.00 2.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.85 0.00 0.00 0.00 0.00 0.00 0.00 0.93 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.59 3.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention WDR79 chr2L - chr2L_6126596_6126654 chr2L_6126595_6126596;chr2L_6126654_6126655 chr2L_6125873_6126595;chr2L_6126655_6126843 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.08 0.00 0.00 0.00 0.00 1.54 0.00 3.51 1.75 1.69 0.00 0.00 0.00 8.00 1.64 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention mib2 chr2L + chr2L_19038755_19038815 chr2L_19038754_19038755;chr2L_19038815_19038816 chr2L_19038085_19038754;chr2L_19038816_19038978 0.00 0.00 0.00 0.91 0.00 0.00 2.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.38 0.00 2.30 7.14 0.00 0.00 0.00 0.00 1.85 0.00 0.00 0.00 0.00 1.49 0.00 0.00 5.41 1.61 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor RpS3A,I_chr4_87533_87717,I_chr4_87549_87717,I_chr4_87549_87769 chr4 - chr4_87549_87717;chr4_87533_87717 chr4_87648_87717 chr4_87718_87817;chr4_87466_87532 74.06 73.10 67.01 67.27 89.71 66.99 88.14 NA 80.73 59.10 NA 76.97 NA 85.67 NA 71.06 NA 74.27 58.87 65.27 82.46 80.13 72.20 73.82 73.88 67.36 77.62 73.62 58.39 71.36 84.38 85.21 80.59 82.32 74.44 NA 67.39 57.80 81.91 88.00 84.25 82.43 NA 85.84 67.23 76.33 81.36 72.89 74.23 61.85 58.33 92.95 64.38 64.20 58.09 85.88 87.68 72.67 K alternative_donor RI_chrX_502548_513324,CG13366,I_chrX_508729_508806,I_chrX_509497_513324,I_chrX_509727_511407,I_chrX_509727_511477,noncoding_21186,I_chrX_509834_511407,CRE_chrX_509851_511307,I_chrX_510004_511307,I_chrX_510004_511407,I_chrX_513176_513324,I_chrX_513519_513631 chrX - chrX_509727_511477 chrX_509727_511407 chrX_509715_509726;chrX_511478_511507 85.71 NA NA NA NA NA NA NA NA NA NA 85.71 NA NA NA 87.50 NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 83.33 NA NA NA NA NA NA NA NA 85.71 NA NA NA NA NA NA NA NA NA K jcn_only_AA CG9779,RI_chr3R_136377_136528 chr3R - chr3R_136371_136508 chr3R_136377_136508 chr3R_136509_136669;chr3R_136277_136370 99.03 98.70 98.00 98.73 98.55 100.00 98.88 100.00 98.58 100.00 100.00 100.00 97.83 97.67 100.00 100.00 97.83 100.00 98.21 99.29 100.00 97.70 98.31 100.00 100.00 98.31 98.51 95.65 100.00 98.18 100.00 97.78 100.00 97.40 96.77 100.00 98.58 98.90 98.68 97.22 100.00 99.03 97.83 100.00 100.00 100.00 98.90 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.08 97.89 99.20 98.04 K jcn_only_AA CG32549,I_chrX_18286136_18286367,I_chrX_18286289_18286367,RI_chrX_18301919_18303082 chrX - chrX_18286289_18286367;chrX_18286194_18286367 chrX_18286136_18286367 chrX_18286368_18286467;chrX_18286073_18286135 0.00 0.00 0.00 0.46 0.00 0.00 0.00 0.00 0.00 0.00 1.48 0.35 0.00 0.60 0.00 0.44 0.00 0.66 0.00 0.28 0.00 0.00 0.57 0.60 0.00 0.00 0.75 0.00 0.46 0.61 3.21 2.63 0.49 0.38 0.00 0.00 0.31 0.39 0.69 0.00 0.00 0.59 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.47 1.07 0.54 1.67 0.00 0.52 0.96 0.00 0.00 K cassette AP-1gamma,I_chrX_9003790_9007675 chrX + chrX_9003790_9005114 chrX_9003790_9004854;chrX_9005039_9005114 chrX_9004855_9005038 chrX_9003721_9003789;chrX_9005115_9005176 100.00 100.00 100.00 90.91 100.00 95.24 95.24 96.67 97.87 93.33 100.00 100.00 100.00 100.00 95.45 100.00 100.00 100.00 96.97 100.00 100.00 100.00 92.86 100.00 100.00 96.55 93.75 100.00 96.77 96.15 100.00 100.00 100.00 97.56 95.24 100.00 100.00 100.00 100.00 100.00 100.00 97.62 100.00 100.00 100.00 100.00 92.86 100.00 95.83 100.00 95.65 100.00 100.00 100.00 95.83 100.00 100.00 100.00 K alternative_acceptor CG18604,I_chr2R_14589693_14590032 chr2R + chr2R_14589693_14590032 chr2R_14589693_14590023 chr2R_14589593_14589692;chr2R_14590033_14590132 75.00 73.33 81.82 63.64 87.50 63.64 NA 73.33 70.97 80.00 NA 77.78 87.50 60.00 75.00 90.00 75.00 84.62 NA 80.77 60.00 71.88 81.82 69.57 91.67 NA 77.78 53.33 88.89 70.59 87.50 NA 92.86 85.71 75.00 81.82 63.33 86.67 68.00 64.71 NA 87.50 NA 71.43 66.67 92.31 69.23 80.00 89.47 75.00 81.82 NA 70.59 60.00 61.54 72.73 66.67 NA K alternative_acceptor GstD10,RI_chr3R_8191329_8191412,I_chr3R_8192634_8193249 chr3R - chr3R_8191305_8191412 chr3R_8191329_8191412 chr3R_8191413_8191512;chr3R_8191229_8191304 6.67 NA NA 6.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_donor twe,I_chr2L_16267018_16267422 chr2L - chr2L_16261506_16261616 chr2L_16261506_16261590 chr2L_16259416_16261505;chr2L_16261617_16261877 100.00 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA K intron_retention cnn,I_chr2R_9331192_9331257,I_chr2R_9333096_9336812,RI_chr2R_9334834_9336719,I_chr2R_9347031_9370659 chr2R - chr2R_9327834_9327896 chr2R_9327833_9327834;chr2R_9327896_9327897 chr2R_9327766_9327833;chr2R_9327897_9330021 0.00 0.00 0.00 2.86 0.00 0.00 0.65 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.76 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N cassette ena chr2R + chr2R_15029860_15046238 chr2R_15029860_15039409;chr2R_15039533_15046238 chr2R_15039410_15039532 chr2R_15029730_15029859;chr2R_15046239_15046560 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 79.49 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Tre1,I_chrX_5568743_5568799,I_chrX_5569518_5570588 chrX - chrX_5568743_5568803 chrX_5568742_5568743;chrX_5568803_5568804 chrX_5568643_5568742;chrX_5568804_5568899 0.00 0.00 0.00 0.00 0.00 0.00 0.83 0.70 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.76 0.45 0.00 0.56 0.00 0.00 0.00 0.00 0.00 0.00 0.98 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.45 0.00 K alternative_acceptor gd,I_chrX_11881464_11881506 chrX - chrX_11881455_11881506 chrX_11881464_11881506 chrX_11881507_11881606;chrX_11881364_11881454 4.25 NA NA NA NA NA 0.00 NA 6.67 NA NA 0.00 NA NA NA NA NA NA NA NA NA NA 0.00 0.00 NA NA 0.00 NA 5.26 NA 3.23 NA 6.67 NA 5.88 5.26 7.69 NA 0.00 0.00 NA 5.56 NA NA 0.00 NA NA 0.00 NA NA 5.88 7.14 NA NA NA NA NA 5.88 K intron_retention CG34123,RI_chr2R_11160894_11162043,I_chr2R_11167854_11168411 chr2R - chr2R_11152866_11153135 chr2R_11152865_11152866;chr2R_11153135_11153136 chr2R_11152728_11152865;chr2R_11153136_11153342 9.68 7.41 0.00 3.39 4.17 3.85 6.90 11.76 8.47 NA 11.76 11.11 NA 28.57 12.12 9.68 0.00 0.00 23.08 6.82 9.52 19.05 6.90 22.73 NA 0.00 12.50 NA 5.56 7.14 6.67 18.18 12.50 20.59 10.53 6.06 10.71 20.00 10.00 20.00 NA 6.98 17.65 10.71 0.00 13.64 8.33 2.94 14.29 17.65 15.38 0.00 0.00 NA 10.71 5.88 10.34 0.00 K intron_retention CG2225 chr2L - chr2L_21668237_21668292 chr2L_21668236_21668237;chr2L_21668292_21668293 chr2L_21668106_21668236;chr2L_21668293_21669233 0.00 0.00 0.00 2.86 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 NA NA 1.59 0.00 0.00 0.00 0.00 0.00 NA 0.00 9.09 8.33 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.03 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG2246,I_chr3R_26421344_26425985,I_chr3R_26421349_26427017 chr3R - chr3R_26419539_26419834 chr3R_26419572_26419834 chr3R_26419835_26419891;chr3R_26419427_26419538 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention dNAT1,CG13319,RI_chr2R_8812301_8816468 chr2R + chr2R_8808365_8808489 chr2R_8808364_8808365;chr2R_8808489_8808490 chr2R_8805500_8808364;chr2R_8808490_8810315 0.00 0.00 0.00 0.00 0.00 0.00 1.06 0.49 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.80 0.00 0.32 0.00 0.00 0.60 0.85 0.00 0.00 0.40 0.74 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.46 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N intron_retention mmd chrX - chrX_15848478_15856018 chrX_15848477_15848478;chrX_15856018_15856019 chrX_15848319_15848477;chrX_15856019_15856024 100.00 NA NA NA 100.00 100.00 100.00 NA 100.00 NA NA NA NA NA 100.00 NA 100.00 NA 100.00 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA 64.71 NA NA NA NA NA NA NA NA NA K alternative_acceptor Pof chr2R + chr2R_20556998_20557050;chr2R_20556998_20557046 chr2R_20556998_20557144 chr2R_20556952_20556997;chr2R_20557145_20557370 0.00 0.00 16.67 0.00 NA 0.00 NA 0.00 NA NA NA 0.00 NA NA 0.00 0.00 NA 0.00 NA 9.09 0.00 NA 0.00 11.11 NA NA NA NA NA NA NA NA NA 11.11 NA NA 8.33 0.00 0.00 NA NA 0.00 NA NA NA 0.00 16.67 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 20.00 NA 0.00 K jcn_only_AA CG9104,CG9099 chrX - chrX_16777969_16778096 chrX_16778035_16778096 chrX_16778097_16778358;chrX_16777528_16777968 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.39 98.88 100.00 95.83 98.75 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.13 97.56 100.00 98.11 100.00 100.00 97.83 100.00 100.00 100.00 100.00 97.87 100.00 100.00 100.00 100.00 92.73 98.78 98.39 98.57 98.97 97.96 100.00 100.00 100.00 98.21 96.10 100.00 100.00 97.18 100.00 100.00 95.24 97.78 98.04 98.31 100.00 100.00 100.00 K intron_retention iPLA2-VIA chr3L - chr3L_9856363_9856420 chr3L_9856362_9856363;chr3L_9856420_9856421 chr3L_9856063_9856362;chr3L_9856421_9856716 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.64 0.00 0.00 0.00 0.00 1.03 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG17333,CG2202 chrX + chrX_10745007_10745093 chrX_10745006_10745007;chrX_10745093_10745094 chrX_10744067_10745006;chrX_10745094_10745674 0.00 0.00 0.00 5.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.52 6.67 2.78 0.00 0.00 0.00 0.00 6.56 8.33 2.70 0.00 0.00 3.85 2.63 0.00 4.76 7.14 0.00 0.00 1.43 3.51 4.76 3.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 8.00 0.00 0.00 4.17 0.00 0.00 K alternative_last_exon app,RI_chr3L_12201038_12201989,I_chr3L_12259361_12259754 chr3L - chr3L_12201038_12206192 chr3L_12205868_12206192 chr3L_12199329_12201037 chr3L_12204371_12205867 chr3L_12206193_12206397 85.71 90.00 88.89 77.78 77.78 83.33 83.33 87.50 94.44 85.71 87.50 93.33 62.50 83.33 88.89 77.78 87.50 83.33 80.00 92.86 85.71 93.33 94.12 92.31 88.89 87.50 91.67 92.31 80.00 90.91 85.71 83.33 92.31 91.67 85.71 92.31 94.74 81.25 94.44 80.00 85.71 93.75 83.33 83.33 75.00 81.82 77.78 84.62 93.33 83.33 92.31 77.78 63.64 75.00 87.50 77.78 87.50 80.00 K jcn_only_AD Mbs,I_chr3L_16045251_16046108,RI_chr3L_16045275_16045854,RI_chr3L_16045275_16046111,RI_chr3L_16045277_16046104,I_chr3L_16045316_16046104,I_chr3L_16057100_16057329 chr3L + chr3L_16045251_16046104;chr3L_16045316_16046104;chr3L_16045275_16046104 chr3L_16045277_16046104 chr3L_16046105_16046204;chr3L_16045216_16045250 2.27 2.27 1.85 1.98 13.16 1.54 3.75 2.80 2.50 0.00 0.00 1.83 3.17 0.00 2.99 3.37 5.26 2.63 2.41 2.63 0.00 0.00 2.74 4.35 0.00 1.28 1.69 0.00 3.12 4.05 4.05 0.00 1.22 1.59 2.17 0.00 2.38 0.00 0.00 0.00 4.76 3.33 0.00 3.51 2.56 0.00 0.00 2.63 1.82 0.00 3.85 3.70 4.00 NA 4.88 2.78 NA 0.00 K intron_retention Vps13,I_chr2R_3464510_3464571 chr2R + chr2R_3454389_3454650 chr2R_3454388_3454389;chr2R_3454650_3454651 chr2R_3454371_3454388;chr2R_3454651_3454869 7.55 18.75 14.29 10.53 NA NA 13.04 8.33 7.41 NA NA 8.33 NA NA 0.00 0.00 NA 0.00 0.00 7.69 13.33 9.09 5.56 NA NA 18.75 NA NA 6.25 0.00 16.67 NA 15.79 8.33 NA NA 9.68 NA NA 0.00 NA 0.00 NA 7.41 NA NA NA 5.00 5.71 NA NA NA NA NA 0.00 NA NA NA K intron_retention CAP-D2,E_chr3R_25501928_25504637 chr3R + chr3R_25501579_25501655 chr3R_25501578_25501579;chr3R_25501655_25501656 chr3R_25501398_25501578;chr3R_25501656_25502127 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 12.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 NA 3.45 NA NA NA 0.00 NA NA NA K alternative_acceptor rl,I_chr2RHet_199154_207044,RI_chr2RHet_203476_203577,RI_chr2RHet_203592_207044,I_chr2RHet_232696_247338,RI_chr2RHet_240197_247338 chr2RHet + chr2RHet_198817_198973;chr2RHet_198817_198981 chr2RHet_198817_198964 chr2RHet_198804_198816;chr2RHet_198982_199153 57.14 NA 66.67 65.62 60.00 44.44 50.00 61.11 78.57 NA NA 50.00 60.00 69.23 NA 67.74 57.14 66.67 70.59 65.22 50.00 NA 71.43 50.00 57.14 71.43 60.00 NA NA 44.44 45.45 NA NA 48.28 80.00 57.14 44.44 NA 54.55 NA NA 62.50 NA NA NA 55.56 44.44 NA 51.72 57.14 71.43 66.67 NA NA 55.56 NA NA 57.14 K alternative_acceptor CG5261,I_chr2L_7428611_7428877 chr2L + chr2L_7428680_7428877;chr2L_7428680_7428925 chr2L_7428680_7428778 chr2L_7428612_7428679;chr2L_7428926_7428977 0.99 0.00 0.00 1.25 0.00 0.00 0.00 1.28 0.78 2.08 0.00 1.01 0.00 0.00 0.00 0.00 0.00 1.85 0.00 0.59 0.00 4.82 2.27 0.00 2.13 0.00 1.54 1.64 1.47 1.35 4.76 2.86 1.43 1.32 2.17 0.00 0.93 1.28 0.99 2.11 0.00 0.79 2.78 2.70 0.00 0.00 1.01 1.79 0.00 1.96 0.00 2.86 0.00 1.79 0.00 0.00 1.10 1.67 K intron_retention CG5514,E_chr3R_23764745_23767416,Gp93 chr3R + chr3R_23764641_23764698 chr3R_23764640_23764641;chr3R_23764698_23764699 chr3R_23764270_23764640;chr3R_23764699_23764744 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.89 NA NA 1.79 0.00 0.00 0.00 2.38 0.00 0.00 0.00 3.30 0.00 2.78 2.27 0.00 0.00 0.00 4.55 0.00 0.00 3.23 0.00 6.90 4.40 0.00 0.00 6.06 0.00 0.00 0.00 0.00 0.00 3.28 0.00 0.00 0.00 0.00 0.00 2.86 4.55 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.47 K jcn_only_AA Bsg25D chr2L - chr2L_5273555_5274018 chr2L_5273591_5274018 chr2L_5274019_5275763;chr2L_5273161_5273554 88.82 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 95.83 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 81.82 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD MED14,CG12030 chr3L + chr3L_594846_594915 chr3L_594852_594915 chr3L_594916_595283;chr3L_594354_594845 0.00 3.70 0.00 3.23 2.08 0.00 0.00 1.23 1.69 0.00 2.38 1.12 0.00 2.86 8.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.35 0.00 7.14 0.00 0.00 2.13 0.00 1.92 0.00 0.00 4.11 1.56 9.80 0.00 0.00 3.77 3.85 2.50 0.00 0.93 1.96 0.00 0.00 3.03 3.23 0.00 3.80 2.08 0.00 0.00 NA NA 0.00 0.00 0.00 3.03 K cassette CG18854,RI_chr2L_9789598_9789790,I_chr2L_9789694_9789790,REI_chr2L_9789718_9789790,I_chr2L_9790307_9790615,I_chr2L_9790310_9790556 chr2L - chr2L_9789616_9789790 chr2L_9789616_9789674;chr2L_9789740_9789790 chr2L_9789675_9789739 chr2L_9789594_9789615;chr2L_9789791_9789832 24.05 22.87 24.09 39.84 22.78 20.48 20.84 26.23 22.69 29.20 19.44 20.18 31.20 25.93 23.08 18.63 26.86 25.27 26.70 19.67 17.65 34.42 10.70 32.11 30.86 12.79 28.64 29.55 13.01 16.42 23.95 20.41 20.45 24.05 21.79 7.72 27.75 27.92 29.77 25.82 18.57 21.35 27.50 26.53 17.20 21.65 30.43 18.87 20.26 28.45 28.70 27.82 17.05 27.34 25.49 24.81 24.79 15.97 N intron_retention CG15706 chr2R - chr2R_12112831_12114161 chr2R_12112830_12112831;chr2R_12114161_12114162 chr2R_12112612_12112830;chr2R_12114162_12114241 100.00 100.00 100.00 100.00 NA 100.00 100.00 47.62 52.00 NA NA 100.00 NA 100.00 100.00 100.00 NA 100.00 NA 65.38 100.00 100.00 100.00 NA NA 100.00 55.00 NA NA NA 100.00 NA NA 100.00 NA NA NA NA 100.00 100.00 NA 100.00 100.00 NA NA NA 100.00 NA 100.00 NA 62.50 NA 100.00 NA 100.00 NA 100.00 NA K intron_retention exba,I_chr3R_1425087_1425925,I_chr3R_1425813_1426009,I_chr3R_1425890_1426125,I_chr3R_1425890_1426209,RI_chr3R_1426370_1426736 chr3R - chr3R_1425890_1426009 chr3R_1425889_1425890;chr3R_1426009_1426010 chr3R_1425790_1425889;chr3R_1426010_1426024 88.24 85.71 87.50 76.47 92.31 90.00 95.24 81.40 83.33 88.89 80.95 97.62 94.44 88.24 77.78 75.47 95.45 86.96 90.91 86.54 90.00 100.00 81.08 92.00 92.31 93.75 88.24 94.44 92.31 76.47 88.89 94.74 100.00 97.37 80.95 86.67 90.48 84.62 93.75 90.00 94.44 88.57 73.91 76.67 94.44 80.65 78.95 96.30 79.17 83.33 81.48 80.77 78.95 85.71 88.89 77.78 87.50 81.82 K cassette CG14619,RI_chrX_21860097_21868647,I_chrX_21865109_21865522,I_chrX_21869837_21869915 chrX + chrX_21860097_21868647 chrX_21860097_21867984;chrX_21868212_21868647 chrX_21867985_21868211 chrX_21859997_21860096;chrX_21868648_21868747 97.83 98.72 97.33 98.86 95.16 98.39 98.88 96.74 95.76 100.00 100.00 99.29 93.33 98.00 98.63 97.06 95.74 98.28 98.15 97.48 98.08 97.27 96.77 96.91 97.30 97.96 96.43 93.44 85.45 96.25 92.96 97.22 98.57 98.02 97.14 98.63 99.38 97.83 99.29 96.40 97.30 96.43 100.00 97.67 98.11 98.55 95.00 98.33 97.46 98.21 99.12 96.36 98.15 98.18 97.10 95.31 98.21 100.00 N cassette brat,I_chr2L_19134277_19143634,EI_chr2L_19145845_19145958,RI_chr2L_19145845_19146761 chr2L + chr2L_19134277_19166084 chr2L_19134277_19145793;chr2L_19145845_19166084 chr2L_19145794_19145844 chr2L_19134177_19134276;chr2L_19166085_19166125 100.00 NA 100.00 100.00 NA 100.00 100.00 100.00 68.42 NA NA 100.00 100.00 100.00 100.00 58.82 100.00 NA 100.00 100.00 NA 100.00 100.00 NA NA 100.00 100.00 NA NA NA 100.00 NA 100.00 100.00 100.00 NA NA NA NA 100.00 NA 100.00 100.00 NA NA NA NA NA 100.00 NA 100.00 NA NA NA 100.00 NA NA NA K jcn_only_AA F_chr3RHet_1879085_1900358,Alg-2 chr3RHet - chr3RHet_1898928_1898983;chr3RHet_1898895_1898983;chr3RHet_1898919_1898983 chr3RHet_1898930_1898983 chr3RHet_1898984_1899090;chr3RHet_1898558_1898894 96.07 96.05 92.65 96.35 98.36 96.94 97.80 95.15 95.60 100.00 97.30 94.44 94.70 95.68 94.35 95.56 96.04 96.91 96.10 97.67 96.20 96.15 93.51 89.36 93.15 92.92 100.00 90.48 92.54 97.62 94.17 100.00 NA 94.66 94.74 96.30 90.57 95.45 97.80 96.51 91.11 97.07 97.75 95.45 83.72 97.70 97.67 96.77 94.16 95.60 97.50 92.22 96.83 98.21 94.48 98.23 96.95 97.22 K intron_retention zip,I_chr2R_20878796_20879147 chr2R - chr2R_20879222_20879332 chr2R_20879221_20879222;chr2R_20879332_20879333 chr2R_20879148_20879221;chr2R_20879333_20879496 68.34 NA NA NA NA NA 58.33 77.78 90.00 NA NA 66.67 NA NA NA NA NA NA NA NA NA 23.81 NA NA NA NA NA NA NA NA NA NA NA 88.89 NA NA NA NA NA 53.85 NA NA NA NA NA NA NA NA 70.00 NA NA NA NA NA NA NA NA NA K multi_cassette Mlf,noncoding_7111,I_chr2R_11824086_11824186,REI_chr2R_11824089_11824525,CE_chr2R_11826384_11826741,I_chr2R_11826763_11826990,CEI_chr2R_11826763_11827279 chr2R - chr2R_11824089_11827414 chr2R_11824089_11825183;chr2R_11825385_11825951;chr2R_11826484_11826541;chr2R_11826763_11827414 chr2R_11825184_11825384;chr2R_11825952_11826483;chr2R_11826542_11826762 chr2R_11823989_11824088;chr2R_11827415_11827523 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.62 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG9795,EI_chr3R_145575_147566,RI_chr3R_145613_145675 chr3R + chr3R_145613_145675 chr3R_145612_145613;chr3R_145675_145676 chr3R_145513_145612;chr3R_145676_145775 94.74 91.30 97.67 97.62 86.67 93.02 93.06 89.13 94.74 100.00 94.74 94.29 87.04 95.12 94.03 97.78 95.24 92.68 89.58 92.05 98.61 94.12 97.92 92.86 96.43 97.83 92.31 96.97 97.78 92.86 92.16 100.00 96.30 89.86 94.12 96.00 97.22 94.87 96.30 89.23 100.00 95.35 88.37 88.46 87.76 94.23 96.08 95.65 86.96 91.49 95.45 97.22 97.14 95.24 93.75 95.74 96.39 93.75 K jcn_only_AD CG8839,I_chr2R_8229288_8229488,I_chr2R_8229288_8231538 chr2R - chr2R_8229288_8231968;chr2R_8229288_8232025;chr2R_8229288_8231966 chr2R_8229288_8231964 chr2R_8229188_8229287;chr2R_8232026_8232112 19.51 20.79 17.67 19.04 17.97 17.22 23.91 16.81 22.49 31.46 18.23 13.26 22.40 17.68 17.80 20.42 19.50 21.82 16.92 20.69 19.05 16.33 22.64 16.95 20.00 16.39 19.51 22.22 20.61 23.46 14.08 19.33 21.88 17.34 25.49 22.50 26.15 20.25 19.72 11.76 26.13 17.75 16.08 30.77 18.67 18.75 27.27 26.21 17.86 17.91 23.85 20.00 24.51 25.93 14.65 16.30 18.80 28.43 K jcn_only_AD RpL28,RI_chr3L_3221710_3221877,I_chr3L_3221982_3222744,snoRNA:Or-CD11c,snoRNA:Or-CD11b chr3L - chr3L_3221982_3222787;chr3L_3221982_3222152;chr3L_3221982_3222574;chr3L_3221982_3222926;chr3L_3221982_3222847 chr3L_3221982_3222365 chr3L_3221882_3221981;chr3L_3222927_3222958 10.20 15.20 6.05 2.73 6.92 5.54 27.03 3.52 15.05 12.03 7.06 13.18 16.91 20.10 4.10 18.50 5.81 4.86 2.11 5.69 7.14 10.66 15.97 22.70 33.33 17.41 33.88 34.23 4.32 7.25 4.09 2.74 0.45 3.93 10.96 14.84 14.52 17.82 13.49 10.20 5.58 4.45 4.39 13.16 2.09 3.91 18.18 2.43 5.25 18.75 13.01 27.68 4.10 11.93 4.75 20.69 26.09 1.26 N jcn_only_AA Gprk2 chr3R + chr3R_27259611_27279032 chr3R_27259611_27259861 chr3R_27259181_27259610;chr3R_27279033_27279128 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 31.48 NA 0.00 13.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 20.51 NA 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 25.00 NA 0.00 0.00 NA 0.00 0.00 NA NA 0.00 NA 31.17 NA 0.00 NA 0.00 0.00 0.00 26.32 NA 26.47 NA 0.00 NA 35.00 NA 0.00 0.00 N alternative_acceptor Cct5 chr2R + chr2R_8064224_8064282 chr2R_8064224_8064264 chr2R_8063242_8064223;chr2R_8064283_8065030 0.00 0.00 0.00 0.12 0.00 0.00 0.00 0.00 0.15 0.00 0.00 0.00 0.00 0.00 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.25 1.04 0.24 0.00 0.00 0.00 0.00 0.12 0.00 0.00 0.00 0.00 0.00 0.00 0.22 0.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.25 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG8446 chr2R + chr2R_12085844_12085989 chr2R_12085843_12085844;chr2R_12085989_12085990 chr2R_12084512_12085843;chr2R_12085990_12086451 0.84 0.99 0.00 1.26 0.00 0.00 0.66 1.85 1.55 0.00 0.00 2.38 2.91 1.01 0.85 0.00 0.00 0.00 0.98 1.01 0.00 5.47 1.64 0.84 0.00 0.79 4.58 1.61 3.42 0.00 1.63 0.00 1.16 0.00 2.04 2.11 1.22 0.00 2.60 1.52 0.62 1.05 0.00 0.70 0.00 0.00 1.54 1.52 2.35 0.75 0.00 0.00 0.00 0.91 0.00 0.00 0.00 1.17 K intron_retention Jhebp29,RI_chr2R_20857941_20857992,RI_chr2R_20857941_20858127 chr2R + chr2R_20857941_20858182 chr2R_20857940_20857941;chr2R_20858182_20858183 chr2R_20857841_20857940;chr2R_20858183_20858227 97.62 96.72 98.68 99.03 97.96 95.71 98.95 99.06 100.00 96.97 98.15 96.69 98.21 95.00 96.51 97.87 97.96 93.55 97.22 95.77 98.44 65.71 97.22 97.62 97.56 98.73 97.53 97.62 97.83 97.56 100.00 96.15 74.39 99.02 97.37 97.87 98.39 100.00 100.00 94.57 93.24 99.24 96.15 100.00 93.85 92.31 98.90 100.00 96.04 98.46 98.70 97.62 96.83 94.05 100.00 95.00 97.58 96.00 K intron_retention Cctgamma chr3R + chr3R_12473420_12473557 chr3R_12473419_12473420;chr3R_12473557_12473558 chr3R_12473322_12473419;chr3R_12473558_12473651 5.00 3.23 7.89 5.69 5.56 8.51 5.13 8.33 4.93 0.00 2.82 3.70 0.00 4.00 7.89 2.80 3.85 4.76 5.63 6.60 0.00 1.97 3.51 1.10 10.42 7.55 2.11 5.48 20.00 3.12 7.23 10.87 5.00 6.54 2.13 9.52 1.92 2.50 2.63 8.33 23.08 8.70 3.28 3.33 8.51 5.26 6.25 8.11 3.94 5.95 4.12 3.12 2.13 8.33 6.38 2.53 4.76 13.04 K jcn_only_AD RhoGDI chr3L + chr3L_19922009_19923914;chr3L_19921911_19923914 chr3L_19921875_19923914 chr3L_19923915_19924114;chr3L_19921868_19921874 0.00 0.61 0.00 0.94 0.00 1.37 0.00 1.27 0.69 0.00 0.56 0.28 0.84 0.00 0.41 0.93 0.70 0.72 1.13 0.29 0.00 0.59 0.00 0.00 0.00 1.69 0.00 0.00 0.00 0.00 0.93 1.30 4.55 1.63 0.00 0.79 0.00 0.00 0.00 0.00 0.00 0.62 0.00 0.00 2.38 0.00 0.72 1.10 0.00 0.00 0.00 0.00 0.85 0.00 1.46 0.00 0.00 0.00 K intron_retention CG13074 chr3L - chr3L_16089356_16089415 chr3L_16089355_16089356;chr3L_16089415_16089416 chr3L_16089162_16089355;chr3L_16089416_16089692 4.35 3.17 7.94 6.67 7.14 2.38 4.35 6.06 7.48 5.26 0.00 2.78 0.00 4.17 4.84 10.00 6.00 7.69 8.22 3.92 2.00 5.06 1.37 4.11 5.71 0.00 14.52 13.04 5.13 2.90 3.64 2.56 8.96 2.11 4.35 0.00 3.90 2.86 2.22 3.57 7.50 7.21 0.00 3.57 5.56 6.25 4.11 6.06 5.26 5.32 2.35 7.84 2.27 0.00 3.17 2.60 4.88 4.44 K intron_retention CG12079,CG14964 chr3L - chr3L_3159349_3159408 chr3L_3159348_3159349;chr3L_3159408_3159409 chr3L_3159274_3159348;chr3L_3159409_3159555 2.84 0.00 1.64 3.37 2.86 2.25 4.49 5.56 1.39 2.20 3.03 1.42 0.00 1.27 3.15 1.00 1.61 3.26 0.00 2.35 4.49 2.10 3.02 1.00 4.46 8.45 7.95 15.38 11.01 1.61 8.70 2.80 1.57 3.20 4.55 4.24 0.90 2.07 0.81 1.66 6.58 2.13 4.76 3.23 2.90 3.05 2.19 5.22 1.96 3.49 1.59 3.45 1.35 2.41 3.60 2.96 0.00 2.84 K alternative_donor Dp,I_chr2R_9111166_9112971,REI_chr2R_9113257_9113316 chr2R + chr2R_9112640_9112971;chr2R_9112646_9112971 chr2R_9112663_9112971 chr2R_9112972_9113071;chr2R_9112620_9112639 60.00 75.00 50.00 53.33 NA 50.00 NA NA 61.11 NA NA 55.56 NA NA 57.14 75.00 NA 55.56 NA 64.29 NA 89.47 50.00 52.94 75.00 56.25 70.59 70.00 NA 62.50 69.23 NA NA 80.00 NA NA 62.50 NA 57.89 61.54 57.14 57.14 NA 60.00 NA 75.00 66.67 NA 42.86 54.55 NA NA NA 50.00 NA NA 46.67 66.67 K intron_retention F_chr2L_5045484_5046146,CG14040,His3_3A chr2L + chr2L_5053169_5053238 chr2L_5053168_5053169;chr2L_5053238_5053239 chr2L_5052846_5053168;chr2L_5053239_5053356 0.00 0.00 0.00 0.00 3.85 0.00 0.00 3.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.89 0.00 0.00 0.00 2.70 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 N intron_retention cryptocephal,noncoding_4181,I_chr2L_21312209_21314626 chr2L + chr2L_21311018_21311192 chr2L_21311017_21311018;chr2L_21311192_21311193 chr2L_21310948_21311017;chr2L_21311193_21311214 52.13 52.13 53.38 55.56 64.29 48.18 47.71 49.66 54.17 60.47 46.74 48.79 50.00 53.54 43.21 56.03 61.43 42.54 48.31 37.84 43.12 67.31 60.34 50.62 51.28 49.40 64.71 79.73 78.09 65.22 48.39 65.67 65.81 47.19 51.81 60.68 67.82 50.00 54.78 69.07 66.67 51.02 58.82 57.76 44.38 58.33 50.76 75.81 44.93 58.04 47.40 47.47 41.30 41.35 49.28 57.26 44.63 67.24 K jcn_only_AA ced-6,I_chr2R_5324717_5324924,I_chr2R_5328640_5328696 chr2R - chr2R_5324304_5324924 chr2R_5324717_5324924 chr2R_5324925_5325024;chr2R_5323867_5324303 0.16 0.19 0.61 0.62 0.59 0.57 0.41 0.00 0.00 0.00 0.28 0.09 0.00 0.22 0.14 0.17 0.00 0.00 0.00 0.08 0.00 0.00 0.39 0.00 0.70 0.00 0.18 0.00 0.21 0.19 0.20 0.00 0.15 0.12 0.41 0.47 0.16 0.19 0.12 0.12 1.18 0.08 0.26 0.21 0.17 0.16 0.00 0.14 0.00 0.00 0.27 0.28 0.00 0.00 0.00 0.41 0.20 0.17 K intron_retention SCAR chr2L + chr2L_10976969_10977897 chr2L_10976968_10976969;chr2L_10977897_10977898 chr2L_10976793_10976968;chr2L_10977898_10978706 0.00 0.00 0.00 0.00 0.00 1.89 2.67 0.00 1.82 0.00 0.00 0.00 0.00 3.33 2.86 0.00 0.00 0.00 0.00 2.50 0.00 6.74 1.80 1.00 1.20 0.00 2.91 1.43 3.57 0.00 0.00 0.00 1.69 2.27 0.00 1.67 0.00 3.12 0.00 1.36 0.00 1.15 0.00 2.67 0.00 0.00 0.00 2.38 1.83 0.00 1.72 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N multi_cassette bwa,I_chr2L_20069515_20073377,I_chr2L_20073310_20073377 chr2L + chr2L_20066899_20072353 chr2L_20066899_20069052;chr2L_20069305_20069376;chr2L_20069515_20072353 chr2L_20069053_20069304;chr2L_20069377_20069514 chr2L_20066389_20066898;chr2L_20072354_20072646 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 90.14 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention hang,I_chrX_16328892_16329177,I_chrX_16335942_16337525 chrX + chrX_16328906_16329177 chrX_16328905_16328906;chrX_16329177_16329178 chrX_16328294_16328905;chrX_16329178_16329187 5.79 6.00 1.90 5.79 1.98 3.00 6.04 8.93 5.84 6.31 5.26 6.32 8.40 7.14 5.93 5.69 8.05 6.87 3.70 3.82 1.96 6.80 8.28 7.34 4.71 4.72 6.60 12.31 2.48 4.61 4.17 4.46 3.09 5.11 7.92 3.23 7.74 3.96 5.85 4.98 0.00 5.86 5.49 5.36 4.35 5.92 8.82 2.31 7.02 4.23 6.67 6.67 6.98 5.00 7.02 5.19 9.26 3.47 K cassette CG33558,I_chr2R_2816779_2817354,RI_chr2R_2817876_2819347,I_chr2R_2820149_2820628,EI_chr2R_2820947_2821570,CREI_chr2R_2832933_2850384 chr2R - chr2R_2817876_2820628 chr2R_2817876_2818567;chr2R_2820203_2820628 chr2R_2818568_2820202 chr2R_2817851_2817875;chr2R_2820629_2820728 64.71 53.85 78.57 93.33 54.55 38.89 46.15 57.89 64.71 58.82 72.73 75.00 66.67 91.67 70.59 85.71 84.62 63.64 66.67 83.33 75.00 37.84 49.09 61.29 54.17 71.43 54.17 60.00 83.33 73.81 76.47 65.00 79.41 62.50 51.85 85.00 69.23 48.15 63.64 69.39 57.14 58.33 80.00 67.86 59.38 60.98 44.00 72.09 70.37 32.14 48.15 69.23 54.17 42.86 63.16 65.38 62.50 76.67 K intron_retention CG18659,E_chr2R_5011363_5019110,RI_chr2R_5013572_5014531,I_chr2R_5016147_5016997 chr2R - chr2R_5011651_5012248 chr2R_5011650_5011651;chr2R_5012248_5012249 chr2R_5011194_5011650;chr2R_5012249_5012725 18.31 20.27 17.86 19.72 17.31 17.54 29.51 16.90 19.83 35.48 23.08 16.50 26.47 17.78 19.05 11.76 19.05 21.43 15.56 13.19 16.33 22.89 23.36 19.27 37.66 17.50 17.27 46.38 24.66 16.67 15.00 16.18 16.10 20.24 22.86 17.91 19.38 16.67 18.55 22.31 27.14 18.69 13.16 16.88 11.61 19.10 18.68 18.31 13.92 16.25 23.26 21.05 17.31 15.05 15.62 24.29 12.79 9.23 K jcn_only_AA APC4,I_chrX_8978433_8978480,RI_chrX_8980352_8980400 chrX + chrX_8978433_8978501 chrX_8978433_8978480 chrX_8978333_8978432;chrX_8978502_8978580 10.00 NA 11.11 10.00 NA NA 20.00 5.00 0.00 NA NA 18.18 NA NA NA 9.38 NA NA NA 17.14 NA NA NA NA NA NA NA NA NA NA NA NA NA 8.00 NA NA NA NA NA 10.00 NA 5.00 NA NA NA NA NA NA 5.56 NA 20.00 NA NA NA NA NA NA NA K intron_retention LIMK1,I_chrX_12488942_12489000 chrX - chrX_12484518_12486000 chrX_12484517_12484518;chrX_12486000_12486001 chrX_12483874_12484517;chrX_12486001_12486193 59.55 NA 71.43 45.83 60.00 45.45 64.71 59.09 54.05 87.50 42.86 60.87 55.56 50.00 64.29 65.00 54.55 58.82 57.14 57.58 63.64 75.86 63.16 50.00 NA NA 72.73 77.78 53.57 54.55 47.06 77.78 56.52 68.18 47.06 55.00 83.33 90.00 41.67 63.64 78.57 48.15 63.64 72.73 NA 75.00 NA 66.00 52.63 NA 43.75 NA NA NA 58.82 NA NA 73.68 K intron_retention Crk,RI_chr4_231302_233315,I_chr4_231307_232253 chr4 + chr4_230989_231063 chr4_230988_230989;chr4_231063_231064 chr4_230979_230988;chr4_231064_231112 95.83 93.75 85.00 100.00 NA 100.00 97.62 97.22 98.00 NA 100.00 96.00 100.00 95.45 93.75 90.91 94.12 100.00 95.83 97.30 90.00 100.00 93.75 100.00 100.00 92.31 100.00 88.89 NA 72.73 100.00 100.00 NA 97.14 100.00 NA 84.62 100.00 NA 90.00 NA 87.88 92.31 94.12 100.00 100.00 92.86 91.67 89.74 100.00 92.86 91.67 NA 88.89 100.00 91.67 93.75 100.00 K intron_retention msn,RI_chr3L_2557071_2557135,F_chr3L_2558036_2563817,I_chr3L_2558390_2561931,I_chr3L_2558393_2560115,I_chr3L_2579521_2586402,I_chr3L_2585716_2586402,I_chr3L_2585733_2586036,I_chr3L_2585739_2586413 chr3L - chr3L_2557077_2557135 chr3L_2557076_2557077;chr3L_2557135_2557136 chr3L_2556942_2557076;chr3L_2557136_2557235 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.31 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.39 1.43 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD sd,noncoding_23930,RI_chrX_15706472_15707633,RI_chrX_15706568_15707633 chrX + chrX_15706472_15707633;chrX_15706564_15707633 chrX_15706568_15707633 chrX_15707634_15707635;chrX_15706468_15706471 11.28 NA NA NA NA NA NA NA 13.04 NA NA NA NA NA NA NA NA NA NA 9.52 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD wdb,I_chr3R_23394314_23406731,I_chr3R_23394314_23406794,I_chr3R_23394314_23407159,RI_chr3R_23394314_23407186,I_chr3R_23394314_23407412,I_chr3R_23394314_23407715,I_chr3R_23394314_23407721,RI_chr3R_23406048_23406731,RI_chr3R_23406048_23406794,I_chr3R_23406048_23406928,RI_chr3R_23406048_23407402 chr3R - chr3R_23406048_23406928;chr3R_23406048_23407402;chr3R_23406048_23407723 chr3R_23406048_23406865 chr3R_23405948_23406047;chr3R_23407724_23407815 4.76 NA 3.85 0.00 NA NA 16.67 6.06 5.88 NA NA 6.98 NA 15.38 0.00 20.83 4.55 NA NA 3.70 NA 10.14 4.76 0.00 3.70 0.00 3.45 NA 0.00 5.00 4.35 10.00 NA 7.14 14.29 5.41 3.12 0.00 NA 4.65 0.00 13.04 NA 4.55 4.76 NA 20.00 3.33 11.63 0.00 4.88 NA NA NA 8.00 NA NA NA K cassette CG17471,RI_chr4_1213397_1214333,RI_chr4_1213397_1216053,RI_chr4_1214248_1214333,I_chr4_1214293_1214333,I_chr4_1215995_1216053,I_chr4_1216718_1217333,I_chr4_1217104_1217410 chr4 - chr4_1213397_1214333 chr4_1213397_1214185;chr4_1214248_1214333 chr4_1214186_1214247 chr4_1213332_1213396;chr4_1214334_1214402 82.35 80.95 85.00 64.71 100.00 90.48 77.42 78.38 81.25 NA 87.50 81.48 100.00 88.24 90.91 87.80 75.00 66.67 81.82 77.78 88.89 90.00 100.00 92.31 NA 77.78 82.35 NA NA 60.00 74.29 79.17 80.95 82.93 85.00 76.92 90.00 66.67 80.00 81.82 80.00 87.50 93.75 80.77 88.89 82.93 95.65 75.00 89.36 92.00 95.45 80.00 83.33 76.47 83.33 94.12 68.00 70.27 K jcn_only_AD Gli chr2L - chr2L_15760575_15762688 chr2L_15760575_15762568 chr2L_15760402_15760574;chr2L_15762689_15762723 50.00 NA NA NA NA NA NA NA 50.00 40.00 NA NA NA NA NA NA NA NA NA 45.45 NA NA NA NA NA NA NA NA 33.33 NA NA NA 38.71 50.00 NA NA NA NA NA 62.50 42.31 56.67 NA 45.45 NA 70.00 NA 50.88 51.43 NA NA NA NA NA NA NA NA NA K intron_retention Cctgamma chr3R + chr3R_12474357_12474422 chr3R_12474356_12474357;chr3R_12474422_12474423 chr3R_12473857_12474356;chr3R_12474423_12475700 0.00 0.00 0.00 0.14 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.19 0.19 0.00 0.00 0.41 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.30 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor Hcf,I_chr4_384272_384649,I_chr4_391984_392875 chr4 + chr4_384266_384493 chr4_384272_384493 chr4_384494_384649;chr4_384172_384265 21.15 20.69 20.37 15.94 17.65 18.18 19.72 22.97 21.90 27.78 13.33 20.34 18.42 21.05 10.87 21.15 23.53 19.57 18.00 19.74 21.21 28.57 25.00 15.38 28.57 24.44 22.73 41.18 23.81 33.33 16.22 14.29 23.53 20.90 36.84 25.00 18.92 21.74 24.32 20.83 NA 21.95 10.71 12.20 35.71 29.41 20.00 25.00 17.65 21.05 26.67 16.67 25.00 NA 17.86 37.50 28.57 27.27 K alternative_donor CG1074,I_chr3R_261173_261244,RI_chr3R_265878_265942 chr3R + chr3R_259882_260376 chr3R_259909_260376 chr3R_260377_261172;chr3R_259736_259881 100.00 100.00 100.00 100.00 NA 90.91 100.00 94.74 100.00 100.00 100.00 100.00 100.00 90.91 100.00 95.00 NA 100.00 100.00 96.30 100.00 100.00 100.00 100.00 100.00 92.31 100.00 100.00 100.00 100.00 92.86 95.00 95.83 100.00 100.00 100.00 NA 100.00 100.00 96.15 100.00 95.45 100.00 100.00 100.00 100.00 90.91 100.00 96.00 100.00 95.00 100.00 100.00 100.00 92.86 88.89 100.00 97.50 K intron_retention Aldh-III,RE_chr2R_3355332_3355720,I_chr2R_3356541_3356614,RI_chr2R_3357578_3357636,I_chr2R_3361118_3361226,I_chr2R_3361349_3361499 chr2R - chr2R_3355332_3356614 chr2R_3355331_3355332;chr2R_3356614_3356615 chr2R_3355296_3355331;chr2R_3356615_3356666 42.86 42.50 33.33 70.73 40.54 31.58 63.64 55.74 53.62 53.33 53.85 52.94 62.50 50.00 52.63 28.57 46.67 58.82 44.44 32.63 56.25 26.47 51.22 34.88 37.84 33.33 57.69 57.14 42.86 31.03 44.44 33.33 36.36 47.27 40.00 72.73 32.43 33.33 32.73 37.25 10.81 48.44 58.33 44.12 35.00 26.53 31.25 46.15 50.00 41.38 46.15 47.62 41.67 33.33 40.82 27.91 39.13 48.15 K alternative_donor eIF-5A,I_chr2R_19945430_19946454,I_chr2R_19945576_19946006,I_chr2R_19945723_19946006,I_chr2R_19945783_19946006,I_chr2R_19945852_19946006,I_chr2R_19945875_19946006,I_chr2R_19945921_19946006,I_chr2R_19946299_19946454,I_chr2R_19946657_19946733,I_chr2R_19948517_19948682 chr2R + chr2R_19945576_19946006;chr2R_19945921_19946006;chr2R_19945426_19946006;chr2R_19945430_19946006 chr2R_19945875_19946006 chr2R_19946007_19946106;chr2R_19945343_19945425 0.17 0.17 0.06 0.29 0.00 0.07 0.26 0.17 0.22 0.35 0.11 0.13 0.19 0.09 0.05 0.09 0.14 0.08 0.07 0.15 0.08 0.22 0.52 0.35 0.13 0.14 1.53 0.75 0.85 0.22 0.24 0.16 0.19 0.09 0.19 0.58 0.26 0.32 0.21 0.10 0.18 0.18 0.10 0.15 0.07 0.24 0.26 0.11 0.11 0.52 0.68 0.24 0.09 0.21 0.05 0.23 0.12 0.07 K alternative_donor beta-Spec chrX + chrX_17551983_17555021 chrX_17551995_17555021 chrX_17555022_17561265;chrX_17551926_17551982 100.00 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention Dcp2,F_chr3L_15815909_15816023,F_chr3L_15817090_15817547 chr3L - chr3L_15816282_15816346 chr3L_15816281_15816282;chr3L_15816346_15816347 chr3L_15816063_15816281;chr3L_15816347_15816855 0.00 0.00 0.00 0.86 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.68 0.00 0.00 4.44 0.00 5.17 0.00 29.69 0.00 0.00 0.00 0.00 0.00 0.00 7.27 2.60 0.00 1.59 0.00 3.85 1.48 0.00 3.70 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 K alternative_acceptor Kap3 chrX - chrX_11228955_11229028 chrX_11228967_11229028 chrX_11229029_11229285;chrX_11228715_11228954 97.22 100.00 93.75 100.00 90.91 100.00 95.24 95.45 90.91 100.00 100.00 100.00 90.91 100.00 92.31 100.00 100.00 92.86 100.00 97.50 90.00 96.67 97.30 96.43 92.86 92.86 96.30 96.67 100.00 96.30 100.00 100.00 100.00 95.45 100.00 100.00 96.55 100.00 97.22 100.00 91.67 100.00 92.86 96.15 100.00 100.00 95.00 92.86 96.30 100.00 96.15 100.00 93.75 95.00 100.00 95.65 100.00 100.00 K intron_retention CG7158 chr3L - chr3L_21668063_21668121 chr3L_21668062_21668063;chr3L_21668121_21668122 chr3L_21667494_21668062;chr3L_21668122_21668273 0.00 0.00 0.00 5.71 0.00 0.00 0.00 0.00 3.92 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.00 18.18 25.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.86 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 10.00 0.00 0.00 0.00 0.00 K alternative_donor scra,EI_chr2R_3480349_3480405 chr2R + chr2R_3480339_3480405 chr2R_3480349_3480405 chr2R_3480406_3480505;chr2R_3480249_3480338 0.00 0.00 0.00 0.31 0.00 0.56 0.00 0.00 0.32 0.99 0.00 0.00 0.00 0.00 0.48 0.00 0.72 0.00 0.00 0.23 0.00 0.00 0.40 0.00 0.00 0.00 0.51 1.01 0.00 0.42 1.21 0.00 0.00 0.00 0.00 0.00 0.41 0.00 0.00 0.27 0.00 0.27 0.00 0.00 0.34 0.00 0.00 0.45 0.30 0.00 0.00 0.91 0.00 0.00 0.46 0.00 0.00 0.39 K alternative_acceptor CycA,RE_chr3L_11825347_11826111 chr3L - chr3L_11825344_11825973 chr3L_11825347_11825973 chr3L_11825974_11826431;chr3L_11825247_11825343 73.77 79.25 67.86 73.33 84.44 78.18 80.00 79.45 69.23 72.92 70.83 72.22 73.47 74.42 74.07 77.59 80.56 77.42 70.69 75.63 75.56 72.09 74.68 75.00 76.47 73.58 73.77 55.17 78.95 77.78 74.55 84.85 70.93 68.89 73.33 75.00 66.67 72.73 67.92 65.91 72.50 73.96 76.19 65.62 69.81 73.08 72.22 77.22 76.19 66.67 81.54 76.74 64.71 70.27 77.78 72.73 58.62 75.00 K jcn_only_AA fbp,RI_chr2L_19763745_19764069 chr2L - chr2L_19762832_19764069;chr2L_19763498_19764069 chr2L_19763745_19764069 chr2L_19764070_19764120 15.38 NA 20.00 0.00 NA NA NA 13.89 12.73 13.79 NA 18.52 NA NA NA 28.00 NA NA 8.70 18.52 NA 12.50 NA 16.13 NA NA NA NA NA NA 24.14 NA 23.08 15.38 NA NA 14.81 NA 3.33 14.74 NA 20.69 22.73 10.00 NA 32.14 NA 24.14 18.75 0.00 10.71 NA NA 5.00 18.75 NA 9.09 44.00 K intron_retention RagC,CG30373 chr2R - chr2R_4049934_4049992 chr2R_4049933_4049934;chr2R_4049992_4049993 chr2R_4049791_4049933;chr2R_4049993_4050055 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.23 0.00 0.00 0.00 1.41 0.00 0.00 0.00 2.56 0.00 0.00 0.00 0.00 0.00 2.33 0.00 4.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 16.00 0.00 0.00 0.00 0.00 0.00 0.00 5.00 0.00 0.00 2.70 0.00 0.00 1.45 1.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.56 K cassette cnn,I_chr2R_9333096_9336723,I_chr2R_9333096_9336812,RI_chr2R_9334834_9336719,I_chr2R_9347031_9370659 chr2R - chr2R_9333096_9336501 chr2R_9333096_9334636;chr2R_9334834_9336501 chr2R_9334637_9334833 chr2R_9333052_9333095;chr2R_9336502_9336659 100.00 100.00 100.00 95.83 100.00 100.00 96.55 96.43 100.00 93.33 100.00 100.00 100.00 100.00 100.00 100.00 90.00 90.00 94.12 100.00 100.00 80.00 91.67 88.24 92.86 100.00 90.91 96.15 90.91 95.45 100.00 100.00 95.00 96.00 100.00 100.00 94.12 100.00 92.31 91.43 86.67 100.00 100.00 96.88 100.00 95.00 100.00 100.00 96.15 100.00 90.91 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K cassette Nop60B,RI_chr2R_20063248_20063455,I_chr2R_20063248_20063949,F_chr2R_20073291_20073744 chr2R + chr2R_20063248_20063949 chr2R_20063248_20063439;chr2R_20063715_20063949 chr2R_20063440_20063714 chr2R_20063148_20063247;chr2R_20063950_20064049 100.00 100.00 100.00 99.10 100.00 100.00 99.75 99.78 99.75 100.00 99.65 100.00 100.00 100.00 99.74 100.00 100.00 99.69 99.67 99.65 100.00 99.82 99.87 99.85 100.00 100.00 100.00 100.00 100.00 100.00 99.67 100.00 99.78 100.00 100.00 99.75 100.00 99.85 99.88 100.00 99.66 100.00 99.61 99.78 99.77 100.00 100.00 99.67 99.87 99.85 100.00 99.73 99.89 100.00 100.00 100.00 100.00 99.75 K intron_retention CG3744,I_chr3R_20701248_20701968 chr3R - chr3R_20701248_20701968 chr3R_20701247_20701248;chr3R_20701968_20701969 chr3R_20701148_20701247;chr3R_20701969_20702068 100.00 100.00 100.00 100.00 100.00 100.00 92.86 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 96.55 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.83 100.00 100.00 94.44 100.00 100.00 97.83 100.00 100.00 92.86 100.00 100.00 100.00 100.00 97.56 100.00 100.00 97.14 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Src42A chr2R + chr2R_1898615_1898675 chr2R_1898614_1898615;chr2R_1898675_1898676 chr2R_1898446_1898614;chr2R_1898676_1898842 0.00 0.00 0.00 0.00 0.00 1.67 0.00 0.00 0.00 0.00 0.00 0.73 0.00 0.00 1.11 0.00 0.00 0.00 1.32 2.26 0.00 0.00 0.98 0.00 0.00 1.23 2.44 2.63 0.00 0.00 0.00 0.00 0.00 3.06 0.00 0.00 0.00 0.00 0.00 2.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.87 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Cht2,I_chr3L_1754361_1754605,I_chr3L_1754361_1754860 chr3L - chr3L_1754361_1755586 chr3L_1754360_1754361;chr3L_1755586_1755587 chr3L_1754261_1754360;chr3L_1755587_1755934 10.53 NA NA 0.00 NA NA NA NA 15.00 NA NA 13.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 6.25 NA NA NA NA NA NA 10.53 NA NA NA NA NA NA NA NA NA K jcn_only_AA Updo chr2R + chr2R_5472307_5472432 chr2R_5472307_5472426 chr2R_5472269_5472306;chr2R_5472433_5473176 0.00 1.33 1.03 1.65 0.00 0.00 0.00 0.84 0.84 0.00 0.00 0.61 0.00 0.00 1.00 0.00 0.00 0.00 2.13 0.55 0.00 1.03 0.00 0.00 0.00 0.00 0.00 0.96 0.00 0.00 0.84 0.00 0.00 1.79 1.22 1.47 1.25 1.08 0.00 0.82 0.00 0.61 0.00 0.00 1.32 1.63 0.00 0.00 1.92 0.00 0.00 0.00 0.00 0.00 0.00 1.23 0.00 0.00 K alternative_acceptor msps,I_chr3R_11877071_11877796 chr3R + chr3R_11885407_11885463 chr3R_11885407_11885460 chr3R_11885207_11885406;chr3R_11885464_11886397 98.55 98.68 98.70 98.31 98.04 98.61 96.67 96.88 98.16 100.00 97.96 99.28 98.57 100.00 97.37 98.29 98.48 98.36 98.73 94.74 98.53 98.70 99.13 98.33 98.70 100.00 98.11 97.96 100.00 98.55 98.82 98.33 98.85 99.19 98.70 98.55 96.74 97.18 96.72 98.61 98.61 98.74 98.31 97.26 100.00 97.32 97.87 99.02 99.21 99.10 97.01 98.11 98.04 98.46 99.07 97.83 98.95 98.84 K multi_cassette noncoding_24933,sw chrX - chrX_20101671_20105848 chrX_20101671_20103190;chrX_20103239_20104496;chrX_20104518_20105848 chrX_20103191_20103238;chrX_20104497_20104517 chrX_20101515_20101670;chrX_20105849_20105976 100.00 NA NA NA NA NA NA 100.00 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA K jcn_only_AD Msp-300,I_chr2L_5154189_5154247,I_chr2L_5197634_5197866 chr2L + chr2L_5148883_5154247 chr2L_5152356_5154247 chr2L_5154248_5154347 8.61 0.00 2.70 8.33 7.41 14.81 5.26 12.82 9.17 NA 3.23 12.00 6.38 10.26 11.76 12.00 10.87 5.56 19.35 8.20 25.00 5.56 12.12 NA NA 6.90 NA NA NA NA 16.67 NA 4.55 5.63 NA NA 3.12 NA NA NA NA 10.91 6.90 15.00 NA NA NA 5.00 11.11 NA NA NA NA NA 8.89 NA NA NA K jcn_only_AD Mtor,I_chr2R_7747557_7747819 chr2R + chr2R_7747557_7747819 chr2R_7747569_7747819 chr2R_7747820_7747919;chr2R_7747457_7747556 100.00 100.00 100.00 98.94 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.25 100.00 100.00 97.96 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.43 99.46 100.00 100.00 100.00 99.26 100.00 98.90 100.00 100.00 100.00 100.00 99.14 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.17 100.00 100.00 100.00 100.00 99.40 100.00 100.00 100.00 100.00 100.00 100.00 99.36 99.50 K intron_retention CG8486,I_chr2L_8182451_8183191 chr2L + chr2L_8176052_8176572 chr2L_8176051_8176052;chr2L_8176572_8176573 chr2L_8175995_8176051;chr2L_8176573_8176806 0.00 0.00 0.00 0.81 0.00 0.00 0.00 0.00 0.00 0.00 1.18 0.00 0.00 0.00 0.00 2.02 0.00 0.00 0.00 0.00 0.00 2.88 0.96 2.60 0.00 0.00 0.00 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.04 0.00 0.00 0.00 0.00 2.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor CG18643,F_chr3R_7256294_7256363 chr3R + chr3R_7255993_7256060 chr3R_7255997_7256060 chr3R_7256061_7256293;chr3R_7255963_7255992 5.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 5.00 NA NA NA 7.69 NA NA NA NA 4.35 K intron_retention sprt,CG30022 chr2R - chr2R_7272948_7273060 chr2R_7272947_7272948;chr2R_7273060_7273061 chr2R_7272275_7272947;chr2R_7273061_7274101 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 0.00 NA NA NA NA NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 2.13 1.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA CG3262 chr2L + chr2L_22240104_22240169 chr2L_22240104_22240153 chr2L_22239906_22240103;chr2L_22240170_22240402 41.09 49.02 35.51 44.27 42.59 40.38 42.66 36.18 46.29 31.96 36.69 39.95 51.26 39.08 36.33 42.24 37.50 37.50 38.18 34.34 35.33 42.74 36.14 39.84 46.34 43.41 39.04 31.51 43.72 50.94 18.66 42.39 45.42 37.87 45.30 31.79 35.29 45.14 43.60 40.11 54.21 39.46 34.10 44.13 53.50 43.79 41.95 41.09 37.50 41.08 50.57 44.08 41.33 45.21 36.58 42.07 40.48 46.92 K intron_retention RI_chrX_1796525_1796585,mip130,I_chrX_1820956_1821011,CG11596 chrX + chrX_1821953_1822366 chrX_1821952_1821953;chrX_1822366_1822367 chrX_1821726_1821952;chrX_1822367_1822613 0.00 0.00 0.00 3.12 0.00 0.00 0.00 0.00 0.79 0.00 0.00 1.64 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.19 0.00 0.00 1.10 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.00 0.00 1.67 0.00 0.00 0.00 0.00 4.17 0.00 0.00 0.00 0.00 0.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K multi_cassette KCNQ,I_chr2R_6034329_6034563,I_chr2R_6039928_6040408 chr2R - chr2R_6035658_6038360 chr2R_6035658_6036137;chr2R_6036600_6036852;chr2R_6036946_6038360 chr2R_6036138_6036599;chr2R_6036853_6036945 chr2R_6035587_6035657;chr2R_6038361_6038372 100.00 NA NA NA NA NA NA 75.00 NA NA NA NA NA NA NA NA NA NA NA 100.00 NA 40.00 NA 100.00 NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA 100.00 75.00 NA NA NA NA 100.00 NA NA 100.00 100.00 NA NA NA NA NA NA NA NA 83.33 K alternative_last_exon spi,I_chr2L_19569183_19577185,I_chr2L_19569227_19572142,I_chr2L_19569227_19577173 chr2L - chr2L_19569227_19572499 chr2L_19571768_19572499 chr2L_19567812_19569226 chr2L_19571572_19571767 chr2L_19572500_19572711 65.79 85.48 76.32 50.94 81.25 60.00 69.57 65.79 50.00 22.00 50.00 57.33 52.00 41.03 60.00 78.43 86.67 88.46 54.72 78.65 89.66 42.11 58.71 77.27 50.00 70.00 73.85 36.84 51.28 84.91 68.52 54.76 67.89 69.84 70.79 81.08 36.67 61.73 58.23 38.79 67.11 69.51 84.62 47.37 61.54 69.09 72.92 56.80 70.00 51.81 78.90 58.73 44.44 51.04 68.52 72.37 56.52 84.31 K jcn_only_AA CG1637,I_chrX_10767807_10771447 chrX - chrX_10766073_10771447;chrX_10767742_10771447;chrX_10770030_10771447 chrX_10770033_10771447 chrX_10771448_10771547 2.29 0.82 2.70 0.00 3.91 0.79 0.00 1.01 0.62 4.11 4.42 2.46 0.78 0.67 1.86 2.38 2.56 5.93 4.38 1.59 5.22 2.07 0.76 3.66 0.79 1.22 3.52 3.14 2.44 3.76 2.33 3.70 2.61 2.31 0.00 0.61 2.56 1.41 2.07 1.93 0.00 2.79 0.94 2.29 5.80 2.60 3.23 2.73 2.19 0.51 1.87 0.00 1.71 2.89 2.01 3.51 2.09 2.91 K cassette Sulf1,I_chr3R_12140969_12163566,I_chr3R_12140969_12165032,I_chr3R_12147892_12156641,EI_chr3R_12156679_12165032 chr3R - chr3R_12140969_12163566 chr3R_12140969_12156641;chr3R_12156679_12163566 chr3R_12156642_12156678 chr3R_12140869_12140968;chr3R_12163567_12163666 100.00 NA NA NA NA NA NA 100.00 88.89 NA NA 100.00 NA 100.00 NA NA NA NA NA NA NA 85.71 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA K alternative_acceptor Su(var)2-10,RI_chr2R_5006333_5006392 chr2R + chr2R_5006553_5008568;chr2R_5006553_5008282;chr2R_5006553_5007804 chr2R_5006553_5008598 chr2R_5006405_5006552;chr2R_5008599_5008637 1.61 2.27 4.76 0.00 0.00 3.03 3.03 0.00 1.20 4.65 0.00 0.00 0.00 0.00 0.00 2.00 0.00 3.57 0.00 0.98 3.23 0.00 2.56 1.79 0.00 0.00 1.72 5.41 5.00 0.00 0.00 3.92 1.47 1.67 4.76 1.69 1.69 6.25 3.33 1.06 0.00 0.00 0.00 0.00 4.55 1.69 2.27 1.47 0.00 3.51 1.61 2.78 2.33 0.00 0.00 5.56 5.36 0.00 K intron_retention Ptp99A,I_chr3R_25302126_25302175 chr3R + chr3R_25308795_25308851 chr3R_25308794_25308795;chr3R_25308851_25308852 chr3R_25308239_25308794;chr3R_25308852_25309120 0.00 0.00 NA 4.00 NA 0.00 0.00 0.00 3.85 0.00 0.00 3.85 5.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.03 NA 5.88 0.00 0.00 NA 0.00 0.00 0.00 0.00 2.33 0.00 0.00 0.00 NA 0.00 NA 0.00 NA NA 0.00 NA 4.26 0.00 0.00 0.00 0.00 0.00 3.57 NA 0.00 0.00 K intron_retention msb1l chr2L + chr2L_19577975_19578039 chr2L_19577974_19577975;chr2L_19578039_19578040 chr2L_19577735_19577974;chr2L_19578040_19579131 1.48 1.74 1.15 2.99 1.28 0.00 0.93 1.32 0.59 0.00 0.00 1.69 1.03 2.22 0.79 1.71 0.00 0.00 2.75 0.00 0.00 5.88 0.81 3.76 0.00 1.79 0.00 3.03 1.82 0.00 0.00 0.00 2.56 2.00 2.22 0.00 1.94 2.04 1.48 2.75 0.00 2.02 1.06 0.00 0.00 0.00 2.54 2.60 1.48 0.00 1.61 2.08 1.75 2.50 3.85 2.63 2.78 2.22 K alternative_acceptor I_chr4_913576_919018,I_chr4_924098_927699,RI_chr4_927771_929704,CG32021,RI_chr4_928180_928245,RI_chr4_928193_928245,I_chr4_928482_929704,I_chr4_929811_932812 chr4 - chr4_928177_928245;chr4_928180_928245 chr4_928193_928245 chr4_928246_928314;chr4_928109_928176 22.50 25.00 20.00 43.59 22.50 15.91 14.05 32.26 26.53 18.52 25.00 28.12 27.03 40.48 25.32 22.86 24.32 19.57 21.74 29.07 15.91 31.61 27.55 22.50 21.54 30.61 35.34 32.58 25.64 17.72 20.00 23.68 43.08 25.00 20.31 24.00 17.72 25.00 20.22 15.50 29.09 20.43 22.00 14.29 20.75 16.22 25.00 16.85 27.84 15.19 15.00 16.36 25.00 18.92 21.82 18.75 22.22 31.25 K alternative_acceptor trc,I_chr3L_19826244_19826323 chr3L - chr3L_19825813_19825869 chr3L_19825825_19825869 chr3L_19825870_19825976;chr3L_19825328_19825812 9.43 2.94 8.70 18.75 8.33 8.33 12.00 12.00 11.11 2.94 3.85 9.43 12.00 15.00 8.33 10.71 6.25 4.00 17.65 9.52 4.17 10.91 7.46 9.43 7.89 4.17 10.71 23.21 3.77 15.79 17.86 8.70 11.11 10.00 10.00 7.89 11.86 6.25 12.50 10.87 9.30 10.91 3.85 11.76 12.82 6.12 5.26 8.33 13.89 11.63 3.85 10.00 10.81 17.14 8.57 6.38 8.82 7.32 N jcn_only_AA cana,cana_CG33695 chr2L + chr2L_11271534_11272684 chr2L_11271534_11272496 chr2L_11270698_11271533 0.00 NA NA 0.00 NA NA 0.00 0.00 0.00 NA NA 0.00 NA NA NA 0.00 NA NA NA 0.00 0.00 24.32 NA NA NA NA NA NA NA NA 0.00 NA 0.00 0.00 NA 0.00 0.00 NA NA 0.00 0.00 0.00 NA NA NA NA NA 0.00 0.00 NA NA NA NA NA 0.00 NA NA NA K cassette CG8671,I_chr2L_21275807_21277205 chr2L + chr2L_21278430_21281131;chr2L_21275807_21281131 chr2L_21278430_21279883,chr2L_21275807_21279883;chr2L_21280448_21281131 chr2L_21279884_21280447 chr2L_21275724_21275806;chr2L_21281132_21281337 6.56 3.45 8.70 18.33 6.82 7.32 10.14 7.23 8.55 9.43 5.56 6.25 5.13 7.41 10.00 4.00 6.67 5.00 3.45 10.43 5.41 10.13 8.33 7.53 6.78 3.70 8.33 9.43 13.64 5.26 9.26 4.00 7.89 5.68 7.94 12.86 7.69 8.47 7.50 4.00 3.77 7.87 4.44 6.49 6.52 4.00 4.62 4.29 8.16 3.37 5.88 6.56 5.77 5.08 5.17 5.63 4.11 4.23 K intron_retention Syx13,RI_chr3L_13037959_13038017,CG11279 chr3L + chr3L_13037666_13038017 chr3L_13037665_13037666;chr3L_13038017_13038018 chr3L_13037535_13037665;chr3L_13038018_13038117 17.46 20.00 15.79 28.57 10.87 8.70 21.67 12.33 20.43 15.09 21.43 14.29 11.90 8.16 17.81 25.00 11.63 10.42 21.05 12.93 19.15 30.13 20.99 18.99 20.31 23.40 18.00 17.86 22.58 23.81 21.43 16.36 12.90 11.94 10.94 29.51 26.09 21.57 19.51 15.06 20.00 16.52 17.14 10.34 16.28 10.89 10.11 9.09 13.68 19.30 22.62 22.58 12.73 17.46 11.86 12.00 18.75 16.88 K jcn_only_AD tral,I_chr3L_12511355_12511540,I_chr3L_12512171_12512251 chr3L + chr3L_12511325_12511537 chr3L_12511355_12511537 chr3L_12511538_12511767;chr3L_12511255_12511324 82.46 82.17 87.68 76.50 86.08 86.06 81.79 84.26 85.82 73.28 85.33 87.97 85.29 91.67 83.12 91.08 88.30 85.00 88.52 86.42 87.50 73.02 80.09 79.94 85.71 88.80 81.14 78.18 86.58 77.55 82.74 84.09 84.76 82.48 80.52 74.81 78.22 76.90 79.38 59.29 83.42 86.81 82.35 75.15 77.26 73.68 77.53 82.46 87.03 73.90 80.27 81.70 81.76 78.74 87.09 81.00 80.07 83.91 K jcn_only_AD RI_chr3L_201061_201173,NitFhit,I_chr3L_212783_212843 chr3L + chr3L_203762_203843 chr3L_203791_203843 chr3L_203844_205311;chr3L_203699_203761 100.00 NA 100.00 98.39 100.00 100.00 100.00 100.00 100.00 NA 92.00 100.00 95.24 NA 97.30 100.00 93.33 97.78 100.00 98.59 100.00 100.00 NA NA NA 100.00 NA NA 95.83 100.00 96.15 100.00 98.97 98.08 NA NA NA NA NA 100.00 96.88 96.83 100.00 NA 100.00 100.00 NA 100.00 97.10 NA NA NA NA NA 97.50 NA NA 98.59 K alternative_acceptor CG9007,I_chr3L_13995402_13996269,I_chr3L_13995402_13996272,I_chr3L_13995402_13996296,I_chr3L_13995480_13996292,RI_chr3L_14010982_14011111 chr3L + chr3L_13995402_13996272;chr3L_13995402_13996292;chr3L_13995402_13996269 chr3L_13995402_13996296 chr3L_13995380_13995401;chr3L_13996297_13996360 5.57 NA 12.50 7.14 NA NA 0.00 5.26 6.67 NA NA 0.00 NA NA 14.29 10.53 NA NA 12.50 12.50 NA NA 0.00 0.00 NA NA NA NA NA NA 0.00 NA NA 9.09 0.00 NA NA NA NA NA NA 0.00 0.00 NA NA NA NA 0.00 5.88 NA NA NA NA NA 10.00 NA NA NA K intron_retention CG32809,I_chrX_1577031_1577129,CEI_chrX_1579569_1579679,RI_chrX_1585391_1586471,I_chrX_1589508_1589564 chrX - chrX_1578591_1578663 chrX_1578590_1578591;chrX_1578663_1578664 chrX_1578486_1578590;chrX_1578664_1578729 0.00 NA NA 0.00 NA 0.00 NA 0.00 0.00 7.69 0.00 11.11 NA NA NA NA NA NA NA 0.00 NA 9.52 0.00 0.00 0.00 0.00 NA NA 12.50 0.00 0.00 NA 11.76 NA NA 0.00 0.00 NA 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 NA 12.00 0.00 NA 0.00 NA NA NA NA NA NA NA K intron_retention spn-A,I_chr3R_25881521_25881590 chr3R - chr3R_25881521_25881583 chr3R_25881520_25881521;chr3R_25881583_25881584 chr3R_25881421_25881520;chr3R_25881584_25881755 0.00 0.00 0.00 1.15 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.03 0.00 0.00 2.70 2.41 0.00 0.00 1.82 2.67 0.00 0.00 2.78 0.00 0.00 2.50 5.13 10.00 5.08 0.00 2.90 0.00 0.00 2.15 0.00 2.04 0.00 0.00 0.00 0.00 3.64 0.00 0.00 0.00 0.00 0.00 0.00 1.80 0.00 2.08 0.00 0.00 0.00 0.00 2.53 0.00 0.00 0.00 K jcn_only_AD None chrU - chrU_5771599_5771684;chrU_5771599_5771693 chrU_5771599_5771833 1.07 0.95 0.61 0.84 1.23 1.38 1.46 1.13 1.00 0.81 0.50 1.07 1.30 1.24 0.41 0.62 0.45 0.78 0.57 0.98 0.26 0.81 3.04 1.58 1.72 0.86 0.96 1.13 1.81 0.81 0.79 0.80 1.29 1.18 1.36 2.16 1.26 1.32 1.62 1.64 0.67 1.41 0.85 0.81 1.05 1.20 1.16 0.76 1.11 1.84 1.37 1.58 0.40 1.07 0.87 1.83 1.71 0.67 K cassette Pfk,I_chr2R_5999081_6000140,E_chr2R_6001157_6001630 chr2R + chr2R_6000676_6002421;chr2R_6001157_6002421 chr2R_6000676_6001630,chr2R_6001157_6001630;chr2R_6001740_6002421 chr2R_6001631_6001739 chr2R_6000521_6000675;chr2R_6002422_6002610 32.43 32.35 32.43 23.26 56.00 42.86 36.00 52.78 39.53 26.87 41.38 36.84 60.00 40.00 42.11 68.42 26.67 17.65 66.67 51.22 37.04 9.89 34.74 24.71 36.21 43.75 26.60 19.23 15.00 38.60 42.50 28.57 36.73 50.00 29.79 13.64 32.41 27.94 26.40 31.75 25.00 33.85 29.41 33.82 25.42 27.94 29.69 30.77 40.48 33.77 34.57 42.00 31.03 31.58 48.15 29.31 30.19 23.81 K cassette Edem2 chr2L + chr2L_13195405_13195749 chr2L_13195405_13195580;chr2L_13195680_13195749 chr2L_13195581_13195679 chr2L_13195133_13195404;chr2L_13195750_13197281 100.00 97.56 100.00 100.00 100.00 100.00 100.00 100.00 99.07 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.78 100.00 100.00 100.00 100.00 100.00 100.00 97.14 97.83 100.00 100.00 85.11 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.83 100.00 100.00 98.72 100.00 100.00 97.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_last_exon CG30387,CG30386,I_chr2R_17184688_17191389 chr2R + chr2R_17183719_17191389 chr2R_17183719_17187341 chr2R_17191390_17191524 chr2R_17187342_17187978 chr2R_17183650_17183718 0.00 0.00 0.00 4.17 7.69 0.00 4.55 3.12 2.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.25 0.00 0.00 9.09 4.17 5.56 7.69 0.00 0.00 0.00 11.11 0.00 0.00 NA 7.69 0.00 0.00 9.09 4.17 0.00 4.00 0.00 NA 3.23 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA K jcn_only_AD RI_chr3R_7061265_7061322,CG31388 chr3R + chr3R_7064332_7064678 chr3R_7064623_7064678 chr3R_7064679_7064763;chr3R_7063775_7064331 85.31 NA NA NA NA NA NA NA 80.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 90.62 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K multi_cassette DCAP,E_chr2R_6159586_6174578,I_chr2R_6164310_6172914,I_chr2R_6172307_6179999,I_chr2R_6178643_6181126,RI_chr2R_6183553_6192101,I_chr2R_6188094_6192101 chr2R + chr2R_6172307_6181126 chr2R_6172307_6179999;chr2R_6180378_6180845;chr2R_6180945_6181126 chr2R_6180000_6180377;chr2R_6180846_6180944 chr2R_6172207_6172306;chr2R_6181127_6181226 100.00 75.00 75.00 NA 100.00 100.00 100.00 75.00 80.00 100.00 NA 100.00 100.00 100.00 80.00 100.00 100.00 100.00 100.00 80.00 NA NA 100.00 100.00 100.00 NA 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 NA 75.00 100.00 100.00 100.00 100.00 NA 83.33 NA 100.00 100.00 100.00 100.00 NA 100.00 75.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor CG13937,RI_chr3L_1877663_1877719 chr3L - chr3L_1881477_1882999;chr3L_1881558_1882999 chr3L_1881549_1882999 chr3L_1883000_1883037;chr3L_1881129_1881476 50.00 NA NA NA NA NA NA NA 50.00 NA NA NA NA NA NA 16.67 NA NA NA 44.44 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 50.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 66.67 NA K jcn_only_AA pim chr2L + chr2L_10363139_10363201 chr2L_10363139_10363185 chr2L_10362977_10363138;chr2L_10363202_10363525 0.00 NA NA 0.00 NA NA 0.00 3.12 0.00 NA NA 0.00 0.00 NA NA 0.00 NA NA 0.00 0.00 NA NA NA NA NA 3.85 NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 0.00 NA NA NA NA NA 2.56 NA NA NA NA NA NA NA NA NA K intron_retention CG31211 chr3R + chr3R_7777961_7778362 chr3R_7777960_7777961;chr3R_7778362_7778363 chr3R_7777954_7777960;chr3R_7778363_7778390 26.09 28.57 23.08 26.47 39.13 24.14 34.78 33.33 32.65 19.05 35.00 22.45 39.29 36.84 29.17 34.21 36.36 26.09 29.73 22.81 27.78 21.05 24.49 19.51 46.67 33.33 26.47 27.27 13.04 28.21 35.14 14.29 7.41 25.00 31.82 50.00 21.43 21.21 9.09 24.39 25.00 34.69 26.09 24.32 29.17 28.12 23.81 18.52 32.73 22.73 22.22 21.88 17.86 29.41 37.50 25.58 18.75 21.62 K jcn_only_AD Best1,I_chr3R_5991957_5995913,RI_chr3R_5993184_5995905 chr3R - chr3R_5989579_5990296;chr3R_5989579_5990058 chr3R_5989579_5990440 chr3R_5988921_5989578;chr3R_5990441_5990683 95.61 95.74 96.00 96.27 99.02 94.57 92.45 95.92 97.27 99.21 97.53 98.41 96.67 95.41 92.80 95.00 96.10 97.30 93.75 98.17 93.68 91.55 94.02 97.01 96.43 97.30 94.52 100.00 93.02 98.04 89.31 89.06 92.77 96.73 95.79 94.62 95.31 95.21 97.96 95.94 93.10 96.31 97.53 95.36 96.84 94.41 97.22 95.24 93.79 94.17 93.33 94.23 94.12 95.61 98.11 93.33 89.86 96.30 K cassette Atpalpha,I_chr3R_16788018_16789830,I_chr3R_16792336_16798894,I_chr3R_16792925_16794113 chr3R + chr3R_16783890_16789446;chr3R_16785103_16789446 chr3R_16785103_16787936,chr3R_16783890_16787936;chr3R_16788018_16789446 chr3R_16787937_16788017 chr3R_16783790_16783889;chr3R_16789447_16789578 57.65 52.67 46.43 43.06 31.07 28.33 31.05 41.94 49.50 61.02 12.00 87.36 49.47 43.70 43.97 44.83 27.86 44.79 42.75 72.77 27.96 62.64 62.69 68.00 57.78 44.00 52.63 67.39 77.27 56.32 52.50 70.37 65.87 36.25 57.04 71.32 61.62 65.22 64.42 66.67 65.33 40.67 44.95 60.36 76.27 68.07 59.09 75.00 39.44 51.00 57.65 65.71 61.67 60.47 44.52 63.83 60.94 57.65 K intron_retention Sep1 chrX + chrX_21230732_21230797 chrX_21230731_21230732;chrX_21230797_21230798 chrX_21230539_21230731;chrX_21230798_21231056 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.79 0.00 0.00 0.00 0.00 0.00 1.47 0.00 0.53 0.00 0.00 0.00 0.57 0.00 0.00 1.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.09 0.00 0.00 0.40 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Nacalpha,I_chr2R_8648027_8648303 chr2R - chr2R_8648027_8648305 chr2R_8648026_8648027;chr2R_8648305_8648306 chr2R_8647927_8648026;chr2R_8648306_8648314 3.77 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 3.77 NA NA NA NA NA NA NA NA NA NA NA 2.58 NA NA NA 0.00 NA 30.77 NA NA 20.00 NA NA NA 4.48 NA NA NA NA 0.00 K intron_retention CG7324,I_chr3L_21335553_21335702,I_chr3L_21340055_21342206 chr3L - chr3L_21334616_21334674 chr3L_21334615_21334616;chr3L_21334674_21334675 chr3L_21334467_21334615;chr3L_21334675_21335236 3.20 5.00 0.00 3.92 2.94 2.13 5.47 5.61 6.20 NA 0.00 2.63 3.70 2.04 0.00 4.48 0.00 6.25 6.35 4.60 3.45 0.00 4.76 5.00 0.00 4.17 4.55 0.00 0.00 0.00 6.56 NA 0.00 2.04 0.00 0.00 12.00 6.25 5.00 8.00 0.00 3.16 1.92 7.32 NA 0.00 0.00 NA 6.80 7.69 6.25 3.23 NA NA 1.54 0.00 0.00 NA K intron_retention Pp4-19C,RI_chrX_20293980_20294069,REI_chrX_20294004_20294672 chrX - chrX_20293022_20293085 chrX_20293021_20293022;chrX_20293085_20293086 chrX_20292114_20293021;chrX_20293086_20293979 0.00 0.87 0.00 0.00 0.00 0.00 1.42 1.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.20 1.01 0.00 0.00 0.00 1.20 2.75 2.65 0.00 0.00 0.00 0.00 0.54 0.00 0.00 0.00 0.00 0.53 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD MB8.chr3R.pasa.66,CG1091,I_chr3R_2910490_2910662,RI_chr3R_2910490_2910686,RI_chr3R_2911041_2911135,RI_chr3R_2946518_2946663 chr3R - chr3R_2910490_2910686;chr3R_2910490_2910646 chr3R_2910490_2910662 chr3R_2910390_2910489;chr3R_2910687_2910762 0.00 0.00 0.00 0.00 0.00 1.37 0.00 0.93 0.00 0.00 0.00 0.91 0.00 2.08 1.47 0.00 0.00 0.00 2.27 0.00 0.00 1.89 1.39 0.00 0.00 0.00 2.17 3.12 0.00 0.00 2.26 0.00 0.83 1.92 1.92 0.00 0.00 0.00 0.00 2.42 0.00 0.00 0.00 0.00 1.08 1.37 0.00 0.00 0.00 0.00 0.00 1.69 1.96 0.00 0.00 1.54 0.00 0.76 K intron_retention CG31342,I_chr3R_8813079_8814327,I_chr3R_8822346_8822403 chr3R + chr3R_8816222_8816274 chr3R_8816221_8816222;chr3R_8816274_8816275 chr3R_8816063_8816221;chr3R_8816275_8817262 1.56 0.00 0.78 2.72 0.73 2.44 1.23 1.55 2.22 2.99 2.11 3.57 2.13 1.75 2.92 1.88 2.75 2.38 1.56 1.87 1.71 4.58 3.54 0.00 0.00 0.76 5.19 6.35 2.44 0.00 2.69 0.00 2.02 3.50 0.00 4.12 2.92 0.93 0.00 1.42 1.15 1.59 0.00 1.98 0.00 0.00 1.71 3.85 1.30 0.00 1.52 0.00 0.00 1.05 0.00 0.81 0.00 0.00 K intron_retention CG2694,I_chrX_2609471_2609546,RI_chrX_2622297_2622430,RI_chrX_2622435_2622577 chrX + chrX_2609467_2609546 chrX_2609466_2609467;chrX_2609546_2609547 chrX_2609371_2609466;chrX_2609547_2609646 0.00 NA NA 26.32 NA 0.00 NA 6.25 0.00 14.29 NA 0.00 NA 0.00 12.50 9.52 NA 0.00 0.00 12.00 NA 0.00 20.00 4.17 NA NA 15.00 NA NA 0.00 0.00 NA 0.00 0.00 NA NA 6.67 NA 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 NA 0.00 12.50 10.53 0.00 0.00 NA NA 0.00 NA NA NA K intron_retention step,I_chr2L_21743972_21757163,RI_chr2L_21747333_21756553,CREI_chr2L_21753815_21756553 chr2L - chr2L_21756628_21757163 chr2L_21756627_21756628;chr2L_21757163_21757164 chr2L_21756554_21756627;chr2L_21757164_21757263 0.00 0.00 2.38 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.25 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.89 0.00 2.86 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG7611,I_chr3L_21516702_21517821 chr3L + chr3L_21516399_21517821 chr3L_21516398_21516399;chr3L_21517821_21517822 chr3L_21516383_21516398;chr3L_21517822_21517920 63.07 NA NA 53.33 NA NA 70.59 53.85 72.22 NA NA 56.25 NA NA 54.55 54.55 NA NA NA 68.75 NA 50.00 64.29 NA NA NA 63.64 90.00 80.00 NA NA NA NA 58.33 NA NA 62.50 NA NA 53.33 NA 65.00 NA 50.00 NA NA NA NA 64.29 NA NA NA NA NA 63.64 NA NA NA K jcn_only_AA eIF-4a,I_chr2L_5985221_5985289 chr2L + chr2L_5985221_5985289;chr2L_5985221_5985338 chr2L_5985221_5985342 chr2L_5985121_5985220;chr2L_5985343_5985389 1.01 1.27 0.95 1.14 0.88 1.14 1.41 0.93 1.18 0.93 0.91 1.14 0.86 0.65 1.33 1.16 1.05 1.46 1.26 0.86 0.94 0.52 0.96 1.16 0.74 0.95 1.17 0.87 1.30 0.45 1.19 1.16 0.73 1.14 0.99 0.79 1.35 0.88 1.16 0.54 0.79 1.01 1.35 1.12 1.13 0.78 0.92 1.16 0.96 0.98 0.96 1.14 1.17 1.33 1.19 1.01 1.19 0.89 K intron_retention Pten,I_chr2L_10256507_10256803,F_chr2L_10259663_10260253 chr2L - chr2L_10260585_10260741 chr2L_10260584_10260585;chr2L_10260741_10260742 chr2L_10260254_10260584;chr2L_10260742_10260850 92.31 100.00 90.00 95.24 NA NA 95.24 100.00 95.45 NA NA 88.89 92.31 93.33 100.00 95.65 100.00 NA 83.33 96.00 NA 88.89 92.31 NA NA NA 100.00 NA 88.89 91.67 NA NA 100.00 94.74 88.89 87.50 NA 90.91 87.50 90.00 91.67 95.00 88.89 91.67 NA 100.00 NA 81.25 95.24 NA 92.31 81.82 NA NA 90.91 NA NA 90.00 K mutually_exclusive pho,RI_chr4_1193657_1194431,I_chr4_1193830_1194784,EI_chr4_1193830_1195360,RI_chr4_1193830_1195384,I_chr4_1193830_1201673 chr4 - chr4_1193657_1194431,chr4_1194724_1194784 chr4_1193657_1193709,chr4_1193830_1194784 chr4_1194432_1194723 chr4_1193710_1193829 chr4_1193557_1193656;chr4_1194785_1194884 80.00 NA 75.00 85.71 50.00 NA 83.33 50.00 87.50 NA NA 80.00 NA NA NA 75.00 NA NA NA 90.91 NA NA 62.50 NA NA 66.67 80.00 NA NA NA NA NA NA 83.33 NA NA NA NA 20.00 83.33 NA 83.33 NA NA NA NA NA NA NA NA NA 80.00 25.00 80.00 80.00 NA NA NA K intron_retention dbo chr3L + chr3L_15823559_15823678 chr3L_15823558_15823559;chr3L_15823678_15823679 chr3L_15823371_15823558;chr3L_15823679_15824009 92.59 82.35 89.47 88.46 90.91 86.67 95.24 87.50 84.62 100.00 93.33 78.12 90.48 100.00 100.00 95.83 92.31 100.00 90.00 96.77 100.00 78.79 96.15 90.91 76.47 94.44 89.66 60.00 90.48 94.44 92.86 92.31 92.31 95.83 94.74 65.00 78.95 94.12 100.00 77.42 100.00 94.29 100.00 84.21 80.00 100.00 100.00 100.00 92.59 93.33 94.74 94.44 66.67 78.57 100.00 90.48 93.33 83.33 K jcn_only_AD CG13124,RI_chr2L_9907784_9908405,I_chr2L_9908142_9908424,I_chr2L_9908175_9908424,I_chr2L_9911150_9911296 chr2L - chr2L_9907784_9908424;chr2L_9907784_9908531;chr2L_9907784_9908405 chr2L_9907784_9908307 chr2L_9907756_9907783;chr2L_9908532_9908619 3.28 3.33 6.38 2.22 7.89 3.57 4.48 5.56 5.52 NA 2.94 3.00 2.17 1.56 6.25 11.11 4.55 4.62 4.94 1.49 5.13 2.61 2.65 4.05 1.89 1.79 1.09 5.88 1.79 2.82 3.70 6.67 1.41 5.00 7.46 0.00 2.50 3.23 4.35 3.92 5.71 3.23 7.32 3.53 3.33 0.00 0.00 0.00 3.03 5.56 3.23 2.00 3.92 5.71 2.44 2.04 0.00 0.00 K intron_retention CG5068 chr3L + chr3L_8980059_8980126 chr3L_8980058_8980059;chr3L_8980126_8980127 chr3L_8979812_8980058;chr3L_8980127_8980325 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.96 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.33 0.00 0.00 0.00 0.00 0.00 0.00 1.80 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.64 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette CG1308,CG1295 chr3L + chr3L_4195388_4195840 chr3L_4195388_4195595;chr3L_4195716_4195840 chr3L_4195596_4195715 chr3L_4195360_4195387;chr3L_4195841_4195990 100.00 100.00 100.00 92.86 NA 100.00 100.00 100.00 89.47 NA 83.33 100.00 87.50 100.00 100.00 83.33 100.00 100.00 NA 100.00 100.00 100.00 93.75 85.71 100.00 NA 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 100.00 87.50 90.00 100.00 90.00 92.31 NA 94.44 NA 88.89 NA NA NA 100.00 100.00 NA 100.00 100.00 NA NA 100.00 NA NA NA K alternative_acceptor ct chrX + chrX_7554924_7554995 chrX_7554924_7554992 chrX_7554439_7554923;chrX_7554996_7555171 90.00 94.12 92.31 90.00 93.75 100.00 82.35 92.31 87.50 90.91 73.68 89.29 91.67 92.86 93.33 88.24 76.47 94.44 93.33 78.12 90.00 93.33 76.67 83.33 88.89 93.33 93.33 80.00 NA 60.00 90.00 NA 100.00 87.10 88.89 84.62 92.31 94.12 80.00 91.67 NA 80.00 100.00 95.00 NA NA NA 71.43 87.50 NA 82.61 88.89 NA NA 76.47 88.89 100.00 NA K alternative_acceptor CG42541,F_chrX_3804144_3804471,F_chrX_3805550_3805649 chrX - chrX_3799931_3800237 chrX_3799934_3800237 chrX_3800238_3800291;chrX_3799825_3799930 84.62 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 84.62 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_donor RpS7,E_chr3R_26032339_26034298 chr3R - chr3R_26034380_26034638 chr3R_26034380_26034635 chr3R_26034299_26034379;chr3R_26034639_26034688 0.96 1.85 0.43 0.39 0.93 0.88 1.89 0.17 0.00 1.06 1.22 1.42 2.78 1.12 1.46 2.08 1.41 2.29 1.30 1.31 0.00 0.59 4.26 4.62 3.33 1.80 0.00 0.00 0.96 2.82 1.26 0.17 0.19 0.63 0.00 0.00 2.13 0.00 6.00 0.90 0.37 0.57 2.15 1.01 0.52 2.01 4.88 0.43 2.37 5.56 0.00 0.00 0.00 0.00 0.96 0.00 0.86 0.30 K intron_retention CG8451 chr2L - chr2L_8202300_8202357 chr2L_8202299_8202300;chr2L_8202357_8202358 chr2L_8202232_8202299;chr2L_8202358_8202409 2.50 9.09 0.00 10.00 NA 0.00 2.13 9.09 10.42 NA 0.00 9.68 0.00 0.00 0.00 14.71 6.25 0.00 0.00 3.51 0.00 0.00 2.86 4.26 0.00 NA 4.17 15.38 0.00 5.00 0.00 NA NA 6.25 0.00 0.00 0.00 0.00 0.00 6.25 NA 4.35 7.14 0.00 NA 6.67 6.45 NA 13.64 8.00 4.17 3.85 0.00 0.00 11.54 0.00 0.00 NA K intron_retention Prosalpha5,RI_chr2R_13310877_13311160 chr2R + chr2R_13300349_13300409 chr2R_13300348_13300349;chr2R_13300409_13300410 chr2R_13300293_13300348;chr2R_13300410_13300548 0.00 0.00 2.13 6.72 0.00 0.00 7.20 1.33 1.53 0.00 0.00 0.63 0.00 0.00 0.99 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.97 0.00 9.62 7.44 6.49 0.00 14.04 2.70 0.00 0.00 0.00 0.00 0.00 2.44 0.00 0.00 2.11 3.06 6.25 2.73 0.00 0.00 0.00 2.74 0.00 0.00 0.58 1.19 0.00 0.00 0.00 0.00 0.79 0.00 0.00 0.00 K intron_retention Uhg5,noncoding_6835,snoRNA:Or-CD4 chr2R + chr2R_10511726_10511907 chr2R_10511725_10511726;chr2R_10511907_10511908 chr2R_10511662_10511725;chr2R_10511908_10511999 0.00 NA NA 0.00 NA NA 6.06 0.00 14.29 NA NA 0.00 0.00 0.00 NA 5.00 NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA 0.00 NA NA 0.00 NA NA NA NA NA 0.00 NA 4.17 NA NA NA NA NA NA 2.78 0.00 NA NA NA NA NA NA 0.00 0.00 K alternative_last_exon spi,I_chr2L_19569183_19577185,I_chr2L_19569227_19572142,I_chr2L_19569227_19577173 chr2L - chr2L_19569227_19577185 chr2L_19571768_19577185 chr2L_19567812_19569226 chr2L_19571572_19571767 chr2L_19577186_19577273 59.61 59.34 70.18 38.24 48.32 62.07 62.76 61.80 60.61 32.08 62.42 50.00 68.33 65.18 54.94 66.22 66.06 60.98 74.44 59.61 66.84 39.34 66.50 56.60 43.36 64.77 57.34 21.11 18.58 61.32 64.29 54.84 72.32 69.57 76.65 58.26 40.00 58.77 47.65 50.96 63.76 62.10 66.36 53.91 43.50 70.87 51.55 62.81 58.26 50.80 62.20 57.21 51.27 58.05 66.02 56.48 60.58 54.64 K alternative_acceptor l(2)gl,I_chr2L_17213_21135,RI_chr2L_20021_20830,I_chr2L_20974_21065 chr2L - chr2L_20016_21065 chr2L_20021_21065 chr2L_21066_21106;chr2L_19921_20015 87.50 NA NA NA NA NA NA 87.50 83.33 NA NA 92.31 NA NA NA 87.50 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 81.82 NA NA NA NA NA NA NA NA NA 87.50 NA NA NA NA 90.91 NA NA NA NA NA NA NA NA NA K jcn_only_AD CG1316 chr3L + chr3L_4285921_4286171 chr3L_4286002_4286171 chr3L_4286172_4286865;chr3L_4285847_4285920 0.00 0.00 0.00 0.00 1.41 1.32 0.00 0.00 0.00 0.00 0.00 0.63 0.00 0.00 0.00 0.00 0.00 0.00 1.27 0.82 0.00 0.00 0.86 0.00 0.00 0.00 0.00 0.00 8.05 0.00 0.00 0.39 0.23 1.18 0.00 1.03 0.86 0.00 0.77 0.62 0.00 0.93 0.00 0.00 0.72 0.69 0.00 0.00 0.98 1.50 0.93 0.00 0.00 0.00 1.09 0.00 0.00 0.33 K jcn_only_AA None chrU - chrU_7542937_7543011 chrU_7542952_7543011 1.41 1.56 1.88 1.53 0.99 0.55 1.11 2.13 1.55 1.14 2.59 1.12 1.41 1.29 1.33 2.66 2.01 0.99 1.26 0.94 1.39 1.81 0.98 1.68 1.98 2.05 1.02 0.57 0.88 0.89 1.70 1.58 1.29 1.33 1.04 0.63 1.23 1.87 0.94 2.20 1.47 1.28 2.03 1.80 1.41 0.99 1.00 1.50 1.72 0.67 2.10 1.32 1.62 1.20 1.42 2.08 1.72 2.04 K mutually_exclusive I_chr3L_1494947_1496080,pUf68,I_chr3L_1499710_1499771,RI_chr3L_1499880_1501350,I_chr3L_1500309_1501350,I_chr3L_1500313_1501350,RI_chr3L_1500389_1501345,RI_chr3L_1501035_1501345 chr3L - chr3L_1499338_1499771,chr3L_1499880_1501798;chr3L_1499338_1501350,chr3L_1501407_1501798 chr3L_1499338_1500244,chr3L_1500389_1501798 chr3L_1499772_1499879;chr3L_1501351_1501406 chr3L_1500245_1500388 chr3L_1499043_1499337;chr3L_1501799_1501892 75.00 NA 60.00 70.00 NA NA NA 75.00 81.82 83.33 NA 76.92 NA NA 75.00 80.00 NA NA 75.00 77.78 NA 85.71 45.45 80.00 66.67 62.50 85.71 63.64 NA NA 75.00 NA 40.00 80.00 80.00 100.00 NA 50.00 33.33 40.00 57.14 75.00 NA 75.00 80.00 85.71 60.00 50.00 77.78 50.00 50.00 66.67 NA 100.00 71.43 50.00 75.00 80.00 K jcn_only_AA CG8080,RI_chr2R_4978542_4978911,REI_chr2R_4978545_4978911,REI_chr2R_4979159_4979234,I_chr2R_4979276_4979936 chr2R - chr2R_4978545_4978911;chr2R_4978557_4978911 chr2R_4978542_4978911 chr2R_4978912_4979011;chr2R_4978445_4978541 0.00 3.03 0.00 0.00 0.00 0.00 0.00 0.00 3.39 0.00 NA 0.00 0.00 8.00 1.96 0.00 0.00 3.57 4.35 0.00 NA NA 0.00 2.94 8.33 6.45 0.00 NA 4.35 0.00 3.12 3.23 0.00 2.04 NA 0.00 6.52 2.08 7.32 4.55 8.00 0.00 0.00 0.00 1.85 1.67 3.85 0.00 4.62 2.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.90 K intron_retention Edem1,I_chrX_1798310_1798525,I_chrX_1798315_1798577 chrX - chrX_1798315_1798525 chrX_1798314_1798315;chrX_1798525_1798526 chrX_1798215_1798314;chrX_1798526_1798625 16.67 6.67 10.81 28.07 21.95 18.42 22.95 26.98 20.88 22.73 2.94 14.12 23.08 22.22 18.18 24.56 19.05 9.80 21.74 12.12 12.77 12.00 17.33 16.67 11.11 20.00 26.47 35.71 17.39 10.00 14.06 12.20 13.33 25.81 18.52 19.15 8.06 8.00 11.11 14.12 25.64 13.89 16.67 12.68 21.43 15.87 12.09 30.30 17.33 6.49 15.25 8.11 8.00 9.23 21.82 9.84 10.14 19.44 K alternative_last_exon CG5050 chr2L + chr2L_17454174_17464927 chr2L_17454174_17458475 chr2L_17464928_17464996 chr2L_17458476_17458775 chr2L_17453884_17454173 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention l(1)G0196,I_chrX_21890195_21895316,I_chrX_21900456_21904601 chrX + chrX_21896112_21897326 chrX_21896111_21896112;chrX_21897326_21897327 chrX_21895869_21896111;chrX_21897327_21897813 9.09 6.25 4.84 12.50 0.00 9.26 11.48 8.24 8.06 6.25 0.00 11.11 17.39 5.36 7.25 9.47 6.52 4.55 14.58 9.17 4.26 12.07 12.90 8.51 15.38 12.12 10.53 15.38 13.16 8.06 10.00 11.43 7.00 6.41 12.73 31.43 9.09 11.76 1.89 7.27 24.24 6.78 8.33 9.72 11.63 9.86 14.81 6.08 11.69 19.05 8.47 8.33 5.26 7.41 11.59 6.67 3.70 5.63 K intron_retention noncoding_21259,REI_chrX_828715_831973,TRAM,I_chrX_829418_830362,I_chrX_829743_831973 chrX + chrX_829743_830362 chrX_829742_829743;chrX_830362_830363 chrX_829643_829742;chrX_830363_830462 4.40 2.90 6.15 5.26 3.39 4.84 2.67 4.40 4.17 2.50 0.00 3.70 3.70 3.64 3.95 8.54 7.55 5.00 5.56 3.79 0.00 7.59 4.55 6.00 6.82 3.33 4.40 2.78 14.58 4.69 4.65 8.00 1.80 3.41 4.62 7.84 5.15 3.03 5.68 7.69 4.08 2.26 4.17 3.53 4.88 6.49 6.90 2.13 3.70 7.79 6.02 2.22 5.95 3.77 2.15 4.55 4.21 2.31 K alternative_last_exon Tequila chr3L + chr3L_9068723_9068771;chr3L_9068723_9080948 chr3L_9068723_9069957 chr3L_9068772_9069365;chr3L_9080949_9083048 chr3L_9069958_9070727 chr3L_9068164_9068722 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention dlg1,I_chrX_11298230_11299306 chrX + chrX_11293850_11294820 chrX_11293849_11293850;chrX_11294820_11294821 chrX_11293775_11293849;chrX_11294821_11294865 0.00 0.00 0.00 0.00 0.00 0.00 29.41 0.00 3.85 0.00 NA 0.00 4.00 0.00 2.63 1.92 0.00 0.00 0.00 1.64 NA 0.00 3.39 0.00 0.00 0.00 0.00 1.79 0.00 0.00 0.00 0.00 0.00 1.35 0.00 0.00 0.00 0.00 0.00 3.03 2.94 2.50 0.00 1.75 0.00 0.00 0.00 1.92 2.78 NA 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 K jcn_only_AA CG31999,I_chr4_238453_238873,I_chr4_238809_238873,I_chr4_240711_240769,I_chr4_243657_244182 chr4 - chr4_238121_238873;chr4_238809_238873 chr4_238453_238873 chr4_238874_238973;chr4_238032_238120 0.00 1.67 0.00 0.00 3.45 0.00 0.00 0.72 1.04 0.00 0.00 0.54 1.90 1.04 1.23 0.72 0.00 2.22 1.63 0.43 3.92 0.00 2.08 1.85 0.00 0.00 2.56 NA 0.00 2.08 1.16 0.00 0.00 1.16 0.00 0.00 0.00 0.00 0.00 1.35 0.00 1.09 0.00 2.22 0.00 0.00 1.43 0.00 0.00 1.75 0.00 0.00 0.00 0.00 1.44 0.00 1.10 0.98 K intron_retention didum,I_chr2R_3393005_3393348 chr2R + chr2R_3394292_3394353 chr2R_3394291_3394292;chr2R_3394353_3394354 chr2R_3394160_3394291;chr2R_3394354_3394882 0.00 0.00 0.00 8.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor Galpha49B,I_chr2R_8501587_8501648,I_chr2R_8504706_8504960,I_chr2R_8506056_8506112 chr2R + chr2R_8500357_8501648;chr2R_8500357_8501071 chr2R_8500357_8501759 chr2R_8500333_8500356;chr2R_8501760_8501850 2.13 0.00 0.00 7.69 0.00 10.00 3.03 2.70 2.13 0.00 7.69 1.85 5.56 4.35 6.67 2.13 5.26 8.33 4.35 0.00 0.00 0.00 0.00 6.67 0.00 5.56 0.00 0.00 0.00 0.00 5.88 0.00 10.00 0.00 0.00 7.69 0.00 0.00 11.11 8.00 11.11 9.68 0.00 7.14 0.00 6.25 0.00 4.55 5.00 0.00 0.00 7.14 0.00 0.00 5.88 14.29 0.00 0.00 K jcn_only_AA CG5524,I_chr3R_20017846_20017911,I_chr3R_20018643_20018703 chr3R - chr3R_20018643_20018703 chr3R_20018647_20018703 chr3R_20018704_20018803;chr3R_20018543_20018642 100.00 95.83 100.00 100.00 NA 100.00 96.43 97.50 97.44 85.00 NA 100.00 100.00 96.30 100.00 100.00 NA 100.00 100.00 98.08 NA 100.00 96.88 96.00 NA NA 96.67 NA 96.55 92.86 NA 100.00 94.74 100.00 NA NA 100.00 100.00 100.00 100.00 NA 97.96 100.00 100.00 NA 92.59 NA 100.00 100.00 100.00 100.00 100.00 NA NA 97.30 NA NA 100.00 K intron_retention MB8.chr3R.pasa.66,alpha-Est7 chr3R - chr3R_3346798_3346855 chr3R_3346797_3346798;chr3R_3346855_3346856 chr3R_3346234_3346797;chr3R_3346856_3347006 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 2.56 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.49 7.69 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.26 0.00 0.00 0.00 0.00 0.00 0.00 5.26 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention unc-13,RI_chr4_892852_895828,RI_chr4_897821_903586,I_chr4_899619_903586,I_chr4_902576_903242,I_chr4_906518_917117,I_chr4_913576_919018,I_chr4_924098_927699,RI_chr4_928193_928245,I_chr4_928482_929704,I_chr4_929811_932812 chr4 - chr4_892701_892752 chr4_892700_892701;chr4_892752_892753 chr4_892538_892700;chr4_892753_892851 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.03 0.00 0.00 0.00 0.00 0.00 0.00 3.23 0.00 0.00 0.00 0.00 0.00 0.74 0.00 0.00 0.00 0.00 3.92 3.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.17 0.00 0.00 0.00 2.70 3.92 0.00 0.00 4.84 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG17471,I_chr4_1215995_1216053,I_chr4_1216718_1217333,I_chr4_1217104_1217410 chr4 - chr4_1216889_1216945 chr4_1216888_1216889;chr4_1216945_1216946 chr4_1216814_1216888;chr4_1216946_1217001 0.00 0.00 0.00 15.38 0.00 7.69 0.00 0.00 0.00 NA NA 0.00 0.00 6.90 0.00 2.00 0.00 NA 0.00 0.00 0.00 NA NA NA NA NA 0.00 NA NA NA 0.00 NA NA 0.00 0.00 NA NA NA NA 0.00 0.00 0.00 0.00 NA NA 0.00 NA 0.00 0.00 NA NA NA NA NA 0.00 NA NA 0.00 K jcn_only_AA CG7987,RI_chr3R_10400799_10401492 chr3R - chr3R_10400782_10401492;chr3R_10400799_10401492 chr3R_10400608_10401492 chr3R_10401493_10401559;chr3R_10400270_10400607 52.01 61.70 55.81 58.93 44.44 65.79 33.77 37.14 35.37 NA 51.85 41.75 3.85 36.00 48.98 55.56 47.83 57.14 26.42 58.02 68.18 52.54 62.71 65.22 50.00 23.68 55.10 76.47 41.67 55.00 52.53 52.17 47.83 53.57 45.95 52.94 54.55 70.00 58.54 32.93 NA 50.00 41.18 48.39 76.19 46.88 48.48 40.74 47.42 NA 53.23 39.39 47.83 57.14 53.57 72.41 63.33 48.39 K jcn_only_AD CG9894,RE_chr2L_2752712_2753371,I_chr2L_2753119_2753371,RI_chr2L_2755946_2756007 chr2L + chr2L_2752712_2753371 chr2L_2752838_2753371 chr2L_2753372_2753471;chr2L_2752651_2752711 100.00 100.00 100.00 99.09 100.00 99.33 100.00 99.36 100.00 98.21 100.00 99.09 100.00 100.00 100.00 99.51 98.91 100.00 100.00 100.00 100.00 97.56 100.00 100.00 100.00 100.00 100.00 100.00 99.37 100.00 100.00 99.48 99.39 100.00 96.97 98.65 100.00 100.00 100.00 100.00 98.32 100.00 100.00 100.00 100.00 99.38 100.00 100.00 99.67 96.36 98.18 98.15 100.00 86.36 100.00 100.00 97.37 99.55 K intron_retention Su(var)2-HP2 chr2R - chr2R_10503906_10504014 chr2R_10503905_10503906;chr2R_10504014_10504015 chr2R_10501278_10503905;chr2R_10504015_10504266 0.00 NA NA 0.00 NA NA 0.00 12.50 0.00 NA NA 0.00 NA NA NA 0.00 NA NA NA 12.50 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA K jcn_only_AD Ptp99A,I_chr3R_25302126_25302175 chr3R + chr3R_25302126_25307188 chr3R_25305548_25307188 chr3R_25307189_25307478;chr3R_25302026_25302125 13.04 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 13.04 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention deltaCOP,I_chrX_1754047_1754089,I_chrX_1755132_1755191,E_chrX_1755139_1755188,I_chrX_1757755_1757801 chrX - chrX_1755132_1755191 chrX_1755131_1755132;chrX_1755191_1755192 chrX_1755039_1755131;chrX_1755192_1755288 94.74 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 94.74 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG11534,Atg12 chr3L + chr3L_12126077_12126128 chr3L_12126076_12126077;chr3L_12126128_12126129 chr3L_12125301_12126076;chr3L_12126129_12126936 0.00 NA NA NA NA NA 5.56 0.00 4.35 NA NA 0.00 NA NA 0.00 NA NA 0.00 NA 9.52 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA NA NA NA NA NA NA NA 0.00 NA NA 0.00 NA 0.00 NA NA NA 12.50 NA NA 0.00 0.00 0.00 NA NA NA NA NA NA NA K alternative_donor Sans,RI_chr2R_8825985_8826072,I_chr2R_8826501_8826591 chr2R + chr2R_8824602_8825904;chr2R_8824595_8825904 chr2R_8824493_8825904 chr2R_8825905_8825980;chr2R_8824445_8824492 0.00 NA NA 0.00 NA NA NA NA 14.29 NA 0.00 0.00 NA NA NA NA NA NA 0.00 0.00 NA NA 0.00 0.00 NA NA NA NA NA NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA NA NA 0.00 NA 0.00 0.00 11.11 0.00 16.67 0.00 NA 0.00 0.00 0.00 NA 0.00 14.29 0.00 7.69 K alternative_acceptor CG9293,RI_chr2L_13386386_13386487,I_chr2L_13394941_13395015 chr2L - chr2L_13386258_13386487 chr2L_13386386_13386487 chr2L_13386488_13386508;chr2L_13386099_13386257 16.67 NA NA 66.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 16.67 NA NA NA NA NA NA NA NA NA NA NA NA 0.00 K jcn_only_AD None chrU - chrU_7543573_7543678 chrU_7543573_7543639 99.54 99.70 99.14 99.30 99.35 99.12 99.48 99.57 99.79 99.53 99.79 99.59 99.30 99.43 99.65 99.40 99.93 99.37 99.65 99.39 99.67 99.90 99.20 99.60 99.61 99.74 99.82 99.21 99.42 99.45 99.41 99.29 99.19 99.55 99.58 99.17 99.56 99.78 99.75 99.48 99.41 99.73 99.75 99.82 99.34 99.48 99.79 98.92 99.54 99.70 99.46 99.67 99.47 99.54 99.55 99.81 99.52 99.59 K alternative_last_exon CG34383,RI_chr3R_9587500_9588422 chr3R + chr3R_9586085_9587029;chr3R_9586085_9588422 chr3R_9586085_9586407 chr3R_9587030_9587536;chr3R_9588423_9590485 chr3R_9586408_9586663 chr3R_9586009_9586084 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA K intron_retention Mtch,RI_chr3L_184729_185366,I_chr3L_185367_185925 chr3L + chr3L_184682_184774 chr3L_184681_184682;chr3L_184774_184775 chr3L_184674_184681;chr3L_184775_185000 70.97 83.33 63.64 78.12 47.06 64.71 70.00 75.00 51.11 66.67 55.00 65.85 50.00 60.71 54.29 70.97 63.64 70.00 69.57 68.89 52.38 87.50 95.45 85.71 83.33 64.00 92.86 90.00 96.00 80.00 74.29 55.56 76.92 56.10 92.31 93.75 83.33 85.00 75.00 70.00 68.42 55.32 54.55 76.47 48.15 75.76 93.33 63.64 63.83 91.67 80.56 76.47 92.31 100.00 52.78 92.31 100.00 64.71 K intron_retention CG15602 chrX + chrX_15693755_15693825 chrX_15693754_15693755;chrX_15693825_15693826 chrX_15693640_15693754;chrX_15693826_15694070 0.00 0.00 8.00 12.00 NA 0.00 8.00 8.70 0.00 NA 0.00 0.00 NA 0.00 0.00 8.70 NA 0.00 7.69 4.35 6.25 4.17 0.00 4.88 0.00 12.50 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 2.78 NA 0.00 0.00 0.00 0.00 10.53 0.00 NA 3.33 0.00 0.00 0.00 0.00 0.00 0.00 7.69 0.00 0.00 N alternative_acceptor CG7091,RI_chr3R_8805541_8805680,I_chr3R_8809774_8809832 chr3R + chr3R_8804251_8804598 chr3R_8804251_8804579 chr3R_8803691_8804250;chr3R_8804599_8804832 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.59 NA 0.00 2.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.26 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA NA NA 21.43 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 NA 0.00 2.56 NA 0.00 0.00 0.00 7.69 0.00 0.00 0.00 NA N intron_retention CG42394,noncoding_15936,E_chr3R_6675742_6676058 chr3R + chr3R_6677211_6677262 chr3R_6677210_6677211;chr3R_6677262_6677263 chr3R_6677007_6677210;chr3R_6677263_6677270 61.11 48.28 73.68 72.22 100.00 67.65 66.67 59.38 64.49 NA 38.89 70.31 33.33 64.81 52.38 62.04 59.18 56.52 55.41 66.67 NA NA 70.73 60.71 100.00 70.21 69.23 100.00 100.00 NA 61.36 59.52 58.06 68.42 62.50 100.00 58.82 57.14 100.00 57.69 78.57 64.91 66.67 58.14 61.11 52.86 50.00 50.00 69.23 60.87 56.25 56.00 55.56 66.67 50.00 53.33 59.18 52.78 K intron_retention hts,I_chr2R_15311185_15312327,I_chr2R_15311303_15311544,I_chr2R_15311303_15312026 chr2R - chr2R_15306111_15312327 chr2R_15306110_15306111;chr2R_15312327_15312328 chr2R_15306062_15306110;chr2R_15312328_15312346 10.00 NA NA NA NA NA 21.43 NA 10.00 NA NA NA NA NA NA 17.65 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA K intron_retention klett chrX - chrX_21497298_21497339 chrX_21497297_21497298;chrX_21497339_21497340 chrX_21496181_21497297;chrX_21497340_21497917 100.00 NA NA NA NA NA NA NA NA NA NA 87.50 NA NA NA NA NA NA NA NA NA 100.00 NA NA 88.89 NA NA NA 100.00 NA NA NA NA NA NA 100.00 NA NA NA 100.00 100.00 NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA K intron_retention CycG,I_chr3R_27427074_27427128,RE_chr3R_27427953_27436598 chr3R - chr3R_27427074_27427137 chr3R_27427073_27427074;chr3R_27427137_27427138 chr3R_27426974_27427073;chr3R_27427138_27427228 0.00 0.00 0.00 0.19 0.00 0.00 0.09 0.20 0.24 0.00 0.00 0.00 0.00 0.00 0.00 0.22 0.00 0.00 0.27 0.00 0.00 0.52 0.00 0.00 0.00 0.00 0.18 1.00 0.00 0.00 0.00 0.00 0.32 0.09 0.00 0.00 0.00 0.00 0.00 0.20 0.00 0.13 0.00 0.00 0.00 0.00 0.20 0.19 0.15 0.00 0.00 0.43 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor Nacalpha,I_chr2R_8648027_8648303 chr2R - chr2R_8648027_8648309;chr2R_8648027_8648231 chr2R_8648027_8648305 chr2R_8647927_8648026;chr2R_8648310_8648314 21.98 10.00 27.27 33.33 29.41 42.86 30.00 33.33 12.50 NA 25.00 21.43 9.09 0.00 18.75 11.76 25.00 27.27 8.33 13.64 10.00 37.50 21.43 15.38 NA 17.65 22.22 78.12 22.22 44.44 18.75 28.57 33.33 16.67 14.29 NA 12.50 8.33 20.00 86.92 50.00 17.39 40.00 88.10 30.77 26.67 20.00 30.00 24.00 23.08 11.11 0.00 71.11 16.67 18.75 20.00 21.74 39.13 K intron_retention scaf6,EI_chr3L_17037760_17037808 chr3L - chr3L_17032731_17033237 chr3L_17032730_17032731;chr3L_17033237_17033238 chr3L_17032656_17032730;chr3L_17033238_17033310 20.00 13.33 41.67 7.41 NA NA 25.93 19.23 20.00 NA NA 28.00 NA 33.33 NA 39.39 NA NA 14.29 17.65 NA 41.67 0.00 NA NA NA 29.41 NA NA NA NA NA NA 33.33 14.29 15.38 NA NA NA 25.00 NA 15.38 25.00 NA NA NA NA NA 31.25 7.14 16.67 NA NA NA NA NA NA NA K intron_retention cwo,noncoding_15870 chr3R + chr3R_6223407_6223468 chr3R_6223406_6223407;chr3R_6223468_6223469 chr3R_6223089_6223406;chr3R_6223469_6226057 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.69 5.48 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.26 0.00 0.00 0.83 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG9044 chr2L + chr2L_5949991_5950124 chr2L_5949990_5949991;chr2L_5950124_5950125 chr2L_5949835_5949990;chr2L_5950125_5951819 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.94 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.45 0.00 0.00 0.00 0.00 0.00 0.00 8.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention I_chr3L_834336_834491,CG13887,Gr61a chr3L + chr3L_838625_839249 chr3L_838624_838625;chr3L_839249_839250 chr3L_838049_838624;chr3L_839250_839740 0.73 0.76 1.25 0.83 0.49 0.69 0.50 0.78 0.75 0.61 0.88 1.49 2.10 0.56 0.70 0.99 1.09 0.55 0.86 0.53 0.72 6.92 0.48 0.93 0.00 0.57 1.45 1.40 5.94 0.35 1.06 0.98 0.50 0.33 1.05 0.82 0.14 0.00 0.93 0.87 0.69 0.73 0.61 0.97 0.54 0.81 0.87 0.69 0.38 1.23 0.98 0.64 0.47 1.00 0.35 0.41 0.13 0.22 K jcn_only_AA CG8468 chr2R + chr2R_10107548_10108112;chr2R_10107548_10108091 chr2R_10107548_10114915 chr2R_10107405_10107547 0.00 0.00 0.00 1.98 0.00 0.63 0.00 0.00 0.29 0.00 0.00 0.00 0.00 1.12 0.62 0.41 0.00 1.84 0.00 0.00 0.00 0.60 0.00 0.65 1.32 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.36 0.60 0.00 0.28 0.00 0.55 1.25 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention sqd,I_chr3R_9462248_9471474,CR33328,I_chr3R_9468150_9468236,I_chr3R_9470417_9471474 chr3R - chr3R_9462248_9471474 chr3R_9462247_9462248;chr3R_9471474_9471475 chr3R_9462148_9462247;chr3R_9471475_9471574 83.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 83.33 NA NA NA NA NA NA NA NA NA NA NA NA 25.00 NA NA NA NA NA NA NA NA 88.89 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K cassette Adar,I_chrX_1668256_1682696,I_chrX_1674594_1674717 chrX + chrX_1669772_1672644 chrX_1669772_1672405;chrX_1672594_1672644 chrX_1672406_1672593 chrX_1669733_1669771;chrX_1672645_1672732 48.48 46.15 35.29 20.00 54.55 42.86 61.11 53.33 48.48 NA 100.00 23.81 66.67 43.75 37.50 58.82 50.00 62.50 45.00 46.67 80.00 45.45 71.43 53.85 40.00 60.00 41.67 NA NA 36.36 43.75 NA 44.44 55.56 55.56 18.18 36.36 50.00 66.67 55.00 33.33 39.39 53.85 55.56 NA 38.46 NA 46.67 53.12 NA 54.55 83.33 NA NA 43.75 NA 66.67 30.77 K intron_retention CG6782,CG6783 chr3R - chr3R_7390434_7392639 chr3R_7390433_7390434;chr3R_7392639_7392640 chr3R_7390162_7390433;chr3R_7392640_7392746 0.78 0.54 0.60 0.80 0.00 0.34 1.83 0.30 0.70 1.89 2.26 0.48 0.00 0.00 0.61 0.00 0.00 0.62 0.00 0.32 0.48 1.34 1.91 1.78 1.08 0.87 1.34 4.51 2.33 2.45 0.36 0.73 1.67 0.49 0.78 3.53 1.45 1.53 0.22 3.01 0.93 0.20 0.00 0.91 0.59 1.74 1.83 0.71 0.63 1.95 3.06 1.52 1.56 1.51 0.00 0.88 0.71 0.26 K jcn_only_AD CG11658,I_chr3L_11704048_11704107 chr3L - chr3L_11700672_11701507;chr3L_11700672_11701407 chr3L_11700672_11701491 chr3L_11700405_11700671;chr3L_11701508_11701663 8.04 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 11.54 NA NA NA 4.55 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_acceptor nct,I_chr3R_20679262_20679308 chr3R + chr3R_20679262_20679324;chr3R_20679262_20679308 chr3R_20679262_20679333 chr3R_20679193_20679261;chr3R_20679334_20679393 1.15 2.33 1.45 0.91 0.00 1.85 1.03 1.04 2.72 0.00 1.49 1.72 1.89 2.17 0.00 1.35 0.00 6.15 1.82 3.28 0.00 2.67 0.78 1.72 0.00 0.00 0.92 0.00 2.78 1.49 0.00 0.00 2.86 0.00 0.00 1.72 0.88 2.38 0.89 1.12 1.72 0.84 0.00 1.12 6.56 0.00 1.45 0.00 1.15 1.01 0.80 1.75 1.85 1.61 1.47 1.54 2.33 0.00 K intron_retention torp4a chrX - chrX_4543548_4543605 chrX_4543547_4543548;chrX_4543605_4543606 chrX_4542975_4543547;chrX_4543606_4544015 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2387249_2393243 chrX_2387249_2388436;chrX_2388671_2389073;chrX_2389272_2389980;chrX_2390067_2390493;chrX_2390627_2390808;chrX_2390959_2391350;chrX_2391522_2393243 chrX_2388437_2388670;chrX_2389074_2389271;chrX_2389981_2390066;chrX_2390494_2390626;chrX_2390809_2390958;chrX_2391351_2391521 chrX_2387149_2387248;chrX_2393244_2393291 16.67 NA NA NA NA NA NA NA 16.67 NA NA 7.69 NA NA NA NA NA NA NA 20.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 11.11 NA NA 6.67 NA 20.00 NA 16.67 NA NA NA 16.67 16.67 NA NA NA NA NA NA NA NA NA K alternative_acceptor CG2875 chrX - chrX_3467334_3467400 chrX_3467337_3467400 chrX_3467401_3467615;chrX_3466628_3467333 90.91 84.62 91.67 80.00 NA 100.00 88.89 95.45 96.30 NA NA 100.00 90.91 88.89 91.67 90.91 90.00 90.91 100.00 96.30 NA NA 80.00 93.33 NA 88.89 100.00 100.00 NA 100.00 100.00 NA NA 90.48 NA NA 90.91 NA NA 90.00 NA 94.74 88.89 83.33 NA 88.89 84.62 88.89 84.62 66.67 93.75 100.00 88.89 NA 93.33 90.00 100.00 90.00 K jcn_only_AD CG4272 chr2L + chr2L_2365902_2366274;chr2L_2365391_2366274 chr2L_2365729_2366274 chr2L_2366275_2368213;chr2L_2365332_2365390 77.28 73.08 NA 79.49 76.19 NA 67.57 83.33 78.57 91.30 78.26 70.27 75.00 95.00 85.19 75.00 72.73 76.19 70.97 90.00 NA 54.17 77.08 77.42 NA 65.22 70.83 80.00 NA NA NA NA 78.57 76.00 86.36 71.43 82.86 86.67 90.00 80.95 NA 77.14 80.95 85.29 NA NA NA 76.92 70.97 84.00 76.19 85.19 NA NA 73.08 NA NA NA K jcn_only_AA CG31650,I_chr2L_5042885_5042960,I_chr2L_5042888_5042983,I_chr2L_5042891_5042964,I_chr2L_5042891_5043016,RI_chr2L_5042935_5042983,I_chr2L_5043017_5043077 chr2L - chr2L_5042888_5043077;chr2L_5043017_5043077;chr2L_5042891_5043077 chr2L_5042885_5043077 chr2L_5043078_5043083 0.00 NA 0.00 3.12 NA NA 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 4.55 0.00 0.00 NA 0.00 0.00 NA NA NA NA NA NA 4.00 NA NA 0.00 NA NA NA NA NA NA NA 0.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 NA K intron_retention hrg chr2R - chr2R_15555984_15556622 chr2R_15555983_15555984;chr2R_15556622_15556623 chr2R_15555859_15555983;chr2R_15556623_15556651 6.67 NA NA NA NA NA NA NA 13.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CG42588 chr3L + chr3L_12811626_12811700 chr3L_12811626_12811681 chr3L_12810479_12811625;chr3L_12811701_12812337 65.00 NA NA NA NA NA 68.00 60.00 64.52 NA NA NA NA NA NA NA NA NA NA 80.00 NA NA NA NA NA NA NA NA NA NA NA NA 62.50 NA NA NA NA NA NA 70.00 NA NA NA NA NA NA NA 65.00 NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CG15715,RI_chr3L_15829349_15830356,I_chr3L_15830026_15830356,RI_chr3L_15830030_15830191,RI_chr3L_15830229_15830356 chr3L - chr3L_15830229_15830356;chr3L_15830030_15830356 chr3L_15830026_15830356 chr3L_15830357_15830456;chr3L_15830007_15830025 0.00 0.00 1.11 0.00 0.00 3.70 1.16 0.00 1.69 2.63 2.78 0.00 0.00 0.00 0.00 2.33 0.00 0.00 1.22 0.00 0.00 0.00 0.00 0.96 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.73 0.00 1.47 1.75 3.70 4.23 0.00 3.92 0.00 0.00 0.00 0.00 1.96 0.00 2.56 0.52 0.00 0.00 3.77 1.23 1.16 0.00 2.88 0.00 0.00 K intron_retention pan chr4 + chr4_106560_107642 chr4_106559_106560;chr4_107642_107643 chr4_106479_106559;chr4_107643_107792 0.00 0.00 5.13 4.71 0.00 0.00 3.85 0.00 2.61 0.00 2.78 2.60 5.56 0.00 2.56 2.94 0.00 0.00 3.92 0.00 0.00 10.00 1.89 0.00 0.00 0.00 0.00 0.00 12.00 0.00 0.00 NA 3.70 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 1.19 2.94 0.00 NA 0.00 NA 0.00 3.33 12.50 5.88 5.56 NA NA 2.00 15.38 NA 5.00 K alternative_last_exon CG32000,I_chr4_154340_157504,I_chr4_154551_155461,I_chr4_157794_157864 chr4 + chr4_159201_159572;chr4_159201_160895 chr4_159201_160447 chr4_159573_159641;chr4_160896_162753 chr4_160448_160716 chr4_159000_159200 0.86 0.00 0.71 2.10 1.09 0.00 0.73 1.25 0.56 0.00 1.05 0.74 0.85 2.00 1.99 0.71 0.68 0.86 1.02 0.75 1.06 2.33 1.52 0.98 0.00 0.70 0.00 0.00 0.00 0.94 1.10 0.00 0.00 1.27 1.14 0.00 0.00 1.43 1.23 0.62 0.00 0.70 0.68 0.78 3.70 0.87 1.35 0.78 1.20 1.47 0.74 1.10 0.00 1.82 1.12 1.32 1.20 1.49 K intron_retention ATPsyn-Cf6,I_chr3R_19181508_19181563,I_chr3R_19181524_19181702 chr3R - chr3R_19181508_19181702 chr3R_19181507_19181508;chr3R_19181702_19181703 chr3R_19181424_19181507;chr3R_19181703_19181733 0.80 0.74 0.88 1.25 0.24 0.74 2.20 0.37 1.15 0.00 1.58 1.03 1.30 0.82 0.38 1.23 0.96 0.92 1.04 0.43 0.48 1.36 1.32 2.58 1.16 1.10 1.72 0.00 0.73 1.56 0.78 0.30 0.47 0.71 1.75 0.00 1.28 0.00 0.00 0.00 1.44 0.36 0.98 1.43 0.67 0.78 0.00 0.80 1.27 1.76 0.78 0.82 0.00 0.63 0.81 0.43 0.27 0.40 K alternative_acceptor CG10153,RI_chr2R_10644944_10645110 chr2R - chr2R_10644944_10645110 chr2R_10645056_10645110 chr2R_10645111_10645175;chr2R_10644844_10644943 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.06 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG7337,I_chr2L_1910010_1910066,I_chr2L_1938620_1938887,I_chr2L_1942183_1942233 chr2L + chr2L_1932148_1933805 chr2L_1932147_1932148;chr2L_1933805_1933806 chr2L_1932056_1932147;chr2L_1933806_1934049 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.23 1.92 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 NA NA K intron_retention unc-13,I_chr4_904268_904671,CRE_chr4_904268_906381,I_chr4_904268_919018,I_chr4_906518_917117,I_chr4_913576_919018,I_chr4_924098_927699,RI_chr4_928193_928245,I_chr4_928482_929704,I_chr4_929811_932812 chr4 - chr4_903989_904192 chr4_903988_903989;chr4_904192_904193 chr4_903802_903988;chr4_904193_904267 1.82 1.89 3.64 2.37 0.00 2.27 2.48 6.62 6.04 0.00 12.00 0.00 0.00 6.35 1.59 6.00 9.62 1.82 0.00 5.22 3.57 0.00 0.00 0.00 0.00 0.00 0.79 0.00 0.00 3.85 0.00 9.09 0.00 5.66 2.22 0.00 0.00 0.00 0.00 4.82 0.00 5.93 4.26 0.00 0.00 2.63 5.41 0.00 7.53 3.23 1.69 3.85 0.00 12.50 3.39 0.00 0.00 5.00 K intron_retention lig,CI_chr2R_3962006_3962916,RI_chr2R_3962875_3962977 chr2R + chr2R_3964798_3965235 chr2R_3964797_3964798;chr2R_3965235_3965236 chr2R_3964765_3964797;chr2R_3965236_3966123 14.43 9.52 11.90 13.79 14.81 22.22 27.27 21.05 20.00 10.71 15.38 16.36 15.38 12.00 13.79 20.69 10.53 8.82 9.68 12.09 10.00 15.00 12.12 8.75 9.80 NA 12.73 24.39 18.75 18.18 16.67 20.51 19.51 15.79 13.51 10.00 6.17 10.00 6.67 17.65 17.14 12.07 21.05 18.42 15.15 18.37 14.04 22.73 16.28 15.15 10.96 10.00 16.33 12.50 11.43 12.90 12.07 31.82 K jcn_only_AA CG31224,Cpsf73 chr3R - chr3R_14486963_14487033 chr3R_14486971_14487033 chr3R_14487034_14487476;chr3R_14486843_14486962 100.00 100.00 97.73 100.00 100.00 97.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.83 98.61 NA 100.00 100.00 99.08 96.00 98.08 100.00 100.00 100.00 97.44 100.00 97.96 98.59 100.00 98.28 100.00 98.48 100.00 98.51 98.41 100.00 100.00 98.65 100.00 98.65 100.00 100.00 97.73 100.00 100.00 98.59 100.00 100.00 98.75 98.78 97.06 100.00 100.00 100.00 100.00 98.94 100.00 K intron_retention sar1,I_chr3R_18185148_18185246 chr3R + chr3R_18184214_18184284 chr3R_18184213_18184214;chr3R_18184284_18184285 chr3R_18184094_18184213;chr3R_18184285_18184350 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.24 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.64 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.22 0.00 0.00 0.00 0.00 0.30 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N jcn_only_AA wee chr2L - chr2L_6913282_6913425 chr2L_6913366_6913425 chr2L_6913426_6913993;chr2L_6912945_6913281 0.00 0.00 0.00 7.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Jafrac1,I_chrX_13223890_13225154,I_chrX_13224064_13225154,RI_chrX_13224713_13225154 chrX + chrX_13223890_13225154 chrX_13223889_13223890;chrX_13225154_13225155 chrX_13223790_13223889;chrX_13225155_13225254 89.44 NA NA 60.00 NA NA 88.89 56.25 NA NA 88.89 90.00 NA NA 50.00 NA NA NA NA 72.73 NA 100.00 NA 100.00 NA NA 100.00 91.67 100.00 NA NA NA 90.00 60.00 NA NA NA NA NA 75.00 92.31 66.67 NA NA 92.86 80.00 NA 100.00 61.54 NA NA NA NA NA NA NA NA 90.91 K alternative_donor Nacalpha,I_chr2R_8648027_8648303 chr2R - chr2R_8648027_8648305;chr2R_8648027_8648309 chr2R_8648027_8648231 chr2R_8647927_8648026;chr2R_8648310_8648314 52.75 80.00 45.45 58.33 23.53 42.86 60.00 33.33 62.50 NA 50.00 71.43 63.64 83.33 56.25 70.59 62.50 36.36 58.33 54.55 50.00 50.00 71.43 38.46 NA 47.06 66.67 9.38 66.67 55.56 62.50 57.14 41.67 50.00 57.14 NA 62.50 75.00 50.00 10.28 37.50 52.17 50.00 9.52 38.46 53.33 60.00 50.00 48.00 38.46 77.78 66.67 13.33 58.33 43.75 53.33 34.78 30.43 K intron_retention Rbcn-3A chrX - chrX_6136175_6136247 chrX_6136174_6136175;chrX_6136247_6136248 chrX_6136100_6136174;chrX_6136248_6136317 0.00 0.00 0.00 0.00 0.00 0.00 3.57 0.00 0.00 0.00 0.00 0.00 0.00 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.81 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.90 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA Spn,I_chr3L_2511764_2512148 chr3L - chr3L_2510558_2511162 chr3L_2510576_2511162 chr3L_2511163_2511763;chr3L_2509762_2510557 100.00 100.00 NA 96.43 NA NA NA 96.00 98.11 NA NA 100.00 NA NA NA NA NA NA NA 100.00 NA 100.00 97.37 100.00 100.00 NA 100.00 NA 95.24 NA NA NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 97.67 NA 100.00 NA 100.00 100.00 90.48 100.00 100.00 100.00 100.00 NA 100.00 NA NA NA NA K alternative_donor CG8788,I_chr2R_5026774_5026825,RI_chr2R_5026774_5026866,RI_chr2R_5026774_5028942,RI_chr2R_5033951_5034150,I_chr2R_5036518_5036570 chr2R + chr2R_5026774_5027484 chr2R_5026778_5027484 chr2R_5027485_5027803;chr2R_5026674_5026773 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA K intron_retention CG13373,CG32817 chrX + chrX_371325_371639 chrX_371324_371325;chrX_371639_371640 chrX_371035_371324;chrX_371640_371964 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA 0.00 NA 4.55 NA NA NA NA NA NA NA NA NA NA NA NA 0.00 25.00 0.00 NA K alternative_acceptor Hr78,I_chr3L_21490089_21490390,CG33214 chr3L - chr3L_21490008_21490390;chr3L_21489978_21490390;chr3L_21490023_21490390 chr3L_21490089_21490390 chr3L_21490391_21490490;chr3L_21489920_21489977 0.00 NA NA 15.00 NA 0.00 0.00 0.00 0.00 NA 0.00 7.69 9.09 9.09 0.00 0.00 NA 0.00 10.00 0.00 NA NA 10.00 0.00 NA 0.00 NA NA NA NA NA NA 0.00 8.33 NA NA NA NA NA 0.00 NA 0.00 10.00 16.67 NA NA NA NA 0.00 NA 0.00 0.00 NA NA 7.69 NA NA NA K cassette Msp-300,I_chr2L_5185965_5188116,I_chr2L_5197634_5197866 chr2L + chr2L_5155850_5188116;chr2L_5185965_5188116 chr2L_5185965_5187606,chr2L_5155850_5187606;chr2L_5187718_5188116 chr2L_5187607_5187717 chr2L_5155589_5155849;chr2L_5188117_5188216 100.00 100.00 100.00 97.96 95.45 100.00 96.43 98.31 98.92 95.83 100.00 98.33 100.00 100.00 96.97 100.00 96.88 100.00 100.00 100.00 100.00 91.30 100.00 93.75 100.00 88.89 100.00 100.00 100.00 100.00 96.77 NA 100.00 98.18 100.00 94.44 97.50 100.00 95.00 95.45 NA 98.21 100.00 95.24 NA NA 100.00 100.00 96.55 NA 100.00 100.00 100.00 NA 100.00 100.00 NA 100.00 K intron_retention par-1,I_chr2R_15359242_15360944,I_chr2R_15359251_15359544,I_chr2R_15359251_15360944,I_chr2R_15359658_15359771,F_chr2R_15362147_15365138,RI_chr2R_15363358_15365120,I_chr2R_15365210_15370456 chr2R + chr2R_15359242_15360323 chr2R_15359241_15359242;chr2R_15360323_15360324 chr2R_15359151_15359241;chr2R_15360324_15360436 0.00 0.00 0.00 0.00 0.00 0.00 0.54 0.60 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.40 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.42 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor dmondo,I_chr2L_21301528_21308287,I_chr2L_21308811_21309579,I_chr2L_21308811_21310000,I_chr2L_21308827_21310000,I_chr2L_21309092_21309579,I_chr2L_21309092_21309938,RI_chr2L_21309092_21310000 chr2L - chr2L_21308996_21309579;chr2L_21309019_21309579;chr2L_21309084_21309579 chr2L_21309092_21309579 chr2L_21309580_21309679;chr2L_21308992_21308995 64.59 NA NA 75.00 NA NA 42.86 62.50 62.50 NA NA NA NA NA NA 53.85 33.33 NA NA NA NA NA NA NA NA NA 40.00 NA NA NA NA NA NA 66.67 NA NA NA NA NA NA NA 71.43 NA NA NA 75.00 NA 72.73 80.00 NA NA NA NA NA NA NA NA NA K intron_retention CG34123,RI_chr2R_11160894_11162043,I_chr2R_11167854_11168411 chr2R - chr2R_11165283_11165391 chr2R_11165282_11165283;chr2R_11165391_11165392 chr2R_11165181_11165282;chr2R_11165392_11165548 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.45 0.00 0.00 3.70 0.00 0.00 0.00 0.00 2.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 13.79 0.00 0.00 NA 2.70 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 K jcn_only_AA ssp4,I_chr2R_13414489_13414718,I_chr2R_13414818_13414880,I_chr2R_13418952_13419022 chr2R - chr2R_13411752_13411852 chr2R_13411788_13411852 chr2R_13411853_13412089;chr2R_13411589_13411751 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.96 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor mthl5 chr3R - chr3R_7710606_7710663 chr3R_7710609_7710663 chr3R_7710664_7710845;chr3R_7710105_7710605 9.52 NA 7.14 11.76 NA 12.50 4.55 5.26 15.15 NA NA 18.75 NA 7.69 14.29 14.29 0.00 NA 0.00 2.94 NA 0.00 10.34 5.26 NA 7.69 12.50 NA NA 6.25 NA NA NA 6.67 21.43 6.25 5.56 17.65 4.76 13.33 NA 13.04 21.43 9.52 NA 10.71 17.65 NA 13.79 7.14 6.90 4.76 NA 10.53 9.52 12.50 5.26 NA K jcn_only_AA Ance,Ance-2 chr2L + chr2L_13905719_13906565 chr2L_13905719_13906460 chr2L_13905672_13905718;chr2L_13906566_13907172 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 1.35 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA K jcn_only_AD Pak,RI_chr3R_2181143_2181934 chr3R + chr3R_2179971_2180635 chr3R_2179973_2180635 chr3R_2180636_2180902;chr3R_2179902_2179970 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA K intron_retention CG11095 chrX + chrX_13706079_13706144 chrX_13706078_13706079;chrX_13706144_13706145 chrX_13705693_13706078;chrX_13706145_13707067 14.29 NA 7.14 NA NA NA NA 21.05 17.65 NA NA 14.29 NA NA 22.22 NA NA NA NA 7.41 7.69 25.00 NA 11.11 NA NA 15.79 NA 5.56 NA 33.33 10.53 14.29 17.39 NA NA 4.17 0.00 13.64 13.89 11.76 9.68 16.67 NA 7.41 27.27 NA 23.33 10.71 26.32 25.00 NA NA 20.00 NA 26.32 NA 14.29 K intron_retention CG11880,I_chr3R_24949827_24951052,CE_chr3R_24962426_24962797 chr3R + chr3R_24949202_24949522 chr3R_24949201_24949202;chr3R_24949522_24949523 chr3R_24949179_24949201;chr3R_24949523_24949826 0.00 0.00 0.00 8.82 3.23 0.00 2.27 2.44 0.00 0.00 0.00 2.22 0.00 0.00 0.00 2.63 0.00 0.00 5.00 6.38 0.00 3.85 0.00 0.00 0.00 4.08 4.55 0.00 6.67 NA 0.00 0.00 0.00 2.70 0.00 9.09 0.00 NA 4.17 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 5.88 0.00 NA 0.00 0.00 NA 0.00 K alternative_acceptor coro,I_chr2R_2754447_2755071 chr2R - chr2R_2751039_2751782 chr2R_2751060_2751782 chr2R_2751783_2752076;chr2R_2750853_2751038 1.64 2.92 2.26 1.54 1.98 1.64 2.34 1.33 1.83 0.00 1.18 0.97 1.15 0.00 2.17 0.84 1.41 1.02 0.93 2.67 1.00 14.67 1.65 2.26 1.65 0.00 2.59 0.00 0.93 1.89 1.45 1.19 2.13 1.14 1.57 2.42 1.94 2.23 1.79 1.06 2.20 2.26 1.27 1.64 0.72 1.85 1.96 1.52 1.69 2.45 2.33 1.01 0.00 2.03 1.35 2.72 1.61 0.00 K cassette CG3632,RI_chrX_16195880_16196242 chrX + chrX_16195951_16196939 chrX_16195951_16196242;chrX_16196446_16196939 chrX_16196243_16196445 chrX_16195846_16195950;chrX_16196940_16197282 91.11 88.24 97.30 79.07 91.67 96.77 91.11 83.58 92.31 80.00 95.24 92.00 87.88 86.11 91.67 93.88 100.00 93.55 97.30 87.01 95.45 88.24 90.91 90.70 72.00 82.05 91.67 84.00 96.55 92.00 97.56 88.89 96.15 91.53 85.00 74.07 89.19 87.50 87.50 92.86 83.33 87.34 88.24 97.30 97.44 95.65 97.50 88.24 89.86 87.76 93.48 85.19 89.29 86.21 91.49 92.86 95.65 95.35 K alternative_donor sxc,I_chr2R_1203985_1205289,I_chr2R_1208121_1213310,I_chr2R_1213177_1213308 chr2R + chr2R_1194785_1194918 chr2R_1194858_1194918 chr2R_1194919_1195157;chr2R_1194775_1194784 69.23 NA NA 87.50 NA NA 84.21 85.71 57.14 NA NA NA 69.23 NA NA 45.45 NA NA 62.50 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 55.56 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 70.00 NA NA NA NA NA NA NA NA NA K intron_retention sty chr3L - chr3L_3404922_3416803 chr3L_3404921_3404922;chr3L_3416803_3416804 chr3L_3401145_3404921;chr3L_3416804_3417995 0.00 0.29 0.00 0.60 0.00 0.66 0.00 0.70 0.38 0.00 0.00 0.31 0.91 0.65 0.22 0.69 0.00 0.00 0.44 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.95 0.00 0.00 0.00 0.00 0.00 0.00 0.27 0.00 0.00 0.46 0.00 0.00 0.00 0.00 0.55 0.50 0.33 0.00 0.00 0.00 0.00 0.70 0.00 0.00 0.00 0.00 0.00 0.43 0.00 0.00 0.00 K intron_retention mav,RI_chr4_645290_646129 chr4 - chr4_645290_645397 chr4_645289_645290;chr4_645397_645398 chr4_645190_645289;chr4_645398_645533 1.25 NA 0.00 6.67 NA NA 12.50 0.00 6.12 NA NA 3.57 0.00 0.00 NA 6.67 NA NA 3.23 2.56 NA NA NA NA NA NA NA NA NA NA 0.00 NA NA 9.76 0.00 6.67 NA NA NA 5.88 NA 2.50 0.00 NA NA 0.00 NA 0.00 4.44 NA 0.00 NA NA NA 0.00 NA NA 0.00 K intron_retention CG7530,I_chr3R_10556352_10557136,eff chr3R - chr3R_10556352_10557148 chr3R_10556351_10556352;chr3R_10557148_10557149 chr3R_10556252_10556351;chr3R_10557149_10557231 95.90 100.00 100.00 86.96 95.24 92.31 100.00 97.14 100.00 100.00 100.00 95.24 95.00 94.44 89.66 96.67 100.00 96.88 90.48 93.22 94.74 NA 92.86 100.00 92.86 100.00 95.00 100.00 90.91 100.00 95.65 94.44 89.66 96.55 100.00 100.00 93.75 85.71 91.67 96.61 100.00 97.44 93.75 85.71 100.00 97.37 92.31 98.04 91.49 100.00 100.00 100.00 91.18 90.00 96.15 81.82 100.00 94.92 K intron_retention La chr2L - chr2L_20348879_20348949 chr2L_20348878_20348879;chr2L_20348949_20348950 chr2L_20348704_20348878;chr2L_20348950_20349929 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.68 0.36 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention bor chr3R - chr3R_12089344_12089451 chr3R_12089343_12089344;chr3R_12089451_12089452 chr3R_12088869_12089343;chr3R_12089452_12089738 0.00 0.00 1.37 0.00 0.00 0.00 0.00 2.99 0.00 0.00 0.00 1.44 0.00 0.00 0.00 0.00 0.00 2.99 0.00 0.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.55 0.00 0.00 2.63 0.00 0.00 0.00 0.00 0.00 0.48 0.00 1.11 0.00 0.67 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N multi_cassette msn,I_chr3L_2558033_2560115,F_chr3L_2558036_2563817,I_chr3L_2558390_2561931,I_chr3L_2558393_2560115,I_chr3L_2579521_2586402,I_chr3L_2585716_2586402,I_chr3L_2585733_2586036,I_chr3L_2585739_2586413 chr3L - chr3L_2558390_2563817 chr3L_2558390_2560115;chr3L_2560296_2561931;chr3L_2562844_2563817 chr3L_2560116_2560295;chr3L_2561932_2562843 chr3L_2558293_2558389;chr3L_2563818_2563917 100.00 75.00 100.00 70.27 60.00 100.00 79.31 100.00 73.77 100.00 100.00 89.71 23.08 100.00 70.83 100.00 100.00 46.67 100.00 100.00 100.00 37.62 81.40 86.15 100.00 100.00 82.69 61.90 89.47 85.25 100.00 100.00 100.00 100.00 81.63 100.00 82.02 100.00 81.82 92.31 82.61 100.00 100.00 83.72 77.36 100.00 100.00 90.62 100.00 100.00 85.48 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG4169,CG32163 chr3L + chr3L_16578183_16578284 chr3L_16578182_16578183;chr3L_16578284_16578285 chr3L_16577879_16578182;chr3L_16578285_16579256 0.00 0.00 0.00 0.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.51 0.38 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.15 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA iPLA2-VIA chr3L - chr3L_9856717_9857292;chr3L_9857015_9857292 chr3L_9857200_9857292 chr3L_9857293_9857459 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD su(s) chrX + chrX_535224_535329 chrX_535236_535329 chrX_535330_537684;chrX_535111_535223 100.00 100.00 100.00 97.78 100.00 100.00 95.00 100.00 98.84 96.43 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.61 100.00 100.00 100.00 100.00 96.15 100.00 100.00 100.00 94.29 100.00 93.10 100.00 100.00 97.92 100.00 95.45 100.00 100.00 96.83 100.00 100.00 97.56 100.00 98.33 100.00 96.97 100.00 100.00 100.00 100.00 95.45 88.89 100.00 NA 98.08 100.00 100.00 97.06 K intron_retention I_chr2R_13460029_13460240,Dcr-2,I_chr2R_13466001_13466061,I_chr2R_13466001_13466072 chr2R - chr2R_13466001_13466072 chr2R_13466000_13466001;chr2R_13466072_13466073 chr2R_13465901_13466000;chr2R_13466073_13466161 77.12 NA 93.75 75.00 NA NA 70.59 91.67 94.44 NA NA 90.91 NA NA 100.00 76.47 75.00 87.50 90.91 83.33 NA NA NA 66.67 NA 75.00 66.67 77.78 NA NA 76.19 NA NA 100.00 NA NA NA NA NA 60.00 NA 66.67 NA NA NA NA NA NA 92.31 NA NA NA NA NA 75.00 NA NA NA K intron_retention Rbf chrX - chrX_694099_694160 chrX_694098_694099;chrX_694160_694161 chrX_693744_694098;chrX_694161_694349 0.00 0.00 0.00 2.00 0.00 0.00 0.00 0.00 0.00 12.50 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.71 0.00 0.00 0.00 0.00 0.00 0.00 8.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention ird5,I_chr3R_11874883_11874942,CG10185 chr3R - chr3R_11874534_11874942 chr3R_11874533_11874534;chr3R_11874942_11874943 chr3R_11873964_11874533;chr3R_11874943_11875042 3.92 0.00 0.00 17.14 0.00 0.00 10.53 0.00 4.35 0.00 0.00 2.33 7.69 0.00 0.00 6.06 0.00 0.00 4.76 3.92 3.57 29.03 3.92 3.03 15.38 6.25 6.90 7.69 8.33 9.52 0.00 10.53 3.45 1.92 8.33 8.70 7.14 0.00 3.12 3.92 4.76 5.80 0.00 6.25 0.00 6.67 0.00 8.33 3.33 9.52 4.55 7.14 0.00 0.00 6.06 6.67 0.00 9.09 K jcn_only_AD CREF_chr3R_5589662_5589762,CG8481 chr3R + chr3R_5594185_5594466;chr3R_5593863_5594466 chr3R_5594297_5594466 chr3R_5594467_5594493;chr3R_5593583_5593862 44.16 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 63.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 25.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_donor CG11771 chr3R + chr3R_20757959_20758015 chr3R_20757963_20758015 chr3R_20758016_20760641;chr3R_20757811_20757958 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.94 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.32 0.00 0.00 0.00 0.00 0.00 2.13 0.00 0.00 0.00 1.96 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 2.56 NA 0.00 0.00 0.00 0.00 0.00 2.63 0.00 0.00 0.00 0.00 K intron_retention Nopp140,I_chr3L_21828330_21828566,I_chr3L_21828986_21829082 chr3L + chr3L_21827930_21828170 chr3L_21827929_21827930;chr3L_21828170_21828171 chr3L_21827465_21827929;chr3L_21828171_21828185 0.00 0.00 0.00 0.00 0.00 0.00 2.86 0.00 0.00 0.00 0.00 5.36 0.00 3.85 0.00 0.00 0.00 0.00 0.00 2.41 0.00 NA 3.92 0.00 0.00 0.00 0.00 5.00 0.00 0.00 0.00 0.00 0.00 2.08 0.00 0.00 0.00 0.00 4.65 0.00 0.00 1.72 0.00 0.00 0.00 0.00 0.00 1.54 2.44 3.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG9795,EI_chr3R_145575_147566,RI_chr3R_145613_145675 chr3R + chr3R_145613_147566 chr3R_145612_145613;chr3R_147566_147567 chr3R_145513_145612;chr3R_147567_147666 52.56 55.10 52.38 46.81 69.57 48.84 63.49 47.06 53.19 36.84 81.82 52.56 60.47 58.82 54.55 46.81 55.00 79.63 52.27 63.41 80.39 50.00 43.08 47.54 48.48 60.00 52.17 67.86 71.88 55.56 56.00 57.50 39.13 51.47 59.46 55.56 44.74 42.50 50.68 44.44 76.47 47.47 51.28 34.38 69.44 61.54 59.62 41.67 40.23 39.29 37.88 50.00 39.62 71.43 49.06 61.36 70.42 58.33 K intron_retention CG8547 chr2R - chr2R_10149426_10149484 chr2R_10149425_10149426;chr2R_10149484_10149485 chr2R_10148716_10149425;chr2R_10149485_10149676 0.00 0.00 NA NA NA NA NA NA 4.17 0.00 NA NA NA NA NA NA NA NA NA 0.00 NA 0.00 0.00 0.00 NA NA 0.00 NA 15.00 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 9.09 0.00 NA 0.00 0.00 0.00 0.00 6.67 0.00 0.00 4.76 NA 0.00 0.00 NA 0.00 0.00 NA N cassette Dscam,F_chr2R_3219886_3228832,F_chr2R_3226043_3235353,F_chr2R_3227948_3235353,F_chr2R_3228738_3235353,FI_chr2R_3229124_3235353,FI_chr2R_3236481_3242386,I_chr2R_3244812_3249222,FI_chr2R_3249373_3251385,FI_chr2R_3251554_3255892 chr2R - chr2R_3219886_3235353 chr2R_3219886_3233380;chr2R_3233672_3235353 chr2R_3233381_3233671 chr2R_3219786_3219885;chr2R_3235354_3235453 100.00 36.36 41.67 30.00 NA 100.00 55.56 45.83 100.00 100.00 NA 100.00 37.50 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 18.92 100.00 100.00 100.00 100.00 100.00 100.00 30.77 100.00 100.00 NA 36.00 100.00 100.00 100.00 100.00 NA 100.00 42.86 NA 100.00 100.00 100.00 NA NA NA 100.00 57.89 NA 29.41 100.00 NA NA 55.56 NA NA NA K mutually_exclusive CG31243,CG42457 chr3R + chr3R_13836297_13837817,chr3R_13837873_13838869 chr3R_13836297_13836818,chr3R_13837436_13838869 chr3R_13837818_13837872 chr3R_13836819_13837435 chr3R_13836063_13836296;chr3R_13838870_13839405 16.67 28.57 16.67 NA NA NA 16.67 14.29 26.32 NA NA 23.08 NA NA 12.50 11.11 20.00 0.00 14.29 5.88 NA 12.50 10.00 16.67 NA 20.00 22.22 NA 33.33 16.67 12.50 NA 33.33 12.50 14.29 28.57 15.38 20.00 21.43 14.29 16.67 20.00 20.00 28.57 40.00 25.00 20.00 40.00 12.50 16.67 14.29 25.00 16.67 NA 10.00 NA NA 11.11 K intron_retention JhI-21,I_chr2L_12055360_12055714 chr2L - chr2L_12052504_12052559 chr2L_12052503_12052504;chr2L_12052559_12052560 chr2L_12051752_12052503;chr2L_12052560_12052684 0.25 0.74 0.48 1.02 0.31 0.87 0.00 0.00 0.81 0.00 0.30 0.59 0.00 0.00 0.00 1.32 0.70 0.58 0.00 0.77 0.52 0.50 0.00 0.54 0.00 0.00 0.92 2.66 0.00 0.00 0.00 0.00 0.34 0.38 0.00 0.00 0.30 0.00 0.67 1.10 0.00 0.62 0.38 0.25 0.34 0.00 0.00 0.00 1.07 0.45 0.00 0.00 0.00 0.22 0.52 0.25 0.00 0.00 K jcn_only_AA Atox1,R_chr3L_21634285_21634386,RI_chr3L_21634463_21635078 chr3L + chr3L_21634463_21635078 chr3L_21634463_21635073 chr3L_21634387_21634462;chr3L_21635079_21635178 100.00 100.00 98.31 100.00 100.00 100.00 97.83 97.92 98.82 98.33 100.00 100.00 100.00 100.00 100.00 100.00 96.55 100.00 100.00 100.00 100.00 98.59 98.70 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.73 100.00 98.36 97.87 100.00 98.55 95.92 98.78 100.00 97.22 100.00 100.00 100.00 98.75 99.04 98.67 98.75 98.85 100.00 100.00 100.00 100.00 100.00 100.00 96.43 98.45 99.59 K alternative_donor Gpo-1,I_chr2R_11747621_11747699,EI_chr2R_11747445_11747699,I_chr2R_11749758_11750187,I_chr2R_11756325_11756380 chr2R - chr2R_11748259_11750201 chr2R_11748259_11750187 chr2R_11748106_11748258;chr2R_11750202_11750219 100.00 100.00 100.00 100.00 NA 100.00 100.00 92.86 94.74 100.00 100.00 100.00 90.00 100.00 88.89 94.44 100.00 NA 100.00 100.00 100.00 95.45 100.00 96.00 100.00 90.00 96.15 94.12 93.75 100.00 93.33 94.44 100.00 93.33 100.00 95.00 100.00 100.00 100.00 97.67 95.00 94.12 NA 100.00 96.43 100.00 100.00 96.15 95.65 100.00 97.87 100.00 88.89 100.00 100.00 100.00 NA 100.00 K intron_retention jim,I_chr3L_22791582_22791898 chr3L - chr3L_22792549_22793124 chr3L_22792548_22792549;chr3L_22793124_22793125 chr3L_22792351_22792548;chr3L_22793125_22793884 76.47 63.64 76.92 59.38 86.67 83.33 83.33 73.33 72.00 NA 70.00 71.43 90.00 63.64 76.47 NA 70.00 57.14 80.00 69.57 77.78 76.47 65.71 86.21 69.23 76.92 71.43 90.00 69.23 58.33 76.92 NA NA 61.11 84.62 80.00 71.43 73.08 80.77 79.17 NA 81.82 NA 92.31 NA 63.64 88.89 76.92 85.00 71.43 72.22 71.43 NA 63.64 77.78 83.33 90.00 80.00 K intron_retention l(3)mbt,noncoding_19527,I_chr3R_23096096_23096561 chr3R - chr3R_23095096_23095153 chr3R_23095095_23095096;chr3R_23095153_23095154 chr3R_23094927_23095095;chr3R_23095154_23095427 98.18 100.00 100.00 98.11 100.00 100.00 97.92 94.55 98.46 95.45 100.00 98.18 95.65 100.00 100.00 98.39 100.00 93.75 97.73 98.33 96.67 100.00 97.06 97.56 100.00 100.00 93.55 100.00 97.62 100.00 97.44 96.97 100.00 100.00 96.97 100.00 97.62 91.30 97.30 93.94 97.96 100.00 100.00 100.00 100.00 98.15 96.67 96.77 98.51 96.15 95.56 96.00 100.00 95.24 100.00 96.97 100.00 98.78 K cassette plexA,RI_chr4_1036247_1047588,RI_chr4_1040642_1047395,RI_chr4_1044307_1046841,RF_chr4_1044307_1047399 chr4 - chr4_1040642_1046841;chr4_1036247_1047588;chr4_1040642_1047395;chr4_1040642_1047588;chr4_1040642_1047399 chr4_1040642_1042867,chr4_1036247_1042867;chr4_1044307_1046841,chr4_1044307_1047395,chr4_1044307_1047588,chr4_1044307_1047399 chr4_1042868_1044306 chr4_1036147_1036246;chr4_1047589_1047625 100.00 100.00 100.00 100.00 100.00 100.00 99.41 99.42 99.49 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.31 100.00 100.00 100.00 100.00 98.57 97.44 100.00 100.00 100.00 90.91 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.48 91.67 100.00 100.00 98.53 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor CG33129,I_chr2L_10966410_10967142,noncoding_2515,I_chr2L_10966622_10967108 chr2L - chr2L_10966622_10968104;chr2L_10966622_10968133;chr2L_10966622_10967855 chr2L_10966622_10968083 chr2L_10966522_10966621;chr2L_10968134_10968152 0.00 0.00 2.27 1.16 0.00 0.00 2.50 1.25 0.76 0.00 2.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.64 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 1.16 NA 0.00 0.00 NA NA 0.00 0.00 0.93 0.00 NA 0.00 0.00 NA 0.00 0.86 NA 0.00 0.00 NA NA 0.00 NA 0.00 0.00 K alternative_donor CG32795,I_chrX_2677459_2682526,I_chrX_2677729_2677799,I_chrX_2679163_2681784 chrX - chrX_2683412_2683778 chrX_2683412_2683741 chrX_2683271_2683411;chrX_2683779_2683818 0.00 NA NA NA NA NA NA NA 0.00 NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA 0.00 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA K alternative_donor lig,CI_chr2R_3962006_3962916,I_chr2R_3962357_3962977,RI_chr2R_3962875_3962977 chr2R + chr2R_3961577_3962977;chr2R_3962006_3962977 chr2R_3961910_3962977 chr2R_3962978_3963016;chr2R_3961479_3961576 2.51 4.23 1.76 3.75 5.17 3.26 1.69 1.55 3.74 5.10 2.48 4.84 3.21 3.57 3.36 0.53 1.05 1.03 1.04 0.52 4.19 2.47 2.76 3.74 3.61 1.90 5.70 22.92 9.46 3.62 1.02 3.86 1.00 2.36 1.01 4.60 2.58 3.12 1.95 3.57 3.17 1.64 1.20 1.90 3.63 1.77 1.07 2.91 1.88 0.95 2.13 1.43 2.85 1.58 2.51 2.99 2.28 2.05 K intron_retention crq,I_chr2L_452169_452576,I_chr2L_452737_452797 chr2L - chr2L_450879_452576 chr2L_450878_450879;chr2L_452576_452577 chr2L_450666_450878;chr2L_452577_452676 0.00 0.00 1.32 1.80 0.00 0.00 1.79 0.00 1.82 4.55 0.00 0.00 6.06 0.00 0.00 2.35 0.00 0.00 0.00 0.70 0.00 1.61 2.27 0.00 3.85 0.00 0.00 0.00 0.00 0.00 0.90 0.00 0.00 1.43 0.00 2.70 6.25 0.00 0.00 2.78 0.00 1.63 0.00 0.00 0.00 0.00 0.00 0.00 1.99 0.00 0.00 2.70 NA 2.86 0.00 4.17 0.00 4.26 K jcn_only_AD CG6006 chr3R + chr3R_11984096_11984579;chr3R_11983962_11984579;chr3R_11984036_11984579;chr3R_11984029_11984579 chr3R_11984018_11984579 chr3R_11984580_11984637;chr3R_11983945_11983961 36.73 NA NA NA NA NA 22.73 NA 38.46 NA NA NA NA NA NA NA NA NA NA NA NA NA 30.00 NA NA NA 20.83 NA NA NA NA NA NA 40.91 NA NA NA NA NA NA NA 35.00 NA NA NA NA NA NA 58.06 NA 47.83 NA NA NA NA NA NA NA K intron_retention itp chr2R + chr2R_20428544_20442876 chr2R_20428543_20428544;chr2R_20442876_20442877 chr2R_20427495_20428543;chr2R_20442877_20443094 0.00 0.00 3.92 3.23 3.92 0.00 11.11 3.80 6.42 0.00 0.00 3.23 4.76 4.26 4.00 0.00 6.25 7.14 1.72 5.06 2.27 0.00 1.67 0.00 0.00 4.44 0.00 0.00 0.00 0.00 4.44 0.00 0.00 6.17 2.56 0.00 0.00 0.00 0.00 0.00 0.00 3.33 5.41 0.00 0.00 0.00 0.00 0.00 3.61 0.00 0.00 0.00 0.00 0.00 6.06 0.00 0.00 0.00 K alternative_donor I_chr2R_17543813_17543881,CG10320 chr2R + chr2R_17545781_17545855;chr2R_17545686_17545855;chr2R_17545615_17545855 chr2R_17545799_17545855 chr2R_17545856_17545985;chr2R_17545613_17545614 0.00 10.00 0.00 3.70 0.00 0.00 0.00 0.00 4.55 16.67 0.00 0.00 0.00 7.69 0.00 0.00 0.00 0.00 8.33 0.00 0.00 12.50 0.00 0.00 20.00 7.69 20.00 25.00 0.00 0.00 0.00 12.50 11.11 4.35 NA NA 0.00 0.00 0.00 7.69 12.50 2.38 0.00 20.00 4.76 0.00 0.00 18.18 0.00 25.00 0.00 25.00 0.00 0.00 4.17 10.00 0.00 8.33 K intron_retention CG5013,I_chr3R_11877071_11877796 chr3R + chr3R_11875438_11875509 chr3R_11875437_11875438;chr3R_11875509_11875510 chr3R_11875435_11875437;chr3R_11875510_11875638 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.97 K intron_retention CG32529 chrX + chrX_19798711_19798771 chrX_19798710_19798711;chrX_19798771_19798772 chrX_19798542_19798710;chrX_19798772_19799645 1.26 0.82 1.45 4.98 0.83 1.05 2.33 1.23 1.50 1.07 1.38 1.33 0.44 0.00 1.81 1.95 1.68 1.38 1.71 1.35 2.86 2.08 1.41 0.57 3.24 3.72 3.35 4.68 16.07 1.20 1.15 0.00 3.50 1.88 0.81 3.99 1.23 1.04 0.86 1.22 4.84 1.12 3.35 0.99 1.72 0.86 0.82 3.70 0.98 1.26 0.87 1.29 0.87 0.79 1.06 0.36 0.00 0.00 K alternative_donor CG8177,E_chr3L_9756800_9772650,RI_chr3L_9757294_9758708,I_chr3L_9773534_9773635,I_chr3L_9774319_9774602 chr3L + chr3L_9756800_9764754 chr3L_9757294_9764754 chr3L_9764755_9765019;chr3L_9756700_9756799 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 93.75 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor CG2906 chr2R + chr2R_3844342_3844402 chr2R_3844346_3844402 chr2R_3844403_3845220;chr2R_3844148_3844341 75.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 75.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K alternative_acceptor I_chr2L_822032_822857,dock chr2L + chr2L_826508_829304;chr2L_826508_829456 chr2L_826508_829421 chr2L_826008_826507;chr2L_829457_829468 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette Eph,I_chr4_636808_638946,I_chr4_639690_640473,I_chr4_640676_640879,RI_chr4_640804_640863 chr4 + chr4_636808_638973 chr4_636808_637929;chr4_637978_638973 chr4_637930_637977 chr4_636708_636807;chr4_638974_639046 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.16 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA Df31,RE_chr2L_21628206_21629662,I_chr2L_21628206_21629666,I_chr2L_21628210_21628944,I_chr2L_21628210_21629216,EI_chr2L_21628210_21629715,REI_chr2L_21628210_21629884,I_chr2L_21628224_21629666,I_chr2L_21628734_21629666 chr2L - chr2L_21628210_21629666 chr2L_21628734_21629666 chr2L_21629667_21629762;chr2L_21628124_21628209 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.05 0.00 0.08 0.00 0.00 0.29 0.00 0.00 0.05 0.00 0.16 0.00 0.10 0.00 0.00 0.00 0.06 0.00 0.08 0.09 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.11 0.00 0.00 0.00 0.09 0.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.07 0.00 0.00 0.00 0.00 K intron_retention CG14995,I_chr3L_4095875_4097205,I_chr3L_4096047_4096903 chr3L - chr3L_4096979_4097506 chr3L_4096978_4096979;chr3L_4097506_4097507 chr3L_4096971_4096978;chr3L_4097507_4097804 16.52 NA NA NA NA NA NA NA 35.71 NA NA NA NA NA NA NA NA NA NA 15.38 NA 42.86 0.00 11.11 NA NA NA NA 0.00 NA NA NA 9.09 NA NA NA 6.45 13.04 22.22 20.00 NA 22.22 NA 17.65 7.69 NA NA 7.14 25.00 38.46 25.00 NA NA NA NA NA NA NA K alternative_last_exon MRP,I_chr2L_12727117_12729243,F_chr2L_12727117_12736035 chr2L + chr2L_12728242_12737958 chr2L_12728242_12729930 chr2L_12737959_12738176 chr2L_12729931_12730151 chr2L_12728173_12728241 0.98 0.81 0.91 1.18 2.00 1.82 0.41 1.34 0.78 1.59 7.50 1.37 0.90 1.05 0.98 0.55 1.28 0.78 0.76 1.63 2.08 0.83 1.85 1.61 0.83 1.22 0.58 1.39 1.79 1.00 0.81 1.22 0.92 0.62 0.86 1.60 0.87 2.38 0.51 1.52 0.94 0.56 1.52 0.44 1.08 0.79 0.97 1.19 1.97 1.11 0.50 0.98 0.78 2.19 1.69 0.86 0.40 0.67 K jcn_only_AA Zyx102EF,I_chr4_1078380_1078835,I_chr4_1080463_1081366,REF_chr4_1081261_1081452,F_chr4_1081280_1081398,F_chr4_1081280_1081452 chr4 - chr4_1078666_1078835;chr4_1078644_1078835;chr4_1078778_1078835 chr4_1078782_1078835 chr4_1078836_1078848;chr4_1078433_1078643 34.48 NA NA 16.67 NA NA 45.00 15.79 36.00 NA NA 33.33 NA NA NA 22.73 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 40.91 NA NA 34.48 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 37.14 NA NA NA NA NA NA NA NA NA K intron_retention Nmda1,R_chr2R_8766216_8766562,I_chr2R_8766652_8766956,I_chr2R_8766728_8766791,I_chr2R_8766728_8767623 chr2R - chr2R_8766652_8766952 chr2R_8766651_8766652;chr2R_8766952_8766953 chr2R_8766628_8766651;chr2R_8766953_8767161 60.00 NA 53.85 NA NA NA 69.23 53.33 53.33 NA NA 47.06 60.00 77.78 63.64 61.11 NA 55.56 NA 40.00 NA NA 50.00 NA NA NA 90.00 94.12 92.86 NA 54.55 NA NA 56.25 NA NA NA NA NA NA NA 33.33 NA 70.00 NA NA NA NA 68.75 NA NA NA NA NA 70.00 NA NA NA K cassette Dyb,I_chr2R_8337305_8339173,I_chr2R_8337742_8339173,I_chr2R_8338101_8339173,I_chr2R_8348603_8351844 chr2R + chr2R_8337288_8339479 chr2R_8337288_8337573;chr2R_8337742_8339479 chr2R_8337574_8337741 chr2R_8337205_8337287;chr2R_8339480_8339530 0.00 4.76 NA 0.00 NA 0.00 0.00 NA 0.00 0.00 NA 3.45 NA NA NA 0.00 NA NA NA 6.90 NA NA 0.00 0.00 0.00 NA 4.55 NA NA 0.00 NA NA NA 0.00 0.00 0.00 4.00 4.35 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA K intron_retention rtGEF,I_chr2L_20359856_20360012 chr2L + chr2L_20360813_20364296 chr2L_20360812_20360813;chr2L_20364296_20364297 chr2L_20360564_20360812;chr2L_20364297_20365220 6.60 8.54 1.72 33.33 6.98 7.27 22.03 10.53 4.59 7.25 14.58 10.84 11.76 9.52 9.38 9.76 4.76 4.05 4.35 7.63 8.33 2.55 5.31 3.51 6.00 7.55 6.02 9.86 7.14 4.90 4.17 5.41 7.22 5.41 5.88 3.09 4.43 6.17 3.15 5.11 15.18 7.87 8.33 5.13 3.93 7.58 7.41 5.56 6.60 10.34 7.92 5.66 5.33 2.60 5.36 9.30 7.45 6.00 K intron_retention Pfk,I_chr2R_5999081_6000140,E_chr2R_6001157_6001630 chr2R + chr2R_6001157_6002421 chr2R_6001156_6001157;chr2R_6002421_6002422 chr2R_6001129_6001156;chr2R_6002422_6002610 8.11 8.51 14.81 0.00 NA 5.26 18.92 15.00 11.11 6.98 11.11 11.11 NA NA NA NA NA 3.45 NA 0.00 10.53 5.06 8.47 9.23 6.25 NA 9.23 12.50 10.94 10.00 0.00 0.00 9.38 18.18 0.00 8.11 8.99 5.00 2.60 16.28 0.00 9.09 NA 5.26 0.00 2.38 0.00 14.29 4.00 8.70 10.42 19.35 0.00 8.11 NA 2.70 0.00 0.00 K multi_cassette unk,I_chr3R_18980963_18981530 chr3R - chr3R_18980497_18981530 chr3R_18980497_18980566;chr3R_18980690_18980853;chr3R_18980963_18981161;chr3R_18981272_18981530 chr3R_18980567_18980689;chr3R_18980854_18980962;chr3R_18981162_18981271 chr3R_18979916_18980496;chr3R_18981531_18981630 100.00 100.00 NA NA 100.00 NA NA 100.00 100.00 NA NA 100.00 100.00 NA NA 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 100.00 66.67 100.00 100.00 NA 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 NA 100.00 NA 100.00 NA NA NA 100.00 100.00 NA NA NA NA NA 100.00 NA NA NA K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2389272_2395659 chrX_2389272_2390808;chrX_2390959_2391350;chrX_2391522_2393243;chrX_2393712_2395659 chrX_2390809_2390958;chrX_2391351_2391521;chrX_2393244_2393711 chrX_2389172_2389271;chrX_2395660_2395759 50.00 NA NA NA NA NA NA NA NA NA NA 50.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CtBP chr3R + chr3R_8847365_8850521 chr3R_8847364_8847365;chr3R_8850521_8850522 chr3R_8847142_8847364;chr3R_8850522_8850528 88.46 82.35 80.00 88.89 92.31 93.33 93.75 84.00 89.47 81.82 100.00 79.41 88.89 93.33 100.00 94.44 100.00 85.71 93.33 80.77 92.31 84.31 88.89 66.67 83.33 94.44 88.24 94.74 78.26 93.33 83.33 91.67 84.62 94.74 90.91 93.33 78.26 84.21 81.82 88.46 86.67 83.33 92.31 80.95 70.00 82.61 88.89 95.65 96.77 79.17 91.67 92.86 80.00 70.00 100.00 73.33 80.00 81.25 K intron_retention Rbcn-3A chrX - chrX_6137848_6137905 chrX_6137847_6137848;chrX_6137905_6137906 chrX_6137623_6137847;chrX_6137906_6138157 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.59 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor Ssadh,RI_chr3R_21451890_21451963,I_chr3R_21452371_21452464,I_chr3R_21452407_21452453 chr3R - chr3R_21452368_21452453;chr3R_21452386_21452453 chr3R_21452371_21452453 chr3R_21452454_21452553;chr3R_21452307_21452367 15.00 0.00 31.25 20.00 NA NA 17.65 16.67 17.39 NA 8.33 18.18 8.33 7.14 9.09 23.53 NA 15.38 NA 16.00 NA 13.04 15.00 11.76 NA NA 14.29 10.00 NA 15.00 15.38 18.18 NA 12.50 8.33 21.05 17.39 20.00 10.53 21.05 NA 21.05 NA 23.08 25.00 9.52 10.00 7.69 10.00 23.08 15.38 NA 6.67 11.76 11.76 NA 16.00 12.50 K alternative_acceptor CG10960,I_chr3L_12819402_12819475,I_chr3L_12820683_12835879 chr3L - chr3L_12819402_12819475 chr3L_12819406_12819475 chr3L_12819476_12819536;chr3L_12819337_12819401 100.00 100.00 99.28 99.55 100.00 100.00 98.80 99.65 99.69 98.11 100.00 100.00 98.82 100.00 99.32 99.30 100.00 99.25 100.00 100.00 99.13 100.00 100.00 97.98 100.00 100.00 100.00 100.00 100.00 100.00 99.30 100.00 100.00 100.00 100.00 100.00 98.97 100.00 100.00 99.02 100.00 99.63 100.00 100.00 100.00 99.09 100.00 100.00 100.00 100.00 99.22 98.46 100.00 98.46 99.40 100.00 100.00 100.00 K multi_cassette CG12090,I_chr3L_1525393_1526659 chr3L - chr3L_1525393_1527189 chr3L_1525393_1526333;chr3L_1526399_1526659;chr3L_1526732_1527189 chr3L_1526334_1526398;chr3L_1526660_1526731 chr3L_1525293_1525392;chr3L_1527190_1527240 20.00 NA NA NA NA NA NA NA NA NA NA 95.00 NA NA NA NA NA NA NA 44.44 NA NA NA NA NA 7.69 NA NA NA NA NA NA NA NA NA NA 25.00 NA NA 15.38 NA 12.50 NA NA NA NA NA NA 20.00 NA NA NA NA NA NA NA NA NA K alternative_donor CG3714,I_chr2L_4190825_4191774,I_chr2L_4192969_4193324,I_chr2L_4195905_4196470,I_chr2L_4196780_4197306,RI_chr2L_4196780_4197951,I_chr2L_4196815_4197306,I_chr2L_4196815_4197951 chr2L - chr2L_4196780_4197146 chr2L_4196780_4197095 chr2L_4196715_4196779;chr2L_4197147_4197191 0.00 0.00 0.00 8.11 0.00 0.00 4.42 4.55 4.84 0.00 0.00 1.89 17.39 5.00 0.00 3.92 0.00 0.00 0.00 2.50 0.00 0.00 6.52 2.94 5.41 0.00 3.39 6.38 0.00 4.35 1.72 NA 0.00 5.00 3.70 5.26 3.45 0.00 0.00 4.76 0.00 3.28 0.00 1.49 NA 0.00 NA 0.00 0.00 2.27 0.00 0.00 NA NA 3.85 0.00 0.00 NA K intron_retention CG8736,noncoding_5214 chr2R - chr2R_4482147_4482353 chr2R_4482146_4482147;chr2R_4482353_4482354 chr2R_4481544_4482146;chr2R_4482354_4483748 0.00 NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA 0.00 NA 12.50 0.00 0.00 NA 0.00 NA 0.00 NA NA 0.00 0.00 NA NA 0.00 NA NA NA 0.00 0.00 4.00 5.56 NA 30.77 0.00 14.29 NA NA NA NA 0.00 6.90 0.00 K intron_retention CG7766,I_chrX_8993495_8994545,I_chrX_8991338_8991387 chrX - chrX_8993495_8995128 chrX_8993494_8993495;chrX_8995128_8995129 chrX_8993395_8993494;chrX_8995129_8995452 5.81 3.45 8.00 8.22 9.68 9.52 15.38 11.43 10.81 5.26 4.76 17.28 0.00 11.54 5.36 5.80 17.07 8.89 13.79 10.75 10.34 3.81 7.81 5.36 4.88 10.20 7.58 10.00 9.09 5.81 4.29 5.41 4.23 5.68 8.47 4.76 4.62 2.63 7.27 5.31 2.27 11.58 10.87 6.58 1.47 2.13 5.13 3.92 10.26 5.26 7.81 6.52 3.45 0.00 9.33 1.89 5.13 2.97 K intron_retention RI_chr2R_11577574_11577625,CG33460,CG33461,CG33462 chr2R + chr2R_11582134_11582205 chr2R_11582133_11582134;chr2R_11582205_11582206 chr2R_11581982_11582133;chr2R_11582206_11582778 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.08 0.00 0.00 0.00 0.43 0.00 0.00 0.00 0.00 0.00 0.24 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.14 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor CG8405,I_chr2R_11936911_11936991 chr2R + chr2R_11936911_11936991 chr2R_11936915_11936991 chr2R_11936992_11937091;chr2R_11936848_11936910 96.97 94.74 100.00 95.12 94.74 94.74 96.43 100.00 97.56 94.44 95.65 100.00 100.00 100.00 95.65 100.00 100.00 95.45 100.00 98.44 100.00 97.14 96.97 95.65 95.00 93.75 100.00 94.44 95.83 100.00 83.33 100.00 100.00 100.00 92.31 100.00 97.78 95.24 100.00 95.45 94.12 97.78 94.12 100.00 100.00 100.00 94.12 95.24 97.50 94.74 96.55 100.00 90.48 100.00 93.33 94.74 94.74 100.00 K intron_retention CG14322 chr3R + chr3R_13494835_13494904 chr3R_13494834_13494835;chr3R_13494904_13494905 chr3R_13494833_13494834;chr3R_13494905_13494939 100.00 NA NA 95.65 NA NA 100.00 94.44 100.00 NA 100.00 100.00 NA 100.00 NA 100.00 100.00 NA 87.50 100.00 NA NA NA 81.82 NA NA NA NA NA NA 100.00 100.00 NA 95.24 100.00 NA NA NA NA 100.00 NA 94.12 NA NA NA 100.00 100.00 NA 100.00 100.00 100.00 NA NA 88.89 100.00 100.00 100.00 NA K intron_retention CG4133 chr2L + chr2L_455828_456085 chr2L_455827_455828;chr2L_456085_456086 chr2L_455543_455827;chr2L_456086_456223 47.06 NA NA 66.67 NA NA 47.06 44.00 31.25 NA NA 47.06 NA NA NA 54.55 NA NA 50.00 33.33 NA NA NA NA NA 53.33 50.00 NA NA NA NA NA NA 45.45 NA 56.25 NA NA NA 31.58 NA 45.45 36.36 50.00 NA 40.00 NA NA 45.45 NA NA NA NA NA 63.64 NA 60.00 NA K intron_retention Adam,I_chr2R_5857058_5857250,I_chr2R_5857078_5857245 chr2R + chr2R_5857360_5857423 chr2R_5857359_5857360;chr2R_5857423_5857424 chr2R_5857251_5857359;chr2R_5857424_5857712 0.00 0.00 0.00 0.88 0.00 0.00 0.00 1.22 0.00 0.00 0.00 0.00 0.00 0.00 0.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.45 0.00 0.00 1.88 1.46 0.00 0.00 0.00 0.51 0.31 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.85 0.00 0.00 0.00 0.00 0.31 0.00 0.00 K jcn_only_AA Sur-8 chr3R - chr3R_13225319_13227032 chr3R_13225324_13227032 chr3R_13227033_13227098;chr3R_13225253_13225318 100.00 100.00 100.00 100.00 98.60 100.00 100.00 99.49 100.00 99.15 99.39 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.59 99.01 99.67 99.69 99.01 100.00 100.00 99.25 98.01 99.15 100.00 99.63 98.56 99.45 99.43 100.00 100.00 100.00 99.09 100.00 99.71 98.78 99.07 100.00 99.71 100.00 100.00 100.00 99.12 100.00 100.00 100.00 99.27 98.90 100.00 100.00 99.47 100.00 100.00 K intron_retention CG5630 chr3R + chr3R_16752700_16754401 chr3R_16752699_16752700;chr3R_16754401_16754402 chr3R_16752493_16752699;chr3R_16754402_16754407 87.50 NA NA 14.29 NA NA NA 100.00 90.00 NA NA 66.67 88.89 NA NA 66.67 NA NA NA 83.33 NA 93.75 81.25 90.00 NA NA 87.50 NA NA NA 90.91 NA NA NA NA 90.00 83.33 NA 93.33 93.33 NA 75.00 NA 88.89 90.91 83.33 90.00 87.50 77.78 86.67 75.00 NA NA 72.73 NA NA 87.50 83.33 K intron_retention bbc,I_chr2R_9376554_9377246,REI_chr2R_9379401_9381986 chr2R - chr2R_9376554_9378939 chr2R_9376553_9376554;chr2R_9378939_9378940 chr2R_9376527_9376553;chr2R_9378940_9379098 95.24 94.44 100.00 100.00 96.88 92.86 94.12 96.72 94.59 93.33 96.88 89.66 97.67 97.06 95.24 96.83 100.00 90.00 95.65 95.38 96.77 95.42 94.20 84.75 93.55 96.30 95.31 90.24 91.18 96.77 86.96 92.86 94.74 96.88 95.45 71.79 96.72 87.76 91.89 93.75 88.89 98.15 96.00 81.82 80.00 94.44 84.62 100.00 97.96 96.67 97.78 97.30 92.31 93.33 97.06 88.46 95.65 88.89 K cassette RpL10Ab chr3L + chr3L_11815991_11816757 chr3L_11815991_11816299;chr3L_11816456_11816757 chr3L_11816300_11816455 chr3L_11815955_11815990;chr3L_11816758_11817314 99.96 99.97 99.79 99.14 99.91 99.96 99.97 99.82 99.93 99.95 99.86 99.88 99.96 100.00 99.91 99.91 99.95 99.82 99.96 99.84 99.91 98.56 100.00 100.00 100.00 99.74 100.00 99.92 99.94 100.00 99.87 99.97 99.95 99.90 100.00 99.96 100.00 100.00 99.98 99.88 99.93 99.88 99.86 99.98 99.92 99.98 99.97 99.98 99.90 99.97 100.00 100.00 99.98 100.00 99.91 100.00 100.00 99.98 K intron_retention Vha16,I_chr2R_2519645_2520499,RI_chr2R_2519646_2519840,I_chr2R_2519646_2520292,I_chr2R_2519646_2520298,I_chr2R_2519775_2520499 chr2R - chr2R_2519646_2519810 chr2R_2519645_2519646;chr2R_2519810_2519811 chr2R_2519546_2519645;chr2R_2519811_2519868 53.98 60.19 53.85 53.96 56.45 50.91 82.96 62.99 53.04 41.89 55.45 62.95 56.94 60.00 57.31 53.98 58.54 50.41 60.00 50.00 48.67 46.73 55.97 48.28 67.82 73.68 61.49 40.54 63.46 50.00 45.71 41.51 53.21 59.46 63.64 78.43 34.85 42.57 37.37 39.93 68.52 49.22 57.98 56.36 43.40 44.59 59.26 48.48 51.33 48.19 59.70 59.22 47.62 60.53 51.79 51.92 57.32 58.73 K intron_retention MESK2,RI_chr2R_17398771_17398908,I_chr2R_17401067_17401713 chr2R + chr2R_17399683_17401713 chr2R_17399682_17399683;chr2R_17401713_17401714 chr2R_17399598_17399682;chr2R_17401714_17401813 15.52 14.00 9.52 24.56 13.79 10.87 46.67 33.33 18.99 14.29 34.48 36.54 26.09 12.12 14.29 13.79 29.17 18.92 21.43 12.99 20.69 18.11 13.92 18.46 19.57 18.42 14.58 23.61 26.67 12.00 17.31 14.29 19.70 15.52 15.38 14.58 12.35 14.00 14.29 9.64 26.92 16.67 18.52 18.00 20.29 13.43 17.81 16.95 12.70 18.52 12.64 11.76 13.79 14.00 17.50 13.89 11.34 12.86 K intron_retention CG13779 chr2L + chr2L_7064198_7064252 chr2L_7064197_7064198;chr2L_7064252_7064253 chr2L_7064002_7064197;chr2L_7064253_7064467 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.49 0.00 0.00 0.00 0.00 0.98 1.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.36 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.36 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA RI_chr2R_12912984_12913058,RhoGEF2 chr2R + chr2R_12926410_12926473 chr2R_12926410_12926467 chr2R_12926100_12926409;chr2R_12926474_12926605 90.20 91.55 87.50 90.20 92.86 88.46 85.53 87.74 88.52 92.06 97.30 91.67 87.50 87.72 81.93 90.91 86.21 92.11 88.52 88.89 79.31 96.55 87.70 96.81 87.50 91.43 94.62 90.77 91.75 85.06 89.47 96.30 88.89 89.26 96.92 92.71 91.67 85.07 83.84 91.14 92.98 88.14 88.89 95.70 93.33 89.33 87.06 92.70 93.18 84.00 86.84 91.53 95.08 90.24 89.01 87.10 90.74 92.59 K alternative_donor noncoding_4199 chr2L - chr2L_21540090_21540149 chr2L_21540090_21540144 chr2L_21539548_21540089;chr2L_21540150_21540275 10.75 10.38 10.07 10.75 13.37 10.88 9.09 10.73 12.24 12.07 9.68 10.90 10.04 10.98 10.49 13.45 11.16 9.84 10.85 9.57 10.15 11.94 16.67 11.23 8.20 11.30 10.26 8.86 12.20 10.29 11.58 10.37 14.67 11.22 11.11 8.41 8.74 11.65 9.61 10.71 12.42 11.48 12.55 9.48 9.71 11.34 12.07 14.58 11.98 11.14 7.33 8.65 9.71 13.18 9.33 10.65 10.39 9.92 K mutually_exclusive Dscam,I_chr2R_3212234_3216793,I_chr2R_3212243_3212342,F_chr2R_3219886_3228832,FI_chr2R_3229124_3235353,FI_chr2R_3236481_3242386,I_chr2R_3244812_3249222,FI_chr2R_3249373_3251385,FI_chr2R_3251554_3255892 chr2R - chr2R_3212243_3214121,chr2R_3214290_3216793 chr2R_3212243_3213656,chr2R_3213870_3216793 chr2R_3214122_3214289 chr2R_3213657_3213869 chr2R_3212143_3212242;chr2R_3216794_3216856 63.64 68.85 60.98 52.24 61.76 47.92 68.97 52.17 61.29 76.74 73.91 64.94 39.13 57.58 60.87 44.12 62.50 68.75 56.76 61.54 59.38 84.03 69.00 66.67 75.41 57.58 62.86 73.02 73.91 67.50 54.90 62.50 70.00 51.67 69.09 86.57 72.58 70.49 72.27 58.06 72.50 60.64 58.06 56.10 76.92 64.62 65.67 63.41 58.75 67.27 59.49 63.64 70.45 74.00 52.94 63.93 67.31 61.36 K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2387249_2389980 chrX_2387249_2387583;chrX_2387710_2388436;chrX_2388671_2389073;chrX_2389272_2389644;chrX_2389762_2389980 chrX_2387584_2387709;chrX_2388437_2388670;chrX_2389074_2389271;chrX_2389645_2389761 chrX_2387149_2387248;chrX_2389981_2390066 100.00 NA NA NA NA NA NA 100.00 100.00 NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA 100.00 NA 100.00 NA 66.67 NA NA NA 66.67 100.00 NA NA NA NA NA 100.00 NA NA NA N cassette Pvf2 chr2L - chr2L_7070947_7083185 chr2L_7070947_7074253;chr2L_7074357_7083185 chr2L_7074254_7074356 chr2L_7070421_7070946;chr2L_7083186_7083728 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.09 100.00 100.00 100.00 100.00 100.00 97.14 96.46 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.50 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention lva,CG6428 chrX - chrX_3854618_3854674 chrX_3854617_3854618;chrX_3854674_3854675 chrX_3854510_3854617;chrX_3854675_3858385 0.00 0.00 0.00 2.70 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 16.67 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention l(3)87Df chr3R + chr3R_8856992_8857056 chr3R_8856991_8856992;chr3R_8857056_8857057 chr3R_8856804_8856991;chr3R_8857057_8857663 0.00 0.00 0.00 1.89 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.85 0.00 0.00 2.44 2.27 6.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.15 1.01 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention tai,I_chr2L_9191814_9206231 chr2L + chr2L_9243179_9243234 chr2L_9243178_9243179;chr2L_9243234_9243235 chr2L_9242993_9243178;chr2L_9243235_9243545 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.52 2.03 0.00 0.00 0.00 0.00 1.48 0.00 0.00 0.00 0.77 0.00 0.00 0.41 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG16940,I_chr3L_212740_212843,I_chr3L_212783_212843,noncoding_9585,Kaz1-ORFA_Kaz1-ORFB chr3L + chr3L_212308_212843;chr3L_212788_212843 chr3L_212785_212843 chr3L_212844_212943;chr3L_212275_212307 100.00 NA NA NA NA NA 100.00 NA NA NA NA 100.00 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA 100.00 NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA K jcn_only_AD CG11739,RI_chr3R_205772_205830,I_chr3R_207254_207600 chr3R + chr3R_205768_205830 chr3R_205772_205830 chr3R_205831_205930;chr3R_205672_205767 2.63 3.08 2.38 3.42 1.65 0.00 2.52 0.43 3.72 2.33 0.00 4.21 2.86 1.03 2.08 0.70 4.10 3.45 3.74 1.85 4.08 1.67 4.46 3.57 2.33 2.56 1.94 4.88 5.88 5.00 10.42 4.55 7.79 0.60 1.39 2.56 0.61 2.06 4.44 4.39 1.67 1.99 2.08 0.00 1.19 3.03 3.77 5.08 1.40 6.19 2.63 2.67 3.97 2.52 3.90 2.31 3.66 7.27 K intron_retention CG17224,RI_chr2L_3017869_3017958,RI_chr2L_3018025_3018085,RI_chr2L_3018082_3018278,RI_chr2L_3022346_3022422,CG3605 chr2L - chr2L_3017904_3017958 chr2L_3017903_3017904;chr2L_3017958_3017959 chr2L_3017812_3017903;chr2L_3017959_3018017 0.00 0.00 0.00 0.00 0.00 0.00 1.33 2.30 2.24 0.00 0.00 2.11 0.00 0.00 1.41 0.00 0.00 0.00 0.00 0.00 0.00 2.08 0.00 2.44 0.00 0.00 10.64 NA NA 0.00 0.68 0.00 0.00 1.09 0.00 0.00 0.00 0.00 0.00 0.00 4.17 0.00 0.00 3.45 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 1.35 0.00 1.92 0.00 K jcn_only_AA ATPsyn-Cf6,I_chr3R_19181282_19181355,I_chr3R_19181508_19181563,I_chr3R_19181524_19181702 chr3R - chr3R_19181282_19181355 chr3R_19181292_19181355 chr3R_19181356_19181424;chr3R_19181216_19181281 100.00 99.90 100.00 100.00 100.00 100.00 100.00 99.91 99.87 99.77 100.00 99.92 100.00 100.00 99.77 100.00 100.00 100.00 99.86 99.94 100.00 100.00 100.00 99.92 100.00 99.69 99.90 100.00 100.00 99.87 99.89 100.00 99.88 100.00 100.00 100.00 100.00 100.00 99.94 100.00 99.71 99.94 100.00 99.88 100.00 99.87 99.93 100.00 99.90 99.90 100.00 100.00 100.00 99.79 100.00 100.00 99.95 100.00 K alternative_donor RI_chrX_7172561_7252693,CG1677,I_chrX_7178792_7252693,unc-119,I_chrX_7183298_7183371,RI_chrX_7183298_7184274 chrX - chrX_7183298_7183538 chrX_7183298_7183371 chrX_7183198_7183297;chrX_7183539_7183711 16.00 NA 22.22 16.00 18.18 11.76 18.18 8.00 12.12 NA NA 17.86 20.00 28.57 25.00 17.39 18.18 36.36 9.52 16.67 30.77 16.67 8.00 21.05 15.38 0.00 17.39 NA 18.18 18.18 17.65 NA 18.18 12.00 14.29 11.76 13.33 0.00 5.88 21.43 NA 19.05 26.67 NA 14.29 14.29 12.00 NA 21.43 7.14 10.00 14.29 NA 5.56 11.76 5.88 15.38 NA K alternative_donor RpL17,I_chrX_6637182_6638207,RI_chrX_6637182_6637528,I_chrX_6637182_6637973,snoRNA:Psi28S-1232 chrX - chrX_6637182_6638178;chrX_6637182_6638228;chrX_6637182_6637982 chrX_6637182_6638141 chrX_6637093_6637181;chrX_6638229_6638235 37.04 42.86 45.00 37.04 46.94 43.59 57.78 41.51 47.14 6.82 55.88 49.18 64.86 46.88 40.00 42.42 50.00 54.35 38.46 42.05 44.44 11.21 38.89 34.15 35.29 55.32 18.60 11.11 27.96 9.09 31.25 5.50 4.00 37.78 15.69 11.32 43.75 42.86 35.19 9.24 6.45 42.22 41.03 12.96 13.22 9.21 29.63 4.68 33.96 16.33 43.33 42.86 6.69 29.73 38.00 27.78 16.09 4.97 K intron_retention Nlp,I_chr3R_25834987_25835399 chr3R + chr3R_25830778_25831009 chr3R_25830777_25830778;chr3R_25831009_25831010 chr3R_25830755_25830777;chr3R_25831010_25831143 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.23 0.00 0.35 0.00 0.75 0.86 1.86 0.00 0.00 0.00 0.00 0.00 0.00 0.73 0.00 0.00 0.00 0.00 0.94 0.00 0.00 0.00 0.16 0.17 0.00 0.37 0.39 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention faf,RI_chr3R_27603474_27603893,E_chr3R_27613964_27614381,I_chr3R_27620212_27620267,RI_chr3R_27624356_27624427 chr3R + chr3R_27613920_27614381 chr3R_27613919_27613920;chr3R_27614381_27614382 chr3R_27613864_27613919;chr3R_27614382_27614481 93.33 93.33 92.86 95.45 NA NA 86.21 93.33 96.15 93.75 100.00 90.00 100.00 100.00 100.00 93.33 90.91 93.75 93.75 97.73 92.31 90.48 91.30 84.21 78.57 92.31 95.65 94.74 82.14 100.00 100.00 81.25 76.47 81.82 100.00 95.83 93.75 91.67 90.48 85.71 80.95 96.15 NA 93.75 91.67 90.48 88.89 96.43 100.00 94.12 95.24 NA NA 93.75 92.86 89.47 91.67 95.00 K intron_retention CG17734,I_chr3R_7068286_7069503 chr3R - chr3R_7068736_7069503 chr3R_7068735_7068736;chr3R_7069503_7069504 chr3R_7068546_7068735;chr3R_7069504_7069603 0.81 0.85 0.00 1.05 0.00 1.26 0.75 0.43 2.13 1.72 0.00 1.71 2.20 0.00 0.00 0.00 0.98 0.00 1.18 1.56 0.76 1.92 1.34 2.05 0.00 0.00 2.21 3.06 0.81 0.00 1.28 0.71 0.70 0.00 0.00 2.06 2.67 1.45 3.30 1.90 0.58 0.33 0.00 1.43 0.00 1.39 0.00 0.00 1.29 0.61 2.24 0.98 0.00 1.57 1.10 0.00 0.00 0.74 K jcn_only_AD CG3829,I_chr2R_20874677_20875710,I_chr2R_20874711_20875717,I_chr2R_20875172_20875710,I_chr2R_20875497_20875710 chr2R + chr2R_20875497_20875710;chr2R_20875350_20875710;chr2R_20874711_20875710 chr2R_20875172_20875710 chr2R_20875711_20875810;chr2R_20874611_20874710 2.94 NA 0.00 2.94 4.00 3.12 7.69 2.38 1.47 NA 0.00 2.08 6.90 3.03 2.94 4.55 0.00 4.88 0.00 3.41 0.00 0.00 NA NA NA 2.56 NA NA 9.09 NA 0.00 NA NA 0.00 NA NA NA NA NA 3.70 NA 2.08 8.00 NA NA 4.55 NA 0.00 6.38 NA NA NA NA NA 10.71 NA NA 10.00 K jcn_only_AD ZnT63C chr3L + chr3L_3303853_3304601;chr3L_3304022_3304601 chr3L_3303837_3304601 chr3L_3304602_3304665;chr3L_3303742_3303836 5.23 3.31 8.40 3.01 7.63 3.31 6.16 6.94 6.21 3.36 4.24 4.62 6.67 5.17 3.39 2.58 4.59 11.21 2.54 8.25 5.15 10.92 6.30 6.06 3.51 4.21 6.12 7.69 1.67 2.06 8.48 7.69 1.89 8.33 5.56 3.06 8.99 5.30 5.93 3.42 7.07 5.06 7.45 6.81 21.21 5.77 5.23 1.89 5.58 5.19 5.17 3.36 6.52 3.33 3.09 5.23 9.24 2.50 K jcn_only_AA Ark,I_chr2R_12909344_12909416,RI_chr2R_12912984_12913058 chr2R + chr2R_12912984_12913058 chr2R_12912984_12913038 chr2R_12912884_12912983;chr2R_12913059_12913158 100.00 98.11 97.62 100.00 100.00 100.00 99.08 98.95 97.83 100.00 100.00 98.95 100.00 100.00 100.00 100.00 97.67 100.00 100.00 97.65 100.00 98.91 98.53 100.00 96.43 100.00 100.00 93.10 100.00 96.77 96.84 100.00 100.00 98.02 100.00 97.30 100.00 93.33 100.00 100.00 100.00 97.44 100.00 98.36 100.00 100.00 97.87 100.00 98.90 98.55 98.15 97.67 100.00 96.97 98.59 97.06 100.00 98.00 N alternative_donor CG9339,RE_chr2L_20903555_20916904,I_chr2L_20903560_20918638,I_chr2L_20922613_20922685 chr2L - chr2L_20917121_20918798;chr2L_20917121_20918638 chr2L_20917121_20918093 chr2L_20916905_20917120;chr2L_20918799_20918888 31.11 28.57 29.41 32.35 33.33 38.46 39.39 37.14 40.48 28.57 27.27 40.74 23.81 33.33 33.33 31.11 46.15 41.67 27.27 29.73 33.33 20.00 19.05 42.86 33.33 30.77 41.67 40.00 25.00 31.25 33.33 22.22 25.00 37.50 28.57 31.25 15.38 20.00 33.33 20.00 33.33 34.62 37.50 21.43 25.00 13.33 9.09 25.00 31.43 28.57 30.77 18.75 14.29 12.50 50.00 22.22 33.33 41.67 K alternative_donor CG8949,I_chrX_16966573_16966630,I_chrX_16971501_16971713 chrX - chrX_16966573_16966681 chrX_16966573_16966630 chrX_16966487_16966572;chrX_16966682_16966730 0.00 5.56 0.00 0.00 5.26 0.00 3.45 0.00 4.08 NA 0.00 2.00 3.33 0.00 5.13 0.00 0.00 0.00 3.12 1.96 0.00 9.68 3.23 0.00 0.00 4.35 6.90 0.00 5.88 4.76 8.00 5.56 4.44 2.22 4.55 0.00 2.94 0.00 3.70 0.00 4.76 0.00 0.00 0.00 0.00 0.00 0.00 2.70 0.00 NA 0.00 0.00 NA NA 0.00 NA 0.00 0.00 K intron_retention Eb1,RI_chr2R_2640290_2642206,I_chr2R_2640494_2642206,I_chr2R_2641187_2642206,RI_chr2R_2641944_2642025,I_chr2R_2641954_2642206,I_chr2R_2642491_2642549 chr2R + chr2R_2640290_2640347 chr2R_2640289_2640290;chr2R_2640347_2640348 chr2R_2640190_2640289;chr2R_2640348_2640353 0.00 0.00 0.00 0.45 0.00 0.00 0.28 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.61 0.00 0.00 0.00 0.00 0.00 0.84 0.00 0.00 0.44 0.00 0.00 0.00 0.00 0.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA E_chr2RHet_2881760_2912543,eIF-4B,I_chr2RHet_2903246_2912532,I_chr2RHet_2912605_2917250 chr2RHet + chr2RHet_2901839_2902098 chr2RHet_2901839_2902093 chr2RHet_2901816_2901838;chr2RHet_2902099_2902500 100.00 100.00 100.00 100.00 98.86 100.00 100.00 99.55 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.50 99.18 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.41 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 93.55 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor CG17683,I_chr2R_18774_18869,I_chr2R_19002_19060 chr2R + chr2R_18998_19060 chr2R_19002_19060 chr2R_19061_19124;chr2R_18902_18997 100.00 93.75 92.31 100.00 100.00 100.00 95.00 95.83 96.77 NA 100.00 100.00 87.50 92.31 100.00 100.00 94.44 92.31 94.44 100.00 100.00 100.00 94.44 100.00 100.00 100.00 96.00 92.31 100.00 100.00 92.00 100.00 88.89 100.00 100.00 100.00 94.12 100.00 100.00 95.24 NA 95.45 93.75 92.86 100.00 90.00 92.86 100.00 96.67 100.00 93.75 100.00 100.00 100.00 100.00 90.91 100.00 100.00 K intron_retention CtBP chr3R + chr3R_8838056_8845063 chr3R_8838055_8838056;chr3R_8845063_8845064 chr3R_8837730_8838055;chr3R_8845064_8845536 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.53 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.78 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.51 100.00 100.00 100.00 100.00 NA 100.00 100.00 NA 100.00 K jcn_only_AA CG12024,REI_chr3L_1857404_1857509 chr3L + chr3L_1857404_1857464;chr3L_1857404_1857509 chr3L_1857404_1857512 chr3L_1857304_1857403;chr3L_1857513_1857609 45.36 46.34 47.73 61.22 44.68 53.33 41.03 31.91 45.36 43.24 39.02 46.81 42.86 39.29 52.08 38.10 39.39 63.89 54.17 42.57 52.63 32.10 53.61 50.56 36.59 50.00 41.46 52.33 45.78 50.53 57.14 38.60 41.54 50.77 31.03 28.57 53.33 43.37 43.82 48.08 57.69 44.58 56.67 45.88 47.67 43.08 47.13 35.00 50.00 40.23 47.73 35.71 51.95 38.46 41.67 41.38 47.87 43.24 K intron_retention RpS20,snoRNA:Psi28S-2562 chr3R + chr3R_16648582_16648853 chr3R_16648581_16648582;chr3R_16648853_16648854 chr3R_16648524_16648581;chr3R_16648854_16649080 99.50 99.68 99.22 99.15 99.74 99.34 99.48 99.69 99.71 99.06 99.71 99.25 99.07 99.56 99.69 99.50 99.86 99.50 99.38 99.26 99.13 99.65 99.72 99.50 99.75 99.45 99.48 99.48 97.47 99.54 99.35 98.92 98.82 99.64 99.42 99.04 99.51 99.73 99.66 99.41 99.20 99.63 99.26 99.73 99.32 99.70 99.53 99.31 99.49 99.79 99.51 99.75 99.50 99.60 99.22 99.57 99.64 99.39 N jcn_only_AA CG34140,CG34140_Mkp,noncoding_9561 chr3L - chr3L_184068_184131 chr3L_184073_184131 chr3L_184132_184197;chr3L_184008_184067 79.46 77.03 100.00 79.52 75.00 100.00 100.00 85.71 81.08 100.00 73.58 77.19 75.44 66.67 81.43 81.13 77.78 100.00 100.00 81.08 76.19 78.85 79.46 80.85 79.66 73.53 75.00 77.38 80.77 100.00 74.07 100.00 100.00 100.00 80.77 74.68 75.82 80.00 78.41 78.08 65.38 79.21 100.00 86.15 100.00 70.59 75.86 100.00 78.81 76.71 81.05 75.00 73.68 67.27 75.93 77.94 79.49 100.00 K alternative_acceptor Gpo-1,I_chr2R_11747621_11747699,EI_chr2R_11747445_11747699,I_chr2R_11749758_11750187,I_chr2R_11756325_11756380 chr2R - chr2R_11748228_11749386 chr2R_11748259_11749386 chr2R_11749387_11749428;chr2R_11748106_11748227 100.00 100.00 NA NA NA NA 100.00 100.00 100.00 100.00 NA 100.00 NA NA NA NA NA 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 NA 100.00 90.91 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 NA 100.00 NA 87.50 K jcn_only_AA CG3608 chr2R + chr2R_20500970_20501033 chr2R_20500970_20501030 chr2R_20500901_20500969;chr2R_20501034_20501099 98.90 100.00 100.00 100.00 100.00 96.88 100.00 98.48 100.00 100.00 NA 97.40 100.00 96.55 100.00 96.88 96.30 100.00 96.77 98.85 100.00 95.56 100.00 97.14 100.00 100.00 96.36 96.67 100.00 95.52 97.62 96.51 100.00 100.00 96.67 100.00 100.00 97.83 100.00 96.91 98.91 98.86 100.00 98.67 98.89 97.65 100.00 99.23 100.00 100.00 98.31 100.00 97.92 97.50 98.36 100.00 97.53 98.73 K cassette CG31619 chr2L + chr2L_21719644_21725067 chr2L_21719644_21720358;chr2L_21720482_21725067 chr2L_21720359_21720481 chr2L_21719514_21719643;chr2L_21725068_21725445 8.45 7.55 11.11 4.41 5.26 5.00 5.71 11.48 7.69 2.86 NA 11.63 NA 8.89 7.55 7.58 9.43 25.00 10.81 19.12 NA 16.67 5.26 6.90 15.38 6.98 6.38 NA 8.33 9.80 5.41 7.32 6.52 10.13 11.54 26.09 10.53 10.42 11.48 9.78 5.26 7.34 7.69 10.00 13.11 8.54 10.87 9.30 6.25 6.90 8.45 12.90 10.34 5.56 8.47 8.20 4.88 6.09 K alternative_donor CG31998,I_chr4_225419_226294 chr4 - chr4_225419_226474;chr4_225419_226366 chr4_225419_226284 chr4_225319_225418;chr4_226475_226518 0.00 0.00 0.00 5.41 0.00 0.00 5.41 6.06 4.35 NA 0.00 3.85 0.00 0.00 0.00 5.88 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 16.67 20.00 NA NA 0.00 NA 0.00 3.70 0.00 0.00 0.00 NA NA 0.00 NA 5.26 0.00 0.00 NA NA NA 0.00 3.85 NA 0.00 0.00 NA NA 0.00 NA NA NA K intron_retention Nc73EF,I_chr3L_16950628_16951334,I_chr3L_16950952_16952198,I_chr3L_16951588_16952198,I_chr3L_16951626_16952198,I_chr3L_16952138_16952198,I_chr3L_16952985_16955434,I_chr3L_16953768_16954599 chr3L + chr3L_16948643_16952198 chr3L_16948642_16948643;chr3L_16952198_16952199 chr3L_16948635_16948642;chr3L_16952199_16952207 0.00 0.00 0.00 0.00 NA 0.00 0.00 3.33 0.00 NA NA 1.72 0.00 NA 0.00 0.00 NA NA 0.00 0.00 NA NA NA NA NA NA NA NA NA NA 0.00 NA NA 0.00 NA NA 6.25 NA NA NA NA 0.00 0.00 NA NA NA NA NA 1.92 NA NA NA NA NA 0.00 NA NA NA K intron_retention scu,noncoding_24518 chrX + chrX_17985424_17985984 chrX_17985423_17985424;chrX_17985984_17985985 chrX_17985361_17985423;chrX_17985985_17986886 1.19 0.91 1.46 1.51 1.13 0.00 0.00 1.52 0.56 2.24 1.21 1.19 1.11 3.64 0.00 3.48 0.64 3.10 0.75 1.64 2.76 5.38 1.10 2.40 1.75 1.24 3.55 2.14 1.12 1.03 0.83 1.16 0.98 0.00 0.00 0.70 0.93 1.24 1.31 1.86 0.00 1.10 0.00 0.52 1.52 1.08 1.91 0.00 2.41 0.51 2.78 1.56 2.12 1.03 1.67 0.00 2.19 2.21 K intron_retention CG8963,I_chr2R_12906431_12906583,I_chr2R_12906930_12906989 chr2R - chr2R_12906855_12906937 chr2R_12906854_12906855;chr2R_12906937_12906938 chr2R_12906830_12906854;chr2R_12906938_12907019 57.53 NA 50.00 36.84 63.64 60.00 55.00 50.00 40.54 70.00 87.50 52.00 45.45 66.67 71.43 42.86 28.57 NA 50.00 50.00 NA 52.00 73.68 60.00 87.50 81.82 80.00 58.82 69.23 66.67 87.50 NA 66.67 56.25 NA NA 46.15 45.45 66.67 56.00 80.00 60.87 46.15 50.00 60.00 47.06 56.25 66.67 55.56 50.00 45.00 NA NA NA 41.67 80.00 64.29 61.54 K alternative_donor CG12393,CG9135 chr2L + chr2L_6048635_6048693;chr2L_6048631_6048693 chr2L_6048627_6048693 chr2L_6048694_6048702;chr2L_6048512_6048626 4.55 5.56 0.00 4.35 0.00 9.09 5.56 4.00 0.00 NA 8.33 0.00 0.00 0.00 6.67 3.23 7.69 4.00 0.00 9.68 0.00 4.55 0.00 9.09 NA 5.00 7.14 0.00 12.50 12.50 8.33 10.00 9.09 4.00 11.11 0.00 0.00 0.00 4.55 5.00 10.00 4.76 0.00 0.00 8.33 15.38 0.00 7.69 4.35 0.00 0.00 10.00 0.00 0.00 5.88 0.00 6.25 14.29 K intron_retention Zasp52,I_chr2R_11690989_11702233,I_chr2R_11690993_11695684,I_chr2R_11690993_11701815,I_chr2R_11690993_11701987,E_chr2R_11690995_11702237 chr2R - chr2R_11690993_11704264 chr2R_11690992_11690993;chr2R_11704264_11704265 chr2R_11690895_11690992;chr2R_11704265_11704488 0.00 0.00 0.00 0.00 5.00 2.27 3.03 2.22 2.21 0.00 4.17 2.70 7.14 1.89 5.00 4.48 5.77 1.96 0.00 0.00 2.56 0.00 0.00 0.00 0.00 6.38 3.51 0.00 0.00 0.00 3.12 0.00 0.00 3.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.90 0.00 0.00 0.00 0.00 0.00 0.00 2.97 0.00 1.79 0.00 NA 0.00 3.90 0.00 0.00 0.00 K jcn_only_AA CG7927,I_chr3L_8109906_8110404 chr3L + chr3L_8105815_8106114 chr3L_8105815_8106111 chr3L_8105594_8105814;chr3L_8106115_8106427 100.00 100.00 98.86 97.98 98.63 98.84 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.70 100.00 97.65 100.00 100.00 100.00 98.17 100.00 100.00 98.68 98.86 100.00 100.00 98.99 100.00 100.00 99.33 99.24 100.00 98.70 100.00 98.72 100.00 100.00 98.95 100.00 98.21 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.97 100.00 98.18 100.00 98.95 100.00 100.00 98.70 K jcn_only_AA RI_chrX_502548_513324,CG13366,I_chrX_509497_513324,I_chrX_513176_513324,I_chrX_513519_513631 chrX - chrX_509546_513324 chrX_513176_513324 chrX_513325_513424;chrX_508807_509545 4.76 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 4.76 NA NA NA NA NA NA NA NA NA NA K intron_retention CG6954,I_chr3R_18492755_18493701,I_chr3R_18492801_18502630,I_chr3R_18493099_18493701 chr3R + chr3R_18493765_18502630 chr3R_18493764_18493765;chr3R_18502630_18502631 chr3R_18493705_18493764;chr3R_18502631_18502730 0.00 NA NA 0.00 NA NA NA 0.00 0.00 NA NA 7.69 NA NA NA NA NA NA NA 5.26 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG14741 chr3R - chr3R_7899339_7900180 chr3R_7899338_7899339;chr3R_7900180_7900181 chr3R_7899048_7899338;chr3R_7900181_7900195 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.11 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.91 99.28 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor RpL12,I_chr2R_19948517_19948655,RI_chr2R_19948517_19948677,I_chr2R_19948517_19948682 chr2R + chr2R_19948517_19948672;chr2R_19948517_19948682;chr2R_19948517_19948677 chr2R_19948517_19948655 chr2R_19948417_19948516;chr2R_19948683_19948755 0.03 0.05 0.00 0.04 0.00 0.13 0.00 0.05 0.03 0.12 0.00 0.06 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.02 0.00 0.24 0.05 0.05 0.09 0.00 0.10 0.25 0.10 0.00 0.06 0.00 0.10 0.00 0.00 0.00 0.04 0.00 0.08 0.05 0.08 0.00 0.00 0.00 0.06 0.05 0.04 0.11 0.00 0.00 0.05 0.00 0.04 0.04 0.00 0.00 0.07 0.09 K intron_retention CG31886 chr2L - chr2L_8955587_8958877 chr2L_8955586_8955587;chr2L_8958877_8958878 chr2L_8953483_8955586;chr2L_8958878_8959051 18.20 NA NA NA NA NA 46.15 16.67 14.29 NA NA 15.38 NA NA NA NA NA NA NA NA NA NA NA 25.00 NA NA NA NA NA NA NA NA NA 11.76 NA NA NA NA NA 25.00 NA 17.65 11.76 NA NA NA NA NA 33.33 NA 25.00 NA NA NA 18.75 NA NA NA K alternative_last_exon CG13085,REI_chr2L_19426699_19427208,I_chr2L_19426780_19427208,CG16771,I_chr2L_19426895_19427208,I_chr2L_19427121_19427208 chr2L + chr2L_19426699_19429401 chr2L_19426699_19427208 chr2L_19429402_19430270 chr2L_19427209_19429224 chr2L_19426680_19426698 97.62 98.10 98.30 97.33 97.92 97.99 97.65 97.33 97.81 96.74 98.68 98.03 94.78 97.93 97.58 96.55 96.81 98.58 98.33 97.85 97.96 97.58 96.15 96.59 97.30 98.51 97.65 98.31 97.07 97.46 98.05 96.35 99.01 97.90 96.48 98.73 97.44 97.95 97.02 96.86 97.50 98.26 98.45 96.36 98.74 97.07 96.59 97.62 97.79 96.47 95.71 96.64 97.13 95.65 97.83 96.94 98.21 97.96 K jcn_only_AD CG33655,I_chr2R_17207309_17207365 chr2R - chr2R_17207309_17207369 chr2R_17207309_17207365 chr2R_17207209_17207308;chr2R_17207370_17207465 8.89 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 8.70 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 9.09 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention eIF4G,I_chr4_948813_950447 chr4 - chr4_936894_937492 chr4_936893_936894;chr4_937492_937493 chr4_936747_936893;chr4_937493_937716 0.00 0.00 0.00 0.62 0.00 0.00 0.00 0.85 0.00 0.00 0.00 0.00 0.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.64 0.00 3.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD wun2,I_chr2R_5304606_5304660 chr2R + chr2R_5304299_5304362 chr2R_5304302_5304362 chr2R_5304363_5304430;chr2R_5304233_5304298 100.00 100.00 99.12 100.00 98.98 100.00 100.00 100.00 99.74 100.00 99.24 100.00 100.00 100.00 100.00 98.97 100.00 100.00 99.29 99.30 100.00 100.00 99.64 100.00 100.00 100.00 98.80 99.47 100.00 99.55 100.00 100.00 98.78 99.49 100.00 99.15 100.00 100.00 99.65 99.43 100.00 99.68 100.00 100.00 99.43 100.00 100.00 100.00 100.00 99.41 99.69 100.00 100.00 100.00 100.00 99.64 100.00 100.00 K jcn_only_AA CG11125 chr2R + chr2R_3336125_3336287 chr2R_3336125_3336263 chr2R_3335817_3336124;chr2R_3336288_3336446 0.00 0.00 0.00 1.89 0.00 0.00 0.00 0.00 0.00 NA 4.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.45 0.00 0.00 0.00 3.03 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 3.33 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD Klp68D chr3L + chr3L_11788772_11788957 chr3L_11788799_11788957 chr3L_11788958_11789721;chr3L_11788723_11788771 96.87 NA NA NA NA NA 96.77 NA 97.67 NA NA 96.30 NA 95.24 NA 100.00 NA 100.00 NA 96.00 NA 100.00 95.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 96.97 NA 90.00 NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA K jcn_only_AA CG11063 chrX - chrX_13721139_13721372 chrX_13721154_13721372 chrX_13721373_13721542;chrX_13721076_13721138 23.66 28.57 25.93 29.25 28.57 21.62 21.21 27.27 35.48 15.62 35.00 27.78 26.23 14.06 16.25 25.64 31.48 25.93 30.67 22.70 25.71 26.67 25.53 23.53 20.31 31.82 23.66 19.64 16.89 28.04 18.09 18.81 28.32 21.37 24.76 27.03 32.98 24.68 26.36 18.89 26.14 21.08 33.33 20.78 21.82 18.81 16.33 25.82 25.34 22.02 21.88 12.24 23.64 18.68 19.09 19.05 21.43 23.20 K intron_retention CycD,I_chrX_15803256_15803313 chrX - chrX_15803256_15803313 chrX_15803255_15803256;chrX_15803313_15803314 chrX_15803156_15803255;chrX_15803314_15803380 95.00 100.00 NA 94.12 NA 100.00 94.44 100.00 94.12 NA NA 85.71 80.00 90.00 NA 100.00 NA NA 92.31 95.00 NA NA 100.00 100.00 100.00 100.00 100.00 77.78 100.00 NA 88.89 NA 90.00 100.00 88.89 100.00 NA 90.91 90.00 90.91 NA 100.00 100.00 NA NA 100.00 NA NA 94.74 100.00 100.00 NA NA 88.89 NA NA NA 88.89 K alternative_acceptor CG8412,I_chr3R_5583152_5583200 chr3R + chr3R_5583152_5583217 chr3R_5583152_5583200 chr3R_5583052_5583151;chr3R_5583218_5583300 0.00 0.00 0.00 0.00 0.00 3.85 1.92 0.00 2.33 0.00 0.00 5.26 0.00 0.00 3.45 3.85 0.00 4.00 4.55 3.12 0.00 10.00 9.38 0.00 0.00 0.00 2.33 6.67 0.00 4.17 3.39 0.00 0.00 2.86 0.00 0.00 5.00 0.00 3.23 2.50 0.00 0.00 0.00 0.00 4.76 0.00 0.00 4.35 2.50 0.00 0.00 0.00 NA 0.00 0.00 0.00 4.55 NA K jcn_only_AA CG8399,E_chr2R_11909562_11911687,E_chr2R_11909562_11911694,E_chr2R_11909564_11911694 chr2R + chr2R_11911365_11911590 chr2R_11911365_11911563 chr2R_11911262_11911364;chr2R_11911591_11911719 4.50 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 5.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 4.00 NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG1965,I_chr3R_2902064_2902611 chr3R + chr3R_2894671_2894727 chr3R_2894670_2894671;chr3R_2894727_2894728 chr3R_2894430_2894670;chr3R_2894728_2894910 0.00 0.00 0.00 2.44 NA 0.00 0.00 0.00 1.82 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.90 0.00 0.00 5.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.94 0.00 1.75 10.53 0.00 0.00 0.00 0.00 0.00 3.77 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 K cassette east,CR_chrX_1912038_1912737 chrX + chrX_1912038_1912737 chrX_1912038_1912112;chrX_1912120_1912737 chrX_1912113_1912119 chrX_1911938_1912037;chrX_1912738_1912837 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.97 100.00 93.75 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention app,RI_chr3L_12201038_12201989,I_chr3L_12259361_12259754 chr3L - chr3L_12205868_12206192 chr3L_12205867_12205868;chr3L_12206192_12206193 chr3L_12205753_12205867;chr3L_12206193_12206397 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.06 0.00 4.65 0.00 0.00 0.00 0.00 0.00 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG5708,I_chr2L_10225966_10226334,I_chr2L_10225966_10226377 chr2L - chr2L_10225966_10226773 chr2L_10225966_10226664 chr2L_10225874_10225965;chr2L_10226774_10226842 100.00 NA NA NA NA NA 100.00 100.00 100.00 NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA 100.00 NA NA NA NA NA NA NA K jcn_only_AA CG2691,noncoding_23539 chrX - chrX_13518134_13518196 chrX_13518140_13518196 chrX_13518197_13518439;chrX_13517580_13518133 100.00 100.00 100.00 100.00 100.00 98.70 98.67 99.03 97.62 100.00 100.00 98.67 98.15 100.00 100.00 98.57 100.00 100.00 100.00 99.07 100.00 100.00 99.19 99.26 100.00 100.00 97.67 99.10 97.79 99.17 100.00 100.00 99.22 99.06 100.00 96.88 100.00 100.00 99.30 98.67 100.00 98.75 100.00 100.00 100.00 98.99 100.00 99.53 100.00 98.85 100.00 98.75 98.82 97.50 98.57 100.00 100.00 99.54 K intron_retention chb,noncoding_13909 chr3L + chr3L_21169629_21171196 chr3L_21169628_21169629;chr3L_21171196_21171197 chr3L_21168749_21169628;chr3L_21171197_21175379 0.00 0.00 0.00 1.96 0.00 0.00 0.00 3.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 9.52 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA NA NA 0.00 0.00 NA 0.00 0.00 NA NA 0.00 NA NA 0.00 K intron_retention Dek chr2R + chr2R_12743809_12744310 chr2R_12743808_12743809;chr2R_12744310_12744311 chr2R_12743780_12743808;chr2R_12744311_12744557 7.56 12.99 7.22 5.56 7.46 12.68 4.48 7.56 6.22 5.63 6.06 9.42 6.49 11.11 8.79 9.00 6.33 10.61 10.17 4.42 14.58 4.04 8.92 10.78 4.49 14.29 10.14 10.71 3.45 4.39 13.89 3.21 3.17 7.01 8.77 9.52 4.08 9.09 7.08 6.47 4.23 8.75 8.45 6.33 2.42 6.19 13.33 1.47 9.52 23.26 7.14 10.00 11.48 17.65 8.14 18.87 5.00 1.50 K intron_retention mri,RI_chr3L_201061_201173,I_chr3L_212783_212843 chr3L + chr3L_201759_201816 chr3L_201758_201759;chr3L_201816_201817 chr3L_201441_201758;chr3L_201817_202165 11.11 9.89 12.28 46.94 11.32 8.06 16.25 13.48 11.27 5.71 12.70 15.79 7.81 3.33 8.64 9.52 12.73 15.69 9.23 7.24 11.11 17.50 14.41 9.52 28.30 12.90 11.11 12.00 11.32 9.09 21.74 8.86 14.81 10.00 12.79 46.51 9.01 12.35 12.03 6.09 29.41 12.78 10.71 9.47 2.75 7.30 9.45 4.29 10.92 11.35 7.77 10.42 4.44 11.21 14.29 10.08 5.16 6.67 K intron_retention RI_chr3L_20370940_20371530,I_chr3L_20374844_20374891,fbl chr3L + chr3L_20381948_20383015 chr3L_20381947_20381948;chr3L_20383015_20383016 chr3L_20381769_20381947;chr3L_20383016_20383308 1.75 0.00 2.94 8.20 0.00 2.78 6.25 0.00 2.58 0.00 2.56 2.68 0.00 1.69 3.95 1.35 0.00 1.56 2.13 1.60 4.26 5.36 1.75 1.96 3.03 0.00 3.15 1.52 2.78 1.27 3.70 0.00 0.00 2.75 0.00 1.89 1.46 0.00 0.00 1.34 0.00 4.80 3.57 0.00 3.85 2.44 4.05 0.00 3.03 3.70 0.00 0.00 0.00 0.00 4.11 1.37 2.56 2.63 K alternative_donor EI_chr3R_7069743_7070508,CG5214,I_chr3R_7070289_7070508,I_chr3R_7070385_7070508 chr3R + chr3R_7069743_7070508 chr3R_7070239_7070508 chr3R_7070509_7070608;chr3R_7069738_7069742 98.65 100.00 100.00 96.49 97.14 97.78 96.15 98.55 98.90 95.00 96.88 98.80 100.00 100.00 96.43 98.65 100.00 97.67 100.00 100.00 100.00 98.00 100.00 100.00 96.55 100.00 100.00 100.00 97.96 100.00 93.10 98.41 98.98 100.00 97.92 97.30 96.77 100.00 98.46 95.51 98.00 98.88 97.37 96.77 98.65 100.00 97.96 98.94 100.00 100.00 100.00 97.73 97.56 100.00 98.46 100.00 98.15 97.27 K intron_retention Doa,I_chr3R_24715823_24718923,I_chr3R_24747391_24747896 chr3R + chr3R_24715823_24726545 chr3R_24715822_24715823;chr3R_24726545_24726546 chr3R_24715727_24715822;chr3R_24726546_24726744 0.00 0.00 0.00 0.77 0.00 0.00 4.44 0.70 0.48 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.24 0.00 0.69 0.00 0.00 0.00 0.00 1.02 0.00 2.04 0.00 0.00 0.00 0.00 0.60 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA Nmnat chr3R + chr3R_20772018_20772675;chr3R_20772018_20772197 chr3R_20772018_20772605 chr3R_20771916_20772017;chr3R_20772676_20772744 90.24 NA NA NA NA NA 90.91 100.00 87.50 59.09 NA 75.00 NA NA NA NA NA NA NA 92.00 NA 100.00 87.88 NA NA NA 100.00 NA 100.00 NA 86.36 90.00 NA 96.67 NA 100.00 91.30 NA NA 84.62 90.48 82.61 NA 77.42 86.96 94.87 NA 93.55 96.00 90.91 80.00 NA 81.48 86.36 NA 90.48 85.29 78.57 K intron_retention CG18012 chr3R - chr3R_13635522_13635579 chr3R_13635521_13635522;chr3R_13635579_13635580 chr3R_13635117_13635521;chr3R_13635580_13636140 2.59 3.21 1.70 20.44 2.86 1.38 1.18 4.26 2.01 2.50 1.69 2.30 0.00 2.59 3.64 2.26 3.54 2.61 2.33 3.18 2.99 0.00 7.38 3.39 8.60 7.76 10.49 11.11 4.88 0.00 3.67 2.15 1.49 1.73 3.30 0.93 2.61 2.37 1.99 3.12 9.28 2.46 2.34 0.67 1.65 2.63 3.95 3.12 2.49 1.55 3.12 4.21 3.05 1.40 1.27 2.86 1.05 0.00 N intron_retention CG8108,EI_chr3L_9859462_9859590,chr3L_9859594_9859878.0 chr3L + chr3L_9859462_9860377 chr3L_9859461_9859462;chr3L_9860377_9860378 chr3L_9859414_9859461 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 85.19 NA NA 100.00 100.00 42.11 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA 100.00 100.00 NA 100.00 100.00 100.00 NA NA NA 100.00 NA NA NA K jcn_only_AA Gs2 chrX + chrX_11318137_11318297;chrX_11318137_11318314 chrX_11318137_11318302 chrX_11318068_11318136;chrX_11318315_11318487 100.00 100.00 100.00 100.00 NA 100.00 95.12 NA 97.56 100.00 NA 97.96 NA NA 100.00 100.00 NA NA 100.00 98.41 NA 98.78 97.67 100.00 100.00 100.00 100.00 98.36 100.00 100.00 97.50 100.00 100.00 100.00 100.00 93.62 100.00 NA 98.25 98.53 100.00 100.00 NA 100.00 96.88 100.00 94.92 100.00 97.44 99.36 100.00 NA 100.00 100.00 100.00 NA 100.00 NA K intron_retention Pk92B chr3R + chr3R_15706033_15706604 chr3R_15706032_15706033;chr3R_15706604_15706605 chr3R_15705838_15706032;chr3R_15706605_15706783 4.65 8.51 0.00 1.75 4.65 0.00 9.38 1.67 4.00 3.85 0.00 4.55 6.67 0.00 3.64 6.56 0.00 11.76 3.70 6.45 5.26 10.14 6.67 4.88 13.51 6.25 4.55 0.00 8.00 3.08 13.46 9.09 10.67 1.82 10.81 13.46 2.44 8.89 5.97 3.12 12.50 6.58 7.69 6.78 0.00 0.00 0.00 6.90 3.66 0.00 9.38 0.00 6.25 0.00 4.17 5.26 0.00 0.00 K jcn_only_AD gcl,I_chr2R_4611970_4612145,psnoRNA:gcl-a,I_chr2R_4614277_4614332 chr2R + chr2R_4611943_4614119 chr2R_4611970_4614119 chr2R_4614120_4614231;chr2R_4611870_4611942 100.00 NA NA 100.00 NA NA NA 100.00 92.59 NA NA 93.10 NA NA NA 100.00 NA NA NA 100.00 NA 100.00 NA NA NA NA NA NA NA NA NA NA 96.67 96.88 NA NA NA NA NA 100.00 NA 100.00 NA NA NA 100.00 NA 95.45 100.00 NA NA NA NA NA NA NA NA 96.15 K jcn_only_AD CG14939,RI_chr2L_11812683_11813150 chr2L - chr2L_11812683_11813633;chr2L_11812683_11813150 chr2L_11812683_11813724 chr2L_11812583_11812682;chr2L_11813725_11813792 93.33 82.86 95.24 95.00 97.44 92.86 94.29 89.41 93.83 NA 95.77 95.15 97.67 97.06 93.33 94.29 95.56 96.00 93.55 92.86 97.14 85.71 NA NA NA 92.16 NA NA 79.17 NA 95.24 80.65 93.33 92.86 NA NA 90.48 86.36 88.00 90.91 NA 97.17 96.00 75.00 95.24 NA NA 90.32 95.10 NA NA 85.19 NA NA 93.22 NA 91.30 92.59 K intron_retention NUCB1,RI_chr3L_17794900_17794991 chr3L - chr3L_17791066_17791126 chr3L_17791065_17791066;chr3L_17791126_17791127 chr3L_17790968_17791065;chr3L_17791127_17792652 99.36 99.17 98.71 99.10 98.70 99.04 99.68 98.86 98.66 97.92 100.00 98.36 99.24 99.40 99.29 99.73 99.36 99.20 99.55 100.00 100.00 96.23 100.00 99.25 98.81 99.12 98.77 100.00 98.91 100.00 100.00 100.00 98.04 99.06 100.00 100.00 98.99 100.00 98.95 100.00 98.94 99.65 100.00 99.26 99.03 99.41 98.48 100.00 99.73 100.00 98.77 100.00 100.00 100.00 100.00 98.54 99.55 99.40 K intron_retention I_chr3R_17177101_17200781,mod(mdg4),I_chr3R_17183481_17200781,I_chr3R_17183927_17184513,I_chr3R_17183927_17185306,RI_chr3R_17184319_17184513,I_chr3R_17184319_17185084,I_chr3R_17184319_17185284,noncoding_18168,RI_chr3R_17184792_17185306,F_chr3R_17187010_17200781,F_chr3R_17187861_17200781,RI_chr3R_17189607_17189988,I_chr3R_17190098_17190207,F_chr3R_17192467_17200781,F_chr3R_17193961_17200781,F_chr3R_17194785_17200781,F_chr3R_17195968_17200781,I_chr3R_17197790_17197863,RI_chr3R_17198778_17199052,RI_chr3R_17198803_17199019,RI_chr3R_17198803_17199052 chr3R - chr3R_17183927_17200781 chr3R_17183926_17183927;chr3R_17200781_17200782 chr3R_17183827_17183926;chr3R_17200782_17200881 6.67 5.71 9.52 10.00 10.00 18.75 12.50 27.59 8.70 NA 0.00 12.82 12.50 11.11 9.38 0.00 NA 9.09 11.11 5.17 6.67 23.08 9.68 0.00 5.88 NA 9.52 NA 0.00 4.35 20.00 0.00 3.64 6.90 10.53 8.33 5.00 8.33 4.88 6.12 4.35 11.54 5.88 0.00 0.00 4.17 0.00 5.45 17.95 0.00 14.63 13.33 0.00 6.25 0.00 5.71 9.52 0.00 K intron_retention TepIV,EI_chr2L_19548696_19549582 chr2L + chr2L_19552900_19552955 chr2L_19552899_19552900;chr2L_19552955_19552956 chr2L_19552473_19552899;chr2L_19552956_19553293 0.00 0.00 0.00 0.00 0.00 0.00 0.24 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.32 0.00 0.00 0.23 0.00 0.00 0.00 0.00 0.00 0.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention noncoding_13497,I_chr3L_19480207_19480774,I_chr3L_19480345_19480774 chr3L - chr3L_19480868_19481069 chr3L_19480867_19480868;chr3L_19481069_19481070 chr3L_19480775_19480867;chr3L_19481070_19481429 0.00 NA NA NA NA NA 0.00 NA 0.00 NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA 13.79 0.00 0.00 NA NA 0.00 NA 0.00 NA NA NA 14.29 NA NA NA 0.00 NA NA 0.00 NA 0.00 NA 0.00 0.00 0.00 NA NA 6.25 NA NA NA 0.00 0.00 NA 0.00 0.00 0.00 K intron_retention SF2,noncoding_17171,R_chr3R_12165489_12165639 chr3R - chr3R_12165578_12165633 chr3R_12165577_12165578;chr3R_12165633_12165634 chr3R_12165059_12165577;chr3R_12165634_12165733 100.00 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 100.00 NA 100.00 91.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 NA 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG11148,I_chr4_876247_876311,I_chr4_882005_882418,RI_chr4_886921_887162 chr4 - chr4_876262_876311 chr4_876261_876262;chr4_876311_876312 chr4_876044_876261;chr4_876312_876411 5.74 2.13 7.50 19.48 8.33 5.41 7.41 11.76 6.00 NA 0.00 9.76 10.81 2.13 9.09 11.90 10.00 6.67 7.69 8.42 0.00 0.00 10.17 4.00 4.00 7.69 12.50 19.05 0.00 0.00 5.77 5.71 0.00 8.05 6.06 14.71 0.00 2.56 0.00 2.22 17.86 3.23 0.00 0.00 6.67 4.65 0.00 5.00 7.00 3.37 2.60 11.11 0.00 5.71 9.80 3.70 10.67 4.65 K alternative_acceptor msn,I_chr3L_2558033_2560115,F_chr3L_2558036_2563817,I_chr3L_2558390_2561931,I_chr3L_2558393_2560115,I_chr3L_2579521_2586402,I_chr3L_2585716_2586402,I_chr3L_2585733_2586036,I_chr3L_2585739_2586413 chr3L - chr3L_2558393_2560115;chr3L_2558390_2560115 chr3L_2558036_2560115 chr3L_2560116_2560215;chr3L_2557936_2558035 21.34 19.91 26.29 16.70 19.53 26.43 41.24 20.00 15.56 25.90 19.06 20.36 9.38 19.45 23.49 17.96 12.93 16.15 13.23 23.86 17.96 13.71 22.69 23.54 21.74 18.90 22.93 31.28 12.16 20.52 20.00 21.53 21.85 20.96 23.12 25.16 13.65 29.18 20.67 19.57 28.51 21.43 21.20 16.14 25.25 23.78 27.22 16.95 19.24 25.57 25.63 25.47 25.25 25.93 21.34 23.10 29.07 21.12 K intron_retention Mob2,RI_chr3L_11520443_11527440,CE_chr3L_11520917_11527526,RE_chr3L_11520925_11527489,RI_chr3L_11535932_11545929 chr3L - chr3L_11518614_11518679 chr3L_11518613_11518614;chr3L_11518679_11518680 chr3L_11517457_11518613;chr3L_11518680_11518776 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.38 0.00 0.00 0.00 1.76 3.32 0.34 0.00 0.43 0.00 0.35 0.66 1.05 0.00 0.00 0.00 0.00 0.21 0.00 0.00 0.00 0.00 0.00 0.00 0.45 0.00 0.00 0.00 0.33 0.00 0.00 0.00 0.00 0.45 0.00 0.00 K jcn_only_AA cdc2c,RI_chr3R_16562395_16562445 chr3R + chr3R_16562395_16562453 chr3R_16562395_16562445 chr3R_16562295_16562394;chr3R_16562454_16562545 4.35 NA NA NA NA NA NA 4.35 0.00 NA NA 16.00 NA NA NA NA NA NA NA 4.65 NA NA NA NA NA NA NA NA NA NA NA NA NA 9.52 NA NA NA NA 4.55 NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA K alternative_acceptor CG8116,I_chr3R_4542126_4542214,RI_chr3R_4542291_4542625,RI_chr3R_4542291_4542652,I_chr3R_4542561_4542617,I_chr3R_4545118_4545525 chr3R + chr3R_4542291_4542617;chr3R_4542291_4542625 chr3R_4542291_4542622 chr3R_4542215_4542290;chr3R_4542626_4542717 22.22 NA 20.00 20.00 33.33 NA 9.09 25.00 31.25 12.50 33.33 11.11 20.00 NA 0.00 16.67 33.33 22.22 16.67 29.41 28.57 21.74 25.00 25.00 NA NA 28.57 15.79 18.18 16.67 16.67 21.43 16.67 33.33 33.33 12.50 22.22 NA 25.00 28.00 33.33 21.43 NA 25.00 30.00 23.53 20.00 25.00 33.33 25.00 11.11 NA 16.67 NA 42.86 NA NA 15.00 K alternative_donor CkIalpha,I_chrX_12548371_12549203,I_chrX_12548704_12549203,I_chrX_12548772_12549203 chrX + chrX_12548828_12549203 chrX_12549003_12549203 chrX_12549204_12549210;chrX_12548759_12548827 66.67 NA NA 66.67 NA NA 77.78 62.50 100.00 NA NA 80.00 NA NA NA NA NA NA 60.00 60.00 NA 60.00 NA NA NA NA NA NA NA NA NA NA 83.33 85.71 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 60.00 NA NA NA NA NA 66.67 NA NA NA K intron_retention CG30349,lin chr2R + chr2R_4795402_4795454 chr2R_4795401_4795402;chr2R_4795454_4795455 chr2R_4794951_4795401;chr2R_4795455_4795984 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.44 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.55 0.00 0.00 0.00 0.00 3.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.41 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG8486,I_chr2L_8182451_8183191 chr2L + chr2L_8178392_8178458 chr2L_8178398_8178458 chr2L_8178459_8178951;chr2L_8177779_8178391 99.57 100.00 99.60 99.72 99.56 100.00 99.21 99.23 99.71 100.00 99.34 99.56 99.56 99.52 100.00 100.00 99.57 100.00 99.56 99.49 100.00 99.40 99.49 99.00 100.00 99.48 99.51 99.57 99.52 100.00 100.00 100.00 99.50 99.74 100.00 99.25 100.00 99.01 99.78 100.00 98.04 100.00 100.00 99.80 100.00 100.00 98.62 99.09 99.49 99.58 99.34 98.99 99.34 98.06 99.59 100.00 99.48 100.00 N intron_retention CG12576,RI_chrX_21878289_21882347,I_chrX_21882735_21883714 chrX - chrX_21880638_21882347 chrX_21880637_21880638;chrX_21882347_21882348 chrX_21880570_21880637;chrX_21882348_21882447 5.41 0.00 0.00 NA NA NA 17.65 0.00 8.89 NA 0.00 7.69 12.50 10.71 0.00 0.00 5.88 NA NA 10.81 NA 22.73 0.00 0.00 NA NA 3.57 NA 0.00 7.14 6.67 NA 0.00 10.71 5.56 10.53 14.29 NA 0.00 9.38 NA 6.12 6.67 0.00 9.52 0.00 4.55 5.26 4.35 4.76 10.53 NA 0.00 NA 9.09 7.41 0.00 0.00 K intron_retention nes chr3L - chr3L_19253331_19253676 chr3L_19253330_19253331;chr3L_19253676_19253677 chr3L_19253215_19253330;chr3L_19253677_19253699 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA K intron_retention CG32176,RI_chr3L_17427238_17427301 chr3L + chr3L_17429478_17429612 chr3L_17429477_17429478;chr3L_17429612_17429613 chr3L_17429424_17429477;chr3L_17429613_17430643 0.00 NA NA 0.00 NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA 12.50 NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 10.53 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 17.65 K cassette Atpalpha,I_chr3R_16792336_16798894,I_chr3R_16792925_16794113 chr3R + chr3R_16792336_16798894;chr3R_16792336_16794113 chr3R_16792336_16792829;chr3R_16792925_16798894,chr3R_16792925_16794113 chr3R_16792830_16792924 chr3R_16792236_16792335;chr3R_16798895_16798994 99.21 99.08 99.33 97.67 98.81 99.60 99.72 99.07 98.94 100.00 98.17 99.14 97.21 99.62 99.67 100.00 99.56 97.72 99.63 98.91 100.00 99.07 99.72 99.15 98.88 99.21 99.66 91.00 97.33 99.49 99.68 99.28 98.54 99.53 99.54 96.84 99.05 98.48 96.69 98.04 99.41 99.29 99.55 99.18 99.09 99.27 98.15 98.94 99.81 99.72 98.92 98.19 99.45 99.22 99.44 98.73 99.66 99.33 K intron_retention CG8596,RI_chr3L_7335271_7335405,I_chr3L_7336128_7336203,RI_chr3L_7336707_7336767,I_chr3L_7337046_7338155,I_chr3L_7340885_7340945 chr3L - chr3L_7335271_7335335 chr3L_7335270_7335271;chr3L_7335335_7335336 chr3L_7335171_7335270;chr3L_7335336_7335932 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.70 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor pnr,RI_chr3R_11852561_11855192 chr3R + chr3R_11864921_11864991 chr3R_11864930_11864991 chr3R_11864992_11865268;chr3R_11864309_11864920 70.67 66.67 65.33 72.64 70.00 69.75 69.87 70.67 71.28 74.51 75.18 72.12 76.24 71.57 74.52 64.75 78.23 68.32 70.49 68.42 72.54 67.50 74.89 70.98 72.95 68.03 68.97 73.03 71.58 70.45 71.55 71.01 78.31 68.31 73.08 66.67 70.50 65.92 68.69 73.86 80.38 71.15 72.73 65.41 69.46 74.86 74.07 76.30 68.69 64.92 71.43 66.67 68.68 66.46 69.44 63.13 70.62 76.47 K intron_retention Eps-15,I_chr2R_20660319_20660496 chr2R - chr2R_20657585_20659247 chr2R_20657584_20657585;chr2R_20659247_20659248 chr2R_20657212_20657584;chr2R_20659248_20659313 17.95 16.67 17.19 8.51 18.42 23.40 30.00 20.27 18.00 16.18 29.27 21.10 27.27 15.56 28.57 12.20 22.92 20.00 22.73 22.22 26.67 15.31 12.62 14.85 16.98 11.48 14.89 19.05 26.19 7.20 18.18 21.70 9.25 17.95 21.95 3.74 12.80 16.28 16.13 17.80 22.16 21.31 14.00 13.48 17.68 20.71 20.93 17.44 24.76 19.23 17.92 17.14 10.64 22.89 22.22 20.18 17.27 11.33 K multi_cassette Ten-m,EI_chr3L_22298865_22299141,I_chr3L_22300015_22300646,I_chr3L_22374182_22399991 chr3L - chr3L_22296709_22300646 chr3L_22296709_22296798;chr3L_22297211_22297345;chr3L_22297630_22298066;chr3L_22298865_22300646 chr3L_22296799_22297210;chr3L_22297346_22297629;chr3L_22298067_22298864 chr3L_22296163_22296708;chr3L_22300647_22300652 90.91 85.71 85.71 53.33 100.00 100.00 85.71 80.00 78.95 100.00 100.00 94.12 80.00 83.33 100.00 87.50 83.33 100.00 100.00 82.35 83.33 100.00 93.75 77.78 100.00 100.00 69.23 100.00 80.00 90.91 83.33 100.00 88.89 85.71 100.00 90.91 80.95 75.00 90.91 100.00 100.00 78.95 100.00 87.50 100.00 66.67 100.00 100.00 100.00 100.00 87.50 100.00 100.00 100.00 90.00 100.00 100.00 66.67 K cassette trol,I_chrX_2387249_2389980,I_chrX_2391522_2395659 chrX - chrX_2387249_2389073;chrX_2387249_2393243;chrX_2387249_2392054;chrX_2387249_2395659 chrX_2387249_2388436;chrX_2388671_2392054,chrX_2388671_2393243,chrX_2388671_2395659,chrX_2388671_2389073 chrX_2388437_2388670 chrX_2387149_2387248;chrX_2395660_2395759 10.07 13.64 8.11 2.83 8.00 7.14 4.55 9.80 11.50 14.29 5.71 19.25 5.00 10.45 8.65 6.76 12.16 10.00 8.51 11.67 5.26 9.80 11.43 12.24 14.63 11.94 9.09 22.22 10.00 7.81 9.52 15.00 6.14 9.40 8.33 13.33 11.61 15.56 11.96 11.54 11.11 10.06 8.57 21.43 27.78 7.69 NA 10.07 7.11 0.00 10.53 12.82 11.67 NA 11.40 10.53 5.26 12.07 K intron_retention CG12224 chr3R - chr3R_7806577_7806733 chr3R_7806576_7806577;chr3R_7806733_7806734 chr3R_7806554_7806576;chr3R_7806734_7807272 0.00 0.00 NA 12.50 NA NA NA 0.00 0.00 NA NA 0.00 NA NA NA 11.11 NA NA NA 4.35 NA NA 0.00 0.00 0.00 NA 0.00 NA NA NA 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 4.35 0.00 NA 0.00 0.00 0.00 0.00 5.56 K intron_retention dpr17 chr3R + chr3R_7936756_7936809 chr3R_7936755_7936756;chr3R_7936809_7936810 chr3R_7936554_7936755;chr3R_7936810_7937080 98.00 96.30 100.00 100.00 100.00 94.12 93.33 95.83 100.00 88.89 90.91 100.00 100.00 96.00 100.00 95.00 100.00 100.00 100.00 100.00 100.00 88.24 100.00 96.88 94.44 100.00 100.00 100.00 93.33 93.33 100.00 100.00 96.00 100.00 95.24 100.00 100.00 93.75 96.97 96.97 96.67 100.00 100.00 100.00 92.31 97.30 96.88 100.00 97.78 96.77 97.50 94.74 100.00 100.00 100.00 96.88 98.00 94.44 K jcn_only_AD LSm7 chr2L - chr2L_16742443_16742625;chr2L_16742443_16742662 chr2L_16742443_16742634 chr2L_16742326_16742442;chr2L_16742663_16742986 2.51 4.55 1.30 2.90 4.84 1.49 0.78 2.91 0.56 5.13 5.08 1.94 1.23 1.89 2.60 1.98 4.08 2.30 4.04 3.30 3.23 0.00 5.41 2.27 2.08 4.55 0.00 5.19 0.00 0.00 0.00 2.22 5.17 0.73 0.00 NA 2.97 2.50 2.52 4.94 0.00 2.90 3.12 4.41 6.00 4.26 2.46 8.33 3.12 0.00 0.00 1.96 0.00 0.00 6.31 0.96 3.83 4.48 K intron_retention CG7878,I_chr3R_3952846_3953762 chr3R + chr3R_3950488_3950544 chr3R_3950487_3950488;chr3R_3950544_3950545 chr3R_3949852_3950487;chr3R_3950545_3950995 0.78 0.00 0.58 4.15 0.00 0.00 1.03 0.89 1.42 0.00 0.75 1.75 0.00 0.00 2.34 1.03 0.00 0.60 0.00 1.09 0.00 1.19 2.82 1.01 0.00 2.33 6.55 6.06 0.79 0.88 0.00 0.00 2.48 2.03 0.00 3.76 0.00 1.32 0.80 0.42 4.39 0.00 0.00 1.33 0.47 1.16 0.00 0.78 1.35 0.00 1.00 0.00 0.00 0.00 0.00 0.97 0.34 1.14 N jcn_only_AA CG2201 chr2L - chr2L_21618111_21623365 chr2L_21623130_21623365 chr2L_21623366_21623540;chr2L_21618011_21618110 34.11 37.50 0.00 0.00 NA NA 35.14 40.38 29.51 NA NA 0.00 NA 0.00 0.00 38.10 33.33 NA 0.00 38.89 50.00 NA 36.67 0.00 NA NA NA NA NA NA NA NA NA 25.00 NA NA NA NA NA 0.00 NA 40.00 0.00 NA NA 47.83 NA NA 34.88 NA NA NA NA NA 40.00 NA 37.04 NA K jcn_only_AA CG1116 chr3R + chr3R_1045578_1045640 chr3R_1045578_1045637 chr3R_1045416_1045577;chr3R_1045641_1045855 39.65 40.74 38.10 30.00 NA 30.00 37.50 51.52 42.86 NA NA 42.86 NA NA 25.00 NA NA 32.00 NA 41.38 NA 47.62 27.78 45.95 21.74 35.48 41.18 NA NA 31.25 NA 39.47 56.52 38.24 46.67 39.62 32.14 38.71 39.68 43.75 NA 53.57 35.00 35.00 32.56 34.09 40.00 NA 37.50 35.29 46.94 NA 40.48 48.21 47.83 51.28 52.00 41.94 K intron_retention Ank,RI_chr4_144049_144406,I_chr4_150069_150423 chr4 - chr4_136631_137445 chr4_136630_136631;chr4_137445_137446 chr4_136241_136630;chr4_137446_139127 97.95 100.00 91.43 100.00 100.00 95.65 98.68 98.78 98.15 100.00 95.00 97.26 100.00 100.00 100.00 97.75 96.97 96.00 100.00 98.39 95.24 100.00 96.77 100.00 100.00 94.44 100.00 NA 75.00 100.00 97.50 100.00 96.97 97.14 96.43 96.00 100.00 100.00 94.12 100.00 97.56 96.30 97.30 96.67 100.00 98.39 96.15 94.44 100.00 100.00 94.44 96.15 94.44 100.00 100.00 100.00 93.18 97.06 K intron_retention CG1544 chr3R + chr3R_27026288_27026630 chr3R_27026287_27026288;chr3R_27026630_27026631 chr3R_27026126_27026287;chr3R_27026631_27026704 0.00 NA 0.00 NA NA 0.00 NA 5.88 0.00 NA NA 0.00 NA NA 0.00 0.00 NA NA 0.00 0.00 0.00 NA NA NA NA NA NA NA NA NA 0.00 NA NA 5.56 NA NA NA NA NA NA NA 9.09 NA NA NA 0.00 NA NA 8.00 NA NA NA NA NA 5.56 NA NA NA K intron_retention CG9007,I_chr3L_13995402_13996269,I_chr3L_13995402_13996272,I_chr3L_13995402_13996296,I_chr3L_13995480_13996292,RI_chr3L_14010982_14011111 chr3L + chr3L_13995402_13996292 chr3L_13995401_13995402;chr3L_13996292_13996293 chr3L_13995380_13995401;chr3L_13996293_13996360 7.14 NA NA 0.00 NA NA 0.00 12.50 8.33 NA NA 7.69 NA NA 7.14 8.57 NA NA 7.14 NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA 22.22 5.56 NA NA NA NA NA NA 8.70 NA NA NA NA NA 9.09 7.14 NA NA NA NA NA 6.67 NA NA NA K intron_retention srp,I_chr3R_11826508_11826910 chr3R + chr3R_11828046_11828592 chr3R_11828045_11828046;chr3R_11828592_11828593 chr3R_11827892_11828045;chr3R_11828593_11829749 100.00 100.00 100.00 99.24 98.57 98.28 98.88 100.00 100.00 100.00 98.77 99.38 100.00 100.00 97.94 100.00 98.72 98.75 100.00 99.53 98.73 100.00 98.92 98.33 100.00 98.48 96.61 98.44 99.04 100.00 98.88 100.00 99.50 99.21 100.00 100.00 100.00 100.00 98.77 99.25 100.00 98.82 100.00 100.00 100.00 100.00 100.00 99.53 100.00 100.00 98.72 100.00 100.00 98.48 100.00 98.65 100.00 100.00 K jcn_only_AA mub,RI_chr3L_21901021_21901163,I_chr3L_21908756_21909179 chr3L + chr3L_21901021_21907875 chr3L_21901021_21901163 chr3L_21900921_21901020;chr3L_21907876_21907932 0.00 2.17 1.64 0.00 2.70 0.00 0.00 0.00 0.83 0.00 6.25 0.00 0.00 0.00 0.00 1.32 0.00 0.00 0.00 0.00 0.00 4.35 0.00 5.00 0.00 0.00 2.44 NA 5.88 0.00 0.00 0.00 3.45 0.00 0.00 0.00 0.00 0.00 2.70 0.00 4.55 0.00 0.00 0.00 NA 3.12 3.23 0.00 0.00 8.00 0.00 0.00 NA NA 0.00 3.57 0.00 0.00 K intron_retention Zyx102EF,I_chr4_1079131_1080044,I_chr4_1079946_1080044,RI_chr4_1079959_1080044,I_chr4_1080463_1081366,REF_chr4_1081261_1081452,F_chr4_1081280_1081398,F_chr4_1081280_1081452 chr4 - chr4_1079915_1080044 chr4_1079914_1079915;chr4_1080044_1080045 chr4_1079859_1079914;chr4_1080045_1080072 36.84 33.33 30.00 40.48 25.00 35.71 74.07 33.33 37.74 NA 30.77 47.22 42.86 41.18 31.82 32.14 38.10 33.33 33.33 36.84 36.36 NA 33.33 53.85 41.67 40.00 35.71 NA NA NA 28.57 NA NA 32.56 NA 78.57 36.36 70.00 NA 36.84 NA 42.50 29.17 30.77 NA 50.00 41.67 NA 39.13 NA 50.00 57.14 50.00 NA 39.13 33.33 29.41 11.11 K intron_retention RpS7,E_chr3R_26032339_26034298,I_chr3R_26032444_26033815,snoRNA:Psi28S-2149,snoRNA:Psi18S-1377e,snoRNA:Psi18S-1377d,snoRNA:Psi18S-1377c,snoRNA:Psi18S-1377b,snoRNA:Psi18S-1377a,snoRNA:Psi28S-2626 chr3R - chr3R_26032444_26033814 chr3R_26032443_26032444;chr3R_26033814_26033815 chr3R_26032344_26032443;chr3R_26033815_26034147 0.03 0.02 0.03 0.05 0.03 0.02 0.04 0.03 0.04 0.04 0.10 0.04 0.04 0.01 0.05 0.04 0.03 0.07 0.02 0.06 0.05 0.00 0.03 0.02 0.03 0.03 0.04 0.11 0.05 0.02 0.02 0.00 0.00 0.03 0.02 0.02 0.02 0.03 0.01 0.01 0.01 0.04 0.06 0.02 0.02 0.02 0.03 0.05 0.07 0.02 0.02 0.02 0.03 0.01 0.03 0.02 0.01 0.04 K intron_retention CG11063,CE_chrX_13722771_13723819 chrX - chrX_13721753_13722674 chrX_13721752_13721753;chrX_13722674_13722675 chrX_13721612_13721752;chrX_13722675_13722770 1.64 2.73 0.00 1.79 0.00 0.00 0.00 0.00 1.64 0.00 0.00 2.06 3.23 8.57 0.00 0.00 0.00 0.00 0.00 2.03 0.00 3.73 1.65 1.43 5.63 0.00 2.70 0.00 4.55 0.00 0.00 2.78 3.74 0.00 2.50 2.44 3.09 1.75 2.76 3.62 0.00 0.97 0.00 3.57 0.00 3.39 1.45 1.98 3.06 5.22 2.02 0.00 1.83 1.68 0.00 2.15 1.42 0.00 K alternative_acceptor mthl10 chr3L - chr3L_333641_333941 chr3L_333717_333941 chr3L_333942_334119;chr3L_333522_333640 3.81 1.39 2.74 5.71 5.88 1.67 10.42 4.21 5.22 0.00 5.13 3.81 9.09 5.77 4.55 3.03 1.96 3.39 5.00 4.24 4.44 4.55 4.17 3.39 6.67 5.26 3.77 5.56 11.11 5.00 2.22 2.78 4.35 2.60 6.90 4.76 4.41 1.85 2.91 4.12 0.00 3.67 3.92 1.39 3.39 6.00 0.00 7.32 3.70 2.13 2.74 3.45 0.00 0.00 6.58 1.79 1.61 0.00 K intron_retention Hsp60,E_chrX_11004167_11004862 chrX + chrX_11005445_11005507 chrX_11005444_11005445;chrX_11005507_11005508 chrX_11004074_11005444;chrX_11005508_11005811 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.19 0.10 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.27 0.00 0.00 0.00 0.00 0.00 0.00 0.25 0.34 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.06 0.00 0.00 0.00 0.00 0.11 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.00 0.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette Amph,I_chr2R_8498227_8498492 chr2R + chr2R_8497142_8498083 chr2R_8497142_8497246;chr2R_8497382_8498083 chr2R_8497247_8497381 chr2R_8496734_8497141;chr2R_8498084_8498226 2.94 0.00 0.00 4.00 4.17 0.00 7.41 7.69 1.79 NA 44.44 3.23 3.33 5.26 0.00 0.00 0.00 2.94 2.38 1.59 25.00 NA 0.00 0.00 NA 4.55 0.00 NA 9.09 5.56 4.17 NA 0.00 5.56 NA 0.00 0.00 0.00 0.00 8.70 NA 4.00 2.94 2.94 0.00 NA 0.00 5.00 3.33 5.56 4.76 NA 7.69 NA 3.23 0.00 NA 0.00 K jcn_only_AA eIF5,noncoding_24049,EI_chrX_15885411_15885854,RI_chrX_15885416_15885611 chrX - chrX_15885411_15885854 chrX_15885416_15885854 chrX_15885855_15885912;chrX_15885316_15885410 93.47 NA 100.00 NA NA NA 93.75 93.33 93.10 NA NA 97.22 NA 100.00 NA 91.67 NA NA NA 96.15 NA NA NA NA NA NA NA NA NA NA 91.43 NA NA 91.30 NA 90.00 NA NA NA NA NA NA NA NA NA 100.00 NA NA 93.62 NA NA NA NA NA NA NA NA 91.67 K alternative_acceptor f-cup,I_chr3R_9524004_9524059,EI_chr3R_9524613_9524789 chr3R - chr3R_9521865_9521924 chr3R_9521872_9521924 chr3R_9521925_9522068;chr3R_9521683_9521864 100.00 100.00 100.00 95.24 100.00 100.00 100.00 95.24 100.00 NA 100.00 95.65 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 88.89 93.33 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 92.86 94.74 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor Vps13,I_chr2R_3464510_3464571 chr2R + chr2R_3464510_3464571 chr2R_3464510_3464566 chr2R_3464410_3464509;chr2R_3464572_3464671 100.00 100.00 92.86 95.24 100.00 100.00 100.00 97.37 100.00 NA 100.00 100.00 100.00 100.00 100.00 96.43 100.00 100.00 94.44 100.00 100.00 100.00 100.00 100.00 NA 100.00 88.89 NA 100.00 100.00 96.67 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 96.97 100.00 95.24 87.50 100.00 NA 96.15 97.22 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 96.97 K cassette CG34325,I_chrX_16609323_16614744,I_chrX_16613170_16614744 chrX - chrX_16609323_16614744 chrX_16609323_16610470;chrX_16610696_16614744 chrX_16610471_16610695 chrX_16609223_16609322;chrX_16614745_16614802 100.00 100.00 100.00 94.44 100.00 92.86 100.00 96.15 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 92.86 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.44 100.00 97.67 100.00 100.00 96.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.45 100.00 100.00 K intron_retention XRCC1 chrX + chrX_5225653_5225714 chrX_5225652_5225653;chrX_5225714_5225715 chrX_5225564_5225652;chrX_5225715_5226043 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.28 1.01 0.00 0.00 2.44 0.00 0.00 0.00 2.90 0.00 0.00 0.00 0.00 0.00 1.59 1.39 2.67 0.00 0.00 1.54 8.51 8.51 0.00 0.00 0.00 0.00 3.17 0.00 0.00 2.08 0.00 0.00 2.35 0.00 1.05 0.00 0.00 0.00 2.99 0.00 0.00 1.32 4.94 0.00 0.00 0.00 0.00 0.00 0.00 1.47 1.61 K intron_retention sxc,I_chr2R_1203985_1205289,I_chr2R_1208121_1213310,I_chr2R_1213177_1213308 chr2R + chr2R_1194858_1194918 chr2R_1194857_1194858;chr2R_1194918_1194919 chr2R_1194848_1194857;chr2R_1194919_1195157 47.06 NA 54.55 39.29 NA 81.82 20.00 51.61 45.95 NA 41.67 47.83 18.52 61.54 30.77 64.86 46.15 NA 45.83 47.06 NA NA NA NA NA 25.00 77.78 NA NA NA 41.67 NA NA 62.50 NA NA NA NA NA 63.64 NA 53.85 46.15 NA NA NA NA 53.85 50.00 NA NA NA NA NA 42.86 NA NA NA K intron_retention CG12703 chrX + chrX_19651002_19651066 chrX_19651001_19651002;chrX_19651066_19651067 chrX_19650904_19651001;chrX_19651067_19651530 0.00 0.00 0.00 0.00 0.00 0.95 0.65 0.00 0.42 0.00 2.27 0.00 0.00 0.00 0.72 0.00 1.23 0.00 0.00 0.61 0.00 3.12 0.00 0.00 0.00 4.62 3.15 1.30 3.39 0.00 0.00 0.00 0.00 0.00 0.00 1.96 0.00 0.00 0.52 0.00 0.00 1.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA Gbeta13F,I_chrX_15754284_15755167,I_chrX_15754284_15755184,RI_chrX_15754356_15755268,I_chrX_15754356_15755409,RI_chrX_15755345_15755409 chrX + chrX_15754284_15755172;chrX_15754284_15755021;chrX_15754284_15755184;chrX_15754284_15755409;chrX_15754284_15755256;chrX_15754284_15754777;chrX_15754284_15755416;chrX_15754284_15755268 chrX_15754284_15755148 chrX_15754256_15754283 0.00 0.85 0.76 0.46 0.00 0.00 0.80 0.41 0.00 1.49 0.00 0.00 0.00 0.00 0.85 0.27 0.00 0.00 0.00 0.34 0.00 1.33 0.00 0.90 1.02 0.83 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.77 0.00 0.93 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.60 0.00 1.74 0.00 1.82 0.33 0.00 0.71 0.00 0.00 0.00 0.00 1.02 0.00 0.00 K alternative_donor lok,I_chr2L_20063155_20063377,RI_chr2L_20063248_20063377 chr2L + chr2L_20063172_20063377 chr2L_20063248_20063377 chr2L_20063378_20063477;chr2L_20063148_20063171 1.37 3.08 2.56 6.15 0.00 2.70 0.00 5.00 3.37 0.00 5.26 0.00 0.00 4.35 1.61 2.17 0.00 1.69 0.00 2.44 0.00 0.00 1.37 2.00 0.00 0.00 3.03 8.33 3.51 1.89 1.92 0.00 1.82 1.59 0.00 0.00 0.00 1.72 1.32 0.98 1.39 2.35 0.00 2.04 0.00 0.00 1.39 0.00 2.56 1.41 2.99 0.00 0.00 0.00 0.00 0.00 0.00 1.14 K intron_retention CG30187,F_chr2R_18805721_18805778,I_chr2R_18820842_18820922 chr2R - chr2R_18806035_18806090 chr2R_18806034_18806035;chr2R_18806090_18806091 chr2R_18805989_18806034;chr2R_18806091_18806313 2.22 0.00 5.00 1.72 2.63 5.56 3.28 7.04 5.22 0.00 0.00 3.51 6.00 2.94 2.56 6.52 6.52 0.00 2.22 1.83 0.00 5.71 0.00 0.00 0.00 0.00 2.78 0.00 3.12 0.00 1.82 3.57 0.00 5.26 9.09 0.00 2.60 0.00 1.32 5.26 12.00 6.56 12.50 1.77 13.64 0.00 0.00 8.57 10.94 1.59 0.00 0.00 0.00 0.00 2.04 2.13 4.00 12.00 K intron_retention CG12734,I_chr3L_3183812_3183932,I_chr3L_3184645_3185360 chr3L + chr3L_3183998_3184251 chr3L_3183997_3183998;chr3L_3184251_3184252 chr3L_3183933_3183997;chr3L_3184252_3184644 93.33 87.50 NA 83.33 NA NA 100.00 93.33 94.44 NA NA 100.00 NA 100.00 NA 100.00 100.00 NA 100.00 96.55 NA 89.47 93.33 100.00 92.31 NA 94.44 92.86 100.00 87.50 NA 90.91 92.86 100.00 94.44 90.91 86.36 90.91 95.65 81.82 88.89 94.74 NA 100.00 91.67 85.71 100.00 93.33 100.00 93.33 95.65 100.00 92.86 93.33 NA 100.00 83.33 NA K cassette exba,I_chr3R_1423660_1424665,I_chr3R_1424091_1424665,I_chr3R_1425087_1425925,I_chr3R_1425890_1426125,I_chr3R_1425890_1426209,RI_chr3R_1426370_1426736 chr3R - chr3R_1423660_1424665 chr3R_1423660_1423925;chr3R_1424065_1424665 chr3R_1423926_1424064 chr3R_1423560_1423659;chr3R_1424666_1424765 99.90 99.81 99.83 99.90 100.00 100.00 99.75 100.00 99.91 100.00 100.00 99.88 99.77 100.00 99.82 100.00 100.00 100.00 100.00 100.00 99.80 99.72 99.87 100.00 99.76 100.00 100.00 100.00 99.70 100.00 99.82 100.00 99.83 99.90 100.00 99.74 99.85 99.82 99.86 99.58 99.79 99.91 99.76 99.83 100.00 99.83 100.00 99.75 99.91 99.85 99.86 100.00 100.00 99.77 99.85 100.00 100.00 99.53 K jcn_only_AD achi,I_chr2R_8401767_8401934 chr2R - chr2R_8401767_8401848;chr2R_8401767_8402280 chr2R_8401767_8401934 chr2R_8401667_8401766;chr2R_8402281_8402519 4.76 0.00 NA 0.00 4.55 NA 4.76 7.41 10.81 NA NA 7.89 NA NA 11.54 4.55 8.70 NA 9.52 4.08 8.70 NA 8.11 9.38 20.83 4.17 NA NA 4.76 4.35 10.00 0.00 5.88 10.00 NA 0.00 6.06 NA 6.45 0.00 NA 7.89 5.00 NA 0.00 2.70 4.17 4.00 10.34 1.75 8.82 NA NA 0.00 4.55 0.00 4.17 0.00 K intron_retention Vha68-2 chr2L + chr2L_12977910_12977976 chr2L_12977909_12977910;chr2L_12977976_12977977 chr2L_12976932_12977909;chr2L_12977977_12978151 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.28 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.86 2.26 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.30 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention vig2 chr3R + chr3R_20950813_20950905 chr3R_20950812_20950813;chr3R_20950905_20950906 chr3R_20950756_20950812;chr3R_20950906_20950919 100.00 100.00 99.73 100.00 99.57 100.00 100.00 100.00 100.00 100.00 99.60 100.00 100.00 100.00 99.75 99.65 100.00 100.00 99.62 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.67 100.00 99.84 100.00 100.00 100.00 100.00 99.81 99.86 99.82 100.00 99.83 100.00 99.72 100.00 100.00 100.00 100.00 100.00 100.00 99.80 100.00 100.00 100.00 99.71 100.00 99.86 100.00 K cassette CG31997,I_chr4_175592_176390 chr4 - chr4_175592_176390 chr4_175592_175652;chr4_175774_176390 chr4_175653_175773 chr4_175514_175591;chr4_176391_176490 99.51 99.46 98.80 97.77 100.00 100.00 99.59 99.61 99.73 98.21 100.00 99.66 100.00 99.43 99.46 99.66 99.34 99.29 99.51 99.43 99.25 100.00 98.97 99.46 100.00 99.27 100.00 98.97 98.78 100.00 100.00 99.03 100.00 99.64 99.31 98.85 100.00 98.36 100.00 99.58 99.12 99.68 100.00 99.48 100.00 99.56 100.00 100.00 99.66 99.70 99.36 99.33 99.08 99.38 99.51 99.48 98.68 100.00 K intron_retention Patj,CG12022 chr3L + chr3L_1798924_1798981 chr3L_1798923_1798924;chr3L_1798981_1798982 chr3L_1798831_1798923;chr3L_1798982_1800699 73.08 83.33 76.47 74.07 71.43 80.00 68.42 94.12 72.41 NA 57.14 73.08 NA 69.23 73.68 61.11 83.33 50.00 55.00 86.21 50.00 60.87 66.67 73.33 93.75 92.31 87.50 83.33 73.08 64.29 73.33 66.67 63.16 65.00 80.00 94.44 65.00 80.00 57.89 64.00 87.50 80.00 87.50 75.00 75.00 80.00 70.00 70.59 71.43 NA 68.18 69.23 71.43 46.15 78.95 87.50 83.33 63.16 K alternative_acceptor CG3683 chr2R + chr2R_20551970_20552038 chr2R_20551970_20552030 chr2R_20551911_20551969;chr2R_20552039_20552202 100.00 NA 100.00 100.00 100.00 92.86 88.89 88.89 100.00 NA NA 90.00 NA NA 100.00 100.00 100.00 100.00 100.00 93.33 NA NA NA NA NA 100.00 NA NA NA NA 100.00 NA NA 88.89 NA NA NA NA NA NA NA 94.74 NA NA NA NA NA NA 100.00 NA NA NA NA NA 100.00 NA NA 100.00 K intron_retention Mnn1 chr2L + chr2L_7057675_7057863 chr2L_7057674_7057675;chr2L_7057863_7057864 chr2L_7057348_7057674;chr2L_7057864_7058325 0.00 NA NA NA NA NA NA 0.00 5.26 NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA 18.75 0.00 0.00 NA NA 0.00 NA NA NA NA NA NA 0.00 NA NA 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 NA NA NA NA 0.00 NA 0.00 NA NA NA NA NA NA NA K intron_retention l(1)G0269,I_chrX_21192541_21192931 chrX - chrX_21192541_21192663 chrX_21192540_21192541;chrX_21192663_21192664 chrX_21192441_21192540;chrX_21192664_21192846 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.89 0.00 2.02 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.60 0.00 0.00 1.68 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD shep,I_chr3L_5157070_5160067,RI_chr3L_5163541_5194164,I_chr3L_5177084_5177314,I_chr3L_5193467_5212049 chr3L - chr3L_5157076_5160067 chr3L_5157076_5160034 chr3L_5156934_5157075;chr3L_5160068_5160159 98.17 98.86 100.00 97.14 95.19 96.84 95.80 98.31 97.28 98.67 98.20 98.19 99.04 98.06 97.39 97.06 98.02 99.02 94.31 99.39 95.19 97.92 97.41 99.02 98.63 97.39 99.19 100.00 98.63 100.00 99.00 100.00 96.84 98.71 98.67 97.26 99.14 100.00 97.53 96.62 95.56 97.84 100.00 98.77 97.96 92.86 100.00 NA 98.13 100.00 96.52 96.97 98.15 100.00 100.00 98.15 98.46 92.21 K intron_retention CG31012,I_chr3R_26643930_26646602 chr3R + chr3R_26650056_26650114 chr3R_26650055_26650056;chr3R_26650114_26650115 chr3R_26650000_26650055;chr3R_26650115_26650608 100.00 100.00 100.00 100.00 99.15 99.34 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.26 100.00 100.00 100.00 100.00 99.46 100.00 100.00 99.62 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.64 100.00 100.00 100.00 99.62 100.00 99.72 99.74 100.00 99.76 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.59 99.64 100.00 100.00 100.00 100.00 100.00 100.00 99.64 K intron_retention CG1494 chrX + chrX_21160203_21160429 chrX_21160202_21160203;chrX_21160429_21160430 chrX_21159750_21160202;chrX_21160430_21160770 2.04 0.00 4.00 10.61 1.89 3.64 1.37 7.41 5.45 0.00 7.89 4.65 4.17 9.76 3.39 8.33 0.00 0.00 8.51 2.44 2.08 12.50 5.06 4.00 0.00 0.00 1.98 0.00 6.25 6.00 2.22 0.00 0.00 2.70 0.00 4.88 3.70 5.77 2.75 1.59 0.00 2.04 0.00 1.32 0.00 0.00 0.00 0.00 2.25 0.00 6.35 4.44 0.00 0.00 1.69 0.00 0.00 0.00 K intron_retention CG6686 chr2L - chr2L_11987388_11987471 chr2L_11987387_11987388;chr2L_11987471_11987472 chr2L_11986438_11987387;chr2L_11987472_11987482 13.22 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 18.75 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 7.69 NA NA NA NA NA NA NA K intron_retention Rcd5 chr3L + chr3L_4040904_4040966 chr3L_4040903_4040904;chr3L_4040966_4040967 chr3L_4040501_4040903;chr3L_4040967_4041105 0.00 0.00 6.38 1.32 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.76 0.00 0.00 1.35 3.03 0.00 4.08 2.38 5.56 6.25 14.58 0.00 3.85 0.00 2.38 4.23 0.00 0.00 0.00 0.00 0.00 3.57 5.88 2.38 5.71 0.00 0.00 1.56 0.00 0.00 0.00 1.41 0.00 0.00 0.00 0.00 0.00 5.26 0.00 0.00 K intron_retention CG7376 chr3L + chr3L_6168755_6168819 chr3L_6168754_6168755;chr3L_6168819_6168820 chr3L_6167603_6168754;chr3L_6168820_6169535 0.00 NA NA NA NA NA 0.00 0.00 0.00 NA NA 0.00 NA NA NA NA NA NA NA NA NA 5.88 0.00 NA NA NA 3.85 NA 0.00 NA NA NA NA 0.00 NA NA 0.00 NA NA 0.00 NA 0.00 NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA K intron_retention CG3835,I_chrX_2036036_2037024 chrX + chrX_2038254_2038319 chrX_2038253_2038254;chrX_2038319_2038320 chrX_2037560_2038253;chrX_2038320_2038941 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.15 0.00 3.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.43 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.94 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD aru,I_chr2L_862259_862314,I_chr2L_864795_867505 chr2L - chr2L_862259_862318 chr2L_862259_862314 chr2L_862159_862258;chr2L_862319_862414 1.86 0.00 1.35 1.19 0.67 2.31 0.00 1.02 0.92 0.85 1.40 1.94 1.59 0.65 1.38 2.75 3.33 1.35 2.79 1.86 3.20 2.05 0.77 1.92 0.52 2.88 2.45 3.61 1.97 2.49 1.14 2.87 1.23 0.63 2.73 0.50 1.53 1.65 2.37 2.35 1.10 2.08 3.33 3.23 2.15 1.96 0.57 1.57 1.74 3.14 1.19 2.00 4.03 2.33 0.83 1.49 1.89 2.88 K jcn_only_AD CG11984,I_chr3R_4837327_4837766,I_chr3R_4845450_4845598 chr3R - chr3R_4837672_4837772 chr3R_4837672_4837766 chr3R_4837396_4837671;chr3R_4837773_4837866 97.22 96.81 98.51 96.71 95.86 97.16 96.21 98.53 97.75 98.34 95.19 97.77 96.34 100.00 94.83 97.53 97.06 96.94 97.47 96.99 98.77 97.57 95.39 97.54 97.55 97.62 97.22 94.74 98.28 96.89 96.51 97.58 97.80 96.27 99.33 97.53 97.14 96.62 96.59 97.68 98.78 96.90 97.70 95.60 95.64 98.06 98.48 97.03 96.60 98.00 97.56 95.54 96.30 96.69 97.79 95.91 98.00 97.85 K jcn_only_AD Anxb11,I_chrX_16314152_16314405,I_chrX_16314152_16315813 chrX - chrX_16314152_16316028;chrX_16314152_16316199 chrX_16314152_16316276 chrX_16314083_16314151;chrX_16316277_16316298 11.28 NA NA NA NA NA 14.29 13.04 9.09 NA NA 9.52 NA NA NA NA NA NA NA NA NA 15.38 NA NA NA NA NA NA NA NA 13.04 NA NA 14.81 NA NA NA NA NA 0.00 NA 8.70 NA NA NA NA NA NA 6.67 NA NA NA NA NA NA NA NA NA K intron_retention CG7911 chr3R - chr3R_25829880_25830025 chr3R_25829879_25829880;chr3R_25830025_25830026 chr3R_25829712_25829879;chr3R_25830026_25830171 0.00 0.00 0.00 0.27 0.00 0.00 0.35 0.52 0.17 0.44 0.00 0.00 0.00 0.00 0.00 0.34 0.47 0.00 0.00 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.51 0.39 0.00 0.44 0.00 0.00 0.00 0.00 0.00 0.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.21 0.00 0.36 0.45 0.43 0.00 0.00 0.00 0.44 0.00 0.18 0.18 0.00 K intron_retention CG42299,CG15643,I_chrX_15465519_15465586 chrX - chrX_15465519_15465596 chrX_15465518_15465519;chrX_15465596_15465597 chrX_15465419_15465518;chrX_15465597_15465686 0.00 NA NA NA NA NA 0.00 NA 20.00 NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA 0.00 NA NA 0.00 NA 21.43 7.69 NA NA NA 6.67 NA NA 0.00 NA 0.00 7.41 NA 0.00 NA 11.11 NA NA NA 0.00 6.25 NA NA NA NA NA NA NA NA NA K intron_retention CG5853,RI_chr2L_9942818_9944294,I_chr2L_9944682_9947179 chr2L - chr2L_9942818_9942882 chr2L_9942817_9942818;chr2L_9942882_9942883 chr2L_9942722_9942817;chr2L_9942883_9942920 5.00 0.00 1.85 5.63 0.00 2.00 4.17 0.00 5.56 5.26 2.13 3.28 5.26 4.08 2.99 20.00 0.00 5.88 2.56 5.22 5.08 1.43 10.91 3.57 2.94 0.00 12.50 0.00 0.00 9.80 1.59 14.29 5.97 5.48 5.00 2.90 10.00 6.25 7.27 6.38 0.00 5.68 9.09 3.12 8.57 5.56 11.36 3.70 4.30 17.24 7.27 0.00 7.32 7.41 3.64 13.79 3.45 4.55 K jcn_only_AA sgg,I_chrX_2528059_2528637,I_chrX_2528131_2535622,RI_chrX_2528212_2535830,I_chrX_2528367_2535622,I_chrX_2528472_2535622,I_chrX_2529065_2563945,I_chrX_2536127_2563666,I_chrX_2563342_2563666,I_chrX_2565856_2566099,I_chrX_2566157_2566946 chrX + chrX_2528212_2535830 chrX_2528212_2535622 chrX_2528171_2528211;chrX_2535831_2535930 95.64 NA 86.36 95.83 NA NA 92.00 96.55 100.00 NA NA NA NA 100.00 NA 95.45 NA NA 95.00 95.45 NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA 92.86 NA NA NA NA NA NA NA NA NA K intron_retention ena chr2R + chr2R_15048921_15048977 chr2R_15048920_15048921;chr2R_15048977_15048978 chr2R_15048699_15048920;chr2R_15048978_15049098 0.00 0.00 0.00 3.30 0.00 0.00 0.00 1.56 0.00 0.00 0.00 1.80 0.00 0.00 0.00 1.67 0.00 0.00 0.00 0.94 0.00 0.00 0.00 0.00 0.00 0.00 6.49 0.00 0.00 0.00 0.00 0.00 0.00 3.17 0.00 0.00 1.30 0.00 1.19 0.00 0.00 2.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG4293,RI_chrX_423385_423664,I_chrX_423385_423676 chrX - chrX_423564_423676 chrX_423563_423564;chrX_423676_423677 chrX_423443_423563;chrX_423677_423764 46.15 NA NA 88.89 NA NA 100.00 NA 76.92 NA NA 56.25 NA NA NA NA NA NA NA 36.84 NA 25.00 61.54 63.64 63.64 NA 58.82 53.85 46.15 NA NA NA NA NA NA 46.15 60.00 28.57 43.75 NA NA 43.75 NA NA 41.67 NA 63.64 NA 50.00 NA 35.00 NA 40.00 42.86 NA 44.44 40.00 NA N alternative_acceptor zetaCOP chr3L - chr3L_16664943_16665553 chr3L_16665251_16665553 chr3L_16665554_16665644;chr3L_16664764_16664942 1.04 0.53 0.87 11.58 0.00 0.93 8.88 1.69 2.01 0.98 0.85 1.10 8.49 2.44 0.80 3.18 0.68 0.53 0.43 0.91 0.64 3.85 1.53 1.31 2.73 0.53 1.14 2.13 0.75 1.64 0.47 1.04 0.47 1.62 1.34 4.88 0.81 0.79 0.33 0.69 1.45 1.31 0.50 1.34 1.23 1.30 0.84 1.03 1.39 1.69 0.50 1.98 0.58 0.76 0.00 1.36 1.01 1.22 K alternative_donor CG7530,I_chr3R_10556352_10557136,eff chr3R - chr3R_10556352_10557105;chr3R_10556352_10557148;chr3R_10556352_10557126;chr3R_10556352_10557198 chr3R_10556352_10557130 chr3R_10556252_10556351;chr3R_10557199_10557231 58.33 75.86 54.55 55.88 61.76 70.83 37.04 56.06 62.34 50.00 62.07 64.58 57.14 57.14 50.00 48.08 58.33 50.00 48.72 50.00 55.17 44.44 62.16 56.67 57.89 61.29 42.31 62.50 48.28 68.75 62.16 58.33 62.22 64.29 58.33 28.57 68.57 54.17 55.88 58.23 48.39 60.00 64.52 65.12 58.97 53.03 64.00 58.33 57.32 60.00 61.11 65.00 68.97 57.89 62.50 57.14 65.85 61.76 K jcn_only_AD Hrs,I_chr2L_2740474_2741107 chr2L + chr2L_2740474_2741107 chr2L_2740785_2741107 chr2L_2741108_2741207;chr2L_2740389_2740473 98.63 100.00 100.00 94.84 98.67 98.08 97.46 96.55 99.32 97.92 100.00 100.00 100.00 95.71 98.41 97.87 100.00 100.00 100.00 100.00 100.00 96.46 97.60 95.65 99.19 97.35 99.38 98.94 98.21 96.25 89.09 95.45 100.00 99.26 100.00 98.60 97.93 98.94 98.59 100.00 97.67 98.91 98.51 97.56 100.00 100.00 100.00 100.00 97.33 97.33 98.17 97.37 98.36 99.17 99.18 98.90 98.63 97.50 N alternative_acceptor CG6701,RI_chr2R_9866896_9867532,noncoding_6685 chr2R - chr2R_9866896_9867532 chr2R_9866924_9867532 chr2R_9867533_9867623;chr2R_9866796_9866895 93.33 93.33 93.75 90.91 92.86 92.86 93.62 97.92 95.00 100.00 82.35 95.56 92.00 96.30 93.33 88.89 95.00 94.12 95.83 97.37 93.33 94.44 96.15 91.67 93.75 93.33 87.50 90.91 100.00 92.31 84.21 NA 93.75 90.70 90.00 92.86 80.95 83.33 87.50 92.86 100.00 94.74 94.74 95.24 NA 90.91 100.00 93.33 91.30 NA 89.29 90.91 NA NA 95.24 NA 90.00 91.67 K intron_retention Jupiter,I_chr3R_7417030_7419354,I_chr3R_7417630_7417716,RI_chr3R_7442793_7445425 chr3R - chr3R_7417735_7418088 chr3R_7417734_7417735;chr3R_7418088_7418089 chr3R_7417717_7417734;chr3R_7418089_7418346 91.67 88.89 NA 83.33 NA NA 90.91 100.00 100.00 NA NA 88.24 NA NA NA NA NA NA NA 91.67 NA 78.57 100.00 90.00 88.89 NA 93.33 100.00 NA NA NA 100.00 NA 92.31 90.91 63.64 93.75 88.89 90.91 94.74 84.62 91.67 NA NA 78.57 100.00 100.00 92.31 92.86 92.86 100.00 88.89 NA 90.00 100.00 88.89 100.00 NA K intron_retention RI_chr2R_16552969_16554423,exu chr2R - chr2R_16557637_16557705 chr2R_16557636_16557637;chr2R_16557705_16557706 chr2R_16557484_16557636;chr2R_16557706_16557882 4.17 5.26 0.00 NA NA NA 5.56 7.41 7.69 6.67 0.00 2.86 NA NA 0.00 0.00 NA NA 0.00 0.00 0.00 75.00 4.17 0.00 26.67 NA 25.00 14.29 50.00 NA NA NA 21.43 0.00 NA 54.55 3.33 NA 12.50 10.53 NA 0.00 NA 12.50 0.00 12.50 NA 27.27 5.88 20.00 0.00 0.00 0.00 7.69 0.00 0.00 0.00 0.00 N intron_retention CG17724,Kdm4B,seq chr2R - chr2R_9066519_9072281 chr2R_9066518_9066519;chr2R_9072281_9072282 chr2R_9063672_9066518;chr2R_9072282_9072680 0.00 0.00 NA 12.50 NA NA 0.00 11.11 19.23 NA NA 7.41 NA NA 0.00 30.77 NA 0.00 0.00 5.56 NA NA 20.00 6.67 NA NA NA NA 5.88 NA NA NA 0.00 0.00 NA NA NA NA NA 0.00 NA 0.00 NA 0.00 NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA K alternative_acceptor CG5261,I_chr2L_7428611_7428877 chr2L + chr2L_7428611_7428925 chr2L_7428611_7428877 chr2L_7428511_7428610;chr2L_7428926_7428977 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.00 93.75 100.00 100.00 100.00 100.00 100.00 97.22 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.65 100.00 100.00 96.77 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.43 96.97 100.00 100.00 95.00 96.97 100.00 100.00 100.00 100.00 95.83 100.00 100.00 K alternative_acceptor CG2701,RI_chrX_2612780_2612845,ttm50 chrX - chrX_2612780_2612845 chrX_2612784_2612845 chrX_2612846_2612945;chrX_2612680_2612779 94.59 92.86 92.31 96.77 91.67 93.33 100.00 96.67 96.77 91.67 100.00 91.43 90.91 100.00 100.00 89.29 100.00 100.00 94.74 100.00 93.75 93.02 91.49 97.14 90.48 81.82 95.12 94.59 96.67 92.31 84.78 96.67 92.86 92.31 90.48 89.66 95.12 81.48 93.33 95.45 88.46 95.00 100.00 97.06 97.44 93.33 97.44 89.19 96.88 95.56 97.44 95.00 87.50 97.30 88.89 93.94 94.34 94.87 K alternative_acceptor Dsp1,I_chrX_16228447_16229355,I_chrX_16231287_16231413 chrX + chrX_16228447_16230320;chrX_16228447_16230299 chrX_16228447_16230323 chrX_16228347_16228446;chrX_16230324_16230776 15.38 15.15 28.26 19.67 16.00 15.00 10.53 21.05 21.43 17.65 21.21 14.12 20.00 14.89 7.32 7.25 12.12 20.51 24.53 12.84 16.67 7.32 6.78 18.18 10.00 13.33 6.38 11.11 8.00 20.00 19.51 8.70 16.00 15.07 10.34 18.42 20.37 24.44 18.75 21.31 21.43 16.88 8.89 15.38 26.67 12.12 15.15 18.75 16.09 9.09 23.44 13.16 20.69 14.81 9.30 14.29 11.76 21.43 K alternative_acceptor CG6838,I_chr3L_22709306_22709668 chr3L - chr3L_22709303_22709397 chr3L_22709306_22709397 chr3L_22709398_22709514;chr3L_22709206_22709302 7.83 8.57 5.75 12.87 7.27 12.73 6.94 7.87 6.56 12.16 9.62 9.82 7.02 5.56 8.00 5.68 7.27 9.62 3.08 5.43 5.88 11.11 8.25 8.60 9.84 8.51 7.06 9.33 8.26 8.14 6.67 5.00 12.24 8.57 11.54 5.36 5.51 6.33 8.20 10.19 11.27 6.35 5.56 8.16 7.50 11.11 7.25 5.61 7.44 9.41 7.32 5.17 11.29 12.90 7.79 6.90 7.83 5.00 K alternative_acceptor Dif,I_chr2L_17414333_17414528,I_chr2L_17418395_17418487 chr2L - chr2L_17418375_17418487 chr2L_17418395_17418487 chr2L_17418488_17418555;chr2L_17418295_17418374 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.30 0.00 1.52 0.00 0.00 0.00 0.00 0.00 0.00 3.45 0.00 0.00 0.00 0.00 1.75 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.08 1.06 0.00 0.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_last_exon Psi,I_chr2R_12751549_12752073,I_chr2R_12753387_12753659 chr2R - chr2R_12751557_12752073,chr2R_12751549_12752073;chr2R_12749115_12752073 chr2R_12751609_12752073 chr2R_12748962_12749114 chr2R_12749604_12751608 chr2R_12752074_12752173 63.64 71.43 61.11 62.22 46.15 75.00 83.87 60.87 77.50 55.56 40.00 57.14 63.64 72.73 50.00 72.97 50.00 57.14 63.64 51.28 46.15 75.00 78.95 66.67 81.82 56.25 64.71 66.67 58.82 52.17 52.63 47.37 40.62 64.10 66.67 35.14 72.73 60.00 66.67 75.00 63.16 67.57 52.63 70.59 63.64 48.72 83.33 53.12 68.42 76.47 71.43 81.82 75.00 69.23 50.00 50.00 80.00 58.14 K jcn_only_AD Npc1a chr2L - chr2L_10217181_10217352 chr2L_10217181_10217340 chr2L_10216861_10217180;chr2L_10217353_10217533 42.86 33.33 41.18 45.24 34.69 40.74 29.06 44.55 40.69 24.39 34.48 41.18 37.14 46.67 35.29 52.75 40.74 52.63 37.21 44.23 42.86 33.00 46.05 43.33 48.48 46.00 51.92 NA 38.03 30.00 39.51 47.62 50.00 52.69 56.41 53.66 40.48 50.00 56.67 42.55 38.71 41.44 39.47 49.44 33.33 37.14 45.45 45.12 48.60 48.15 43.24 39.06 57.14 NA 48.75 37.84 32.56 48.21 K intron_retention p47,Aldh-III,I_chr2R_3356541_3356614,I_chr2R_3361118_3361226,I_chr2R_3361349_3361499 chr2R - chr2R_3353983_3354073 chr2R_3353982_3353983;chr2R_3354073_3354074 chr2R_3353768_3353982;chr2R_3354074_3354180 1.12 0.65 0.64 2.56 0.00 0.73 2.27 0.00 1.40 0.75 4.17 1.28 0.00 1.52 0.00 0.00 1.74 0.00 0.00 1.06 0.67 2.02 1.66 1.47 3.06 4.00 5.26 2.45 3.55 1.06 8.61 0.69 1.68 1.41 0.89 0.72 1.07 0.65 1.16 1.80 8.64 1.52 0.00 2.60 0.80 0.98 0.88 4.67 1.12 2.02 1.41 0.00 0.97 0.53 1.14 0.72 1.14 0.88 K alternative_acceptor CG10948 chr3L - chr3L_12838769_12838833 chr3L_12838786_12838833 chr3L_12838834_12838953;chr3L_12838157_12838768 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG10981 chr3R + chr3R_1650698_1650754;chr3R_1650698_1650778 chr3R_1650698_1650757 chr3R_1650443_1650697;chr3R_1650779_1651166 47.83 33.33 53.85 55.00 NA 45.45 56.25 50.00 48.00 NA NA 47.83 35.71 33.33 45.45 54.17 63.64 33.33 37.50 46.15 50.00 40.00 52.38 47.06 41.67 35.71 47.62 37.50 40.00 40.00 55.56 25.00 33.33 53.33 46.15 41.67 NA 42.86 50.00 50.00 NA 50.00 NA 62.50 NA 50.00 53.85 16.67 46.15 57.89 50.00 NA 64.71 35.71 50.00 53.85 65.00 55.56 K jcn_only_AD Spc25,Cyp304a1 chr3R + chr3R_8787965_8788438 chr3R_8787977_8788438 chr3R_8788439_8788970;chr3R_8787748_8787964 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.96 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG9104,CG9099 chrX - chrX_16778035_16778096 chrX_16778034_16778035;chrX_16778096_16778097 chrX_16777528_16778034;chrX_16778097_16778358 6.90 3.12 12.12 9.76 0.00 0.00 16.22 2.22 8.57 8.33 10.53 1.72 5.56 13.04 0.00 2.44 5.56 0.00 2.38 2.35 9.38 24.32 13.64 8.51 12.90 8.33 7.27 15.38 17.14 2.13 17.50 4.88 8.47 9.26 0.00 7.50 7.81 6.38 5.66 4.11 10.26 7.27 0.00 9.52 11.11 6.90 9.09 6.56 13.79 2.78 0.00 6.45 3.03 5.26 2.33 4.17 9.68 5.17 K intron_retention Psf3 chrX - chrX_10278916_10278983 chrX_10278915_10278916;chrX_10278983_10278984 chrX_10278849_10278915;chrX_10278984_10279044 17.24 21.05 NA 16.67 12.50 14.29 31.58 22.73 17.24 10.53 NA 20.00 NA NA 18.18 23.53 38.46 17.39 17.65 21.21 7.14 14.29 15.38 26.09 12.50 NA 20.00 12.50 16.67 17.65 10.00 17.24 20.00 15.38 18.75 4.35 18.18 22.73 20.00 17.02 10.34 12.50 7.69 15.38 28.12 16.28 27.78 9.68 16.00 22.22 20.00 NA 9.09 10.53 21.74 10.00 9.09 18.18 K intron_retention crol,I_chr2L_11799403_11802904 chr2L - chr2L_11803899_11809125 chr2L_11803898_11803899;chr2L_11809125_11809126 chr2L_11803785_11803898;chr2L_11809126_11809399 0.00 NA NA 2.82 0.00 0.00 2.56 4.17 8.11 0.00 0.00 9.09 5.00 0.00 11.76 0.00 NA 0.00 0.00 14.29 0.00 9.09 0.00 NA 0.00 0.00 0.00 9.52 4.62 0.00 NA NA 4.44 0.00 NA 0.00 5.26 NA 9.09 0.00 0.00 0.00 0.00 0.00 NA 10.00 NA 0.00 0.00 NA 0.00 NA NA NA 5.56 NA NA 0.00 K alternative_donor osa,I_chr3R_13542657_13542834,I_chr3R_13542657_13543500,I_chr3R_13542657_13543662,I_chr3R_13542657_13543668,I_chr3R_13543730_13543786 chr3R - chr3R_13542657_13543968;chr3R_13542657_13543500;chr3R_13542657_13543662;chr3R_13542657_13542834;chr3R_13542657_13543668 chr3R_13542657_13543677 chr3R_13542557_13542656;chr3R_13543969_13544017 80.99 76.27 84.48 72.90 82.35 77.42 78.79 77.27 80.13 71.70 92.73 78.03 72.86 82.61 82.35 85.15 73.61 81.82 83.33 79.02 77.97 75.56 75.44 79.17 79.25 73.68 70.37 80.85 79.59 75.00 84.75 89.47 88.04 82.11 84.91 75.00 72.53 83.02 74.03 80.30 79.17 82.11 86.67 82.43 84.00 90.00 83.33 85.71 80.99 82.86 76.60 85.19 93.55 58.82 83.95 85.19 89.47 84.21 K intron_retention CG14322 chr3R + chr3R_13494463_13494525 chr3R_13494462_13494463;chr3R_13494525_13494526 chr3R_13494205_13494462;chr3R_13494526_13494717 0.00 NA NA 16.67 NA NA 0.00 0.00 0.00 NA NA 0.00 NA NA NA 4.35 NA NA 0.00 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 0.00 NA 0.00 NA NA NA NA NA NA NA K alternative_donor Vap-33-1 chrX + chrX_3843210_3843513;chrX_3843099_3843513;chrX_3843406_3843513;chrX_3843214_3843513 chrX_3843206_3843513 chrX_3843514_3843746;chrX_3843030_3843098 0.00 0.00 0.00 2.41 0.00 4.65 0.00 1.02 0.81 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.96 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.51 0.00 0.00 5.00 0.00 0.00 0.00 0.00 0.97 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.71 0.00 2.86 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD BicD,Aac11,I_chr2L_17475843_17475910 chr2L - chr2L_17475355_17475534 chr2L_17475355_17475407 chr2L_17474918_17475354;chr2L_17475535_17475615 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 0.00 NA 0.00 NA NA NA NA NA NA NA NA NA 0.00 K jcn_only_AA coro,I_chr2R_2754447_2755071 chr2R - chr2R_2751039_2751782 chr2R_2751060_2751782 chr2R_2751783_2752076;chr2R_2750853_2751038 1.65 2.65 2.72 1.68 2.86 1.20 1.70 1.92 1.00 0.00 0.85 2.08 2.48 0.00 1.59 1.21 2.02 2.19 0.68 2.49 2.14 3.30 1.20 1.24 1.80 0.79 1.52 0.75 1.35 2.70 1.05 2.54 5.00 1.65 1.71 1.18 2.11 2.03 1.94 2.28 4.65 3.56 2.73 1.20 1.04 1.35 0.96 1.65 1.64 1.35 1.69 0.74 0.73 1.48 0.50 1.50 1.74 0.00 K jcn_only_AD regucalcin,I_chrX_11910759_11910811 chrX + chrX_11906562_11910035 chrX_11906584_11910035 chrX_11910036_11910754;chrX_11906467_11906561 0.00 NA 0.00 0.00 NA NA NA NA 0.00 NA NA 0.00 NA NA 0.00 0.00 NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 3.85 NA NA NA 4.55 NA NA 0.00 0.00 NA K intron_retention CG42507,Trl,EI_chr3L_14750431_14750893,I_chr3L_14750431_14750985,CI_chr3L_14750431_14753667,I_chr3L_14754175_14754238 chr3L - chr3L_14750431_14750583 chr3L_14750430_14750431;chr3L_14750583_14750584 chr3L_14750331_14750430;chr3L_14750584_14750733 14.29 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 18.75 14.29 NA NA NA NA NA 30.77 NA 31.25 NA NA NA 7.14 NA 8.70 NA NA NA NA NA NA NA NA NA 14.29 K intron_retention CG11009,I_chr3L_12844823_12845526,I_chr3L_12845441_12845526 chr3L + chr3L_12844823_12845715 chr3L_12844822_12844823;chr3L_12845715_12845716 chr3L_12844723_12844822;chr3L_12845716_12845816 2.20 1.82 2.33 16.00 0.00 0.00 2.08 5.26 5.13 3.57 0.00 6.35 9.52 0.00 1.37 0.00 2.44 0.00 2.70 4.04 0.00 1.54 2.35 3.08 0.00 0.00 2.90 8.00 0.00 3.08 2.08 0.00 6.90 4.11 2.27 0.00 2.90 0.00 0.00 0.91 2.50 5.88 0.00 2.35 0.00 2.20 4.29 5.26 5.38 2.41 1.33 1.59 3.45 0.00 6.15 0.00 1.54 0.98 K intron_retention Fmr1,I_chr3R_5930712_5930781,I_chr3R_5934794_5935245,I_chr3R_5934801_5935537 chr3R - chr3R_5930733_5930781 chr3R_5930732_5930733;chr3R_5930781_5930782 chr3R_5930601_5930732;chr3R_5930782_5930881 7.21 0.00 0.00 7.32 0.00 0.00 2.56 8.89 8.47 10.00 0.00 15.56 4.76 9.09 18.18 3.70 0.00 0.00 2.56 7.27 0.00 0.00 11.63 0.00 7.14 8.33 38.89 16.67 8.89 0.00 3.23 19.05 6.78 9.09 0.00 40.91 8.77 0.00 5.71 10.17 14.29 0.00 NA 11.11 8.70 12.12 0.00 8.82 5.41 11.76 10.53 6.67 14.29 NA 0.00 NA 0.00 12.00 K intron_retention sut1,I_chr2R_3970908_3972035,sut2 chr2R + chr2R_3970891_3972035 chr2R_3970890_3970891;chr2R_3972035_3972036 chr2R_3970808_3970890;chr2R_3972036_3972135 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.54 0.00 0.00 0.00 0.00 0.00 0.00 1.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention chr2R_6973810_6974365.0,noncoding_5956 chr2R + chr2R_6973463_6975382 chr2R_6973462_6973463;chr2R_6975382_6975383 chr2R_6973091_6973462;chr2R_6975383_6975805 97.92 95.24 87.50 100.00 93.75 100.00 94.74 97.92 93.62 NA 100.00 100.00 100.00 95.83 93.75 96.15 92.86 100.00 100.00 83.87 100.00 NA 100.00 NA 90.00 92.31 100.00 NA NA 100.00 92.86 NA NA 96.67 100.00 NA NA NA 87.50 95.65 NA 96.67 95.00 100.00 NA NA 100.00 100.00 100.00 100.00 100.00 NA NA NA 100.00 88.89 NA NA K cassette CG17508 chr2R + chr2R_1496995_1498696 chr2R_1496995_1497637;chr2R_1497762_1498696 chr2R_1497638_1497761 chr2R_1496895_1496994;chr2R_1498697_1499080 82.93 75.51 80.95 82.46 82.35 75.00 88.46 85.00 81.61 93.33 100.00 86.76 88.24 90.00 86.36 81.82 90.48 84.62 83.93 84.34 94.29 58.33 82.05 85.42 80.95 70.21 82.22 94.12 65.22 85.19 83.72 80.00 73.53 87.01 77.42 57.14 84.09 77.50 78.12 85.71 81.82 80.00 82.93 83.33 67.65 86.49 83.72 92.59 83.33 81.82 80.85 85.29 75.00 88.00 80.33 87.80 77.42 80.00 K jcn_only_AD CG31038,I_chr3R_25702915_25703648,I_chr3R_25705533_25722419,I_chr3R_25727788_25727905 chr3R + chr3R_25702915_25703648;chr3R_25702989_25703648;chr3R_25702895_25703648;chr3R_25702897_25703648;chr3R_25702901_25703648;chr3R_25702970_25703648 chr3R_25702838_25703648 chr3R_25703649_25703748;chr3R_25702831_25702837 9.52 NA NA NA NA NA NA NA 4.76 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 18.18 NA NA NA NA 9.52 NA NA NA NA NA NA NA NA NA K alternative_donor Rab-RP4,RI_chrX_5565547_5565601 chrX - chrX_5565547_5565635 chrX_5565547_5565601 chrX_5565447_5565546;chrX_5565636_5565701 0.70 0.00 0.93 1.80 1.49 1.09 0.00 0.00 2.23 0.00 0.00 0.00 1.09 1.06 0.00 0.00 0.00 0.00 0.98 0.44 0.00 1.75 0.79 1.40 2.06 0.95 0.70 0.00 1.45 0.74 1.74 1.60 1.61 0.00 1.98 0.80 0.99 0.00 1.82 0.33 1.71 0.00 0.00 1.82 1.20 0.97 0.52 0.40 0.00 0.00 1.42 0.00 0.00 0.85 0.00 0.00 0.00 0.37 K jcn_only_AD sick chr2L + chr2L_19887321_19907761 chr2L_19902188_19907761 chr2L_19907762_19907892 3.85 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 3.85 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD Anxb11,I_chrX_16314152_16314405,I_chrX_16314152_16315813 chrX - chrX_16314152_16316028;chrX_16314152_16316276 chrX_16314152_16316199 chrX_16314083_16314151;chrX_16316277_16316298 65.94 NA NA NA NA NA 47.62 65.22 57.58 NA NA 52.38 NA NA NA NA NA NA NA NA NA 84.62 NA NA NA NA NA NA NA NA 73.91 NA NA 62.96 NA NA NA NA NA 66.67 NA 69.57 NA NA NA NA NA NA 76.67 NA NA NA NA NA NA NA NA NA K multi_cassette RI_chrX_11473566_11473702,roX2,noncoding_23149,I_chrX_11475074_11475402 chrX + chrX_11473158_11473702 chrX_11473158_11473247;chrX_11473270_11473384;chrX_11473433_11473485;chrX_11473562_11473702 chrX_11473248_11473269;chrX_11473385_11473432;chrX_11473486_11473561 chrX_11473148_11473157;chrX_11473703_11473726 18.77 22.22 20.00 10.53 NA NA NA 20.00 22.73 10.00 NA 19.35 42.86 18.18 13.33 12.90 33.33 NA 11.76 15.79 NA NA NA NA NA 33.33 NA NA NA NA 14.29 22.22 NA 14.81 NA NA NA NA NA 10.34 NA 26.32 14.29 NA NA 28.57 20.00 6.67 15.62 NA NA 33.33 NA NA 15.00 33.33 30.00 15.79 K intron_retention CG3764 chr3L - chr3L_16991558_16991624 chr3L_16991557_16991558;chr3L_16991624_16991625 chr3L_16991370_16991557;chr3L_16991625_16992647 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.57 4.76 0.00 7.41 0.00 2.04 11.11 3.64 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.98 3.23 0.00 1.41 0.00 0.00 0.00 0.00 0.00 NA 0.00 K jcn_only_AA RpL12,I_chr2R_19948517_19948655,RI_chr2R_19948517_19948677,I_chr2R_19948517_19948682 chr2R + chr2R_19948517_19948672;chr2R_19948517_19948677;chr2R_19948517_19948655 chr2R_19948517_19948682 chr2R_19948417_19948516;chr2R_19948683_19948755 0.02 0.02 0.00 0.00 0.02 0.03 0.01 0.01 0.00 0.03 0.02 0.02 0.00 0.00 0.01 0.01 0.00 0.03 0.04 0.01 0.00 0.00 0.08 0.03 0.03 0.00 0.01 0.02 0.11 0.04 0.08 0.04 0.00 0.04 0.08 0.02 0.05 0.02 0.02 0.00 0.02 0.02 0.02 0.00 0.09 0.08 0.02 0.06 0.02 0.02 0.00 0.02 0.01 0.03 0.03 0.02 0.06 0.03 K intron_retention sbr,RI_chrX_10731248_10731484 chrX - chrX_10730663_10730725 chrX_10730662_10730663;chrX_10730725_10730726 chrX_10730553_10730662;chrX_10730726_10731247 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.22 0.87 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.23 4.44 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.85 0.00 0.00 0.00 0.00 2.20 0.00 1.03 0.00 1.32 0.00 0.00 0.00 0.00 1.54 0.00 0.00 2.38 K intron_retention Papss chr3L + chr3L_19838529_19838611 chr3L_19838528_19838529;chr3L_19838611_19838612 chr3L_19838397_19838528;chr3L_19838612_19838730 46.15 69.23 55.56 78.26 NA NA 63.16 47.83 50.00 NA 88.89 50.00 NA 60.00 50.00 60.00 NA 38.46 46.15 50.00 NA 31.58 50.00 43.75 46.15 71.43 90.91 NA 54.55 33.33 43.75 NA 23.81 42.86 NA 80.00 40.00 33.33 41.18 36.36 NA 59.26 41.67 NA NA 29.41 53.85 36.36 45.83 NA 35.29 36.36 NA NA 56.25 46.15 46.15 29.03 K intron_retention CG8213 chr2R - chr2R_4858557_4858929 chr2R_4858556_4858557;chr2R_4858929_4858930 chr2R_4858370_4858556;chr2R_4858930_4862949 13.34 NA NA 53.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 12.50 NA 11.76 10.53 12.50 NA NA 14.29 NA 13.64 13.04 NA NA NA NA NA 37.50 6.67 NA NA 17.65 18.75 20.00 NA 12.50 7.14 14.29 28.57 11.76 NA NA 7.14 NA NA 12.50 NA 20.00 NA 25.00 K alternative_acceptor ade5,I_chrX_12653069_12653157 chrX - chrX_12653946_12654381 chrX_12653949_12654381 chrX_12654382_12654426;chrX_12653745_12653945 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.39 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor CG7611,I_chr3L_21516702_21517821 chr3L + chr3L_21516706_21517821;chr3L_21516330_21517821;chr3L_21516399_21517821;chr3L_21517168_21517821;chr3L_21516722_21517821;chr3L_21516918_21517821;chr3L_21516343_21517821;chr3L_21516728_21517821 chr3L_21516501_21517821 chr3L_21517822_21517920;chr3L_21516311_21516329 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 14.29 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG8671,I_chr2L_21275807_21277205 chr2L + chr2L_21263124_21263647 chr2L_21263123_21263124;chr2L_21263647_21263648 chr2L_21262988_21263123;chr2L_21263648_21263786 16.52 4.35 18.37 14.81 28.57 11.90 22.22 15.46 17.74 NA 7.41 15.22 17.65 15.69 16.33 18.28 20.83 14.29 16.36 16.90 0.00 29.17 19.51 19.05 24.00 29.17 16.22 33.33 33.33 15.38 16.13 16.67 37.93 13.75 21.21 15.62 NA 33.33 16.67 13.79 40.00 18.29 15.00 16.13 NA 12.12 NA 17.95 18.75 10.53 16.67 9.09 NA 15.38 10.94 13.04 11.76 24.00 K jcn_only_AD CG10602 chr2L - chr2L_18857404_18857587;chr2L_18857404_18857541 chr2L_18857404_18857511 chr2L_18857177_18857403;chr2L_18857588_18857700 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 2.94 0.00 NA 0.00 2.33 0.00 0.00 0.00 2.08 0.00 0.00 0.00 0.00 0.00 0.00 3.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 N cassette sba chr3R - chr3R_19725516_19739517 chr3R_19725516_19728849;chr3R_19729184_19739517 chr3R_19728850_19729183 chr3R_19725509_19725515;chr3R_19739518_19739641 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 73.81 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Pde8,I_chr2R_19563512_19564565 chr2R + chr2R_19566012_19566069 chr2R_19566011_19566012;chr2R_19566069_19566070 chr2R_19565741_19566011;chr2R_19566070_19567273 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.21 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.32 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.75 0.00 0.00 0.00 0.00 0.51 0.00 0.00 0.29 0.00 0.00 0.00 0.00 0.23 0.00 0.00 0.00 0.00 0.00 0.00 0.23 0.00 0.31 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention RpL5,I_chr2L_22428750_22428846 chr2L - chr2L_22428787_22428846 chr2L_22428786_22428787;chr2L_22428846_22428847 chr2L_22428534_22428786;chr2L_22428847_22428946 0.05 0.04 0.06 0.04 0.05 0.05 0.05 0.04 0.05 0.06 0.04 0.04 0.06 0.08 0.06 0.06 0.06 0.03 0.04 0.05 0.05 0.06 0.06 0.06 0.07 0.04 0.19 0.47 0.16 0.06 0.03 0.06 0.10 0.05 0.05 0.04 0.05 0.06 0.04 0.09 0.06 0.05 0.07 0.07 0.04 0.04 0.04 0.08 0.08 0.05 0.06 0.11 0.05 0.04 0.04 0.04 0.06 0.03 N jcn_only_AA noncoding_14363 chr3LHet - chr3LHet_709127_709194;chr3LHet_709103_709194 chr3LHet_709113_709194 chr3LHet_709195_709261;chr3LHet_709044_709102 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 97.50 100.00 100.00 100.00 NA 100.00 100.00 93.49 100.00 91.94 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.02 100.00 98.78 100.00 100.00 100.00 100.00 100.00 100.00 99.03 100.00 K alternative_acceptor RI_chr2R_12912984_12913058,RhoGEF2 chr2R + chr2R_12926410_12926473 chr2R_12926410_12926467 chr2R_12926100_12926409;chr2R_12926474_12926605 80.95 85.19 76.92 82.50 85.71 80.00 74.19 78.57 80.39 84.62 92.86 84.31 75.86 78.26 68.57 84.38 75.00 86.67 79.17 79.69 64.00 93.02 77.55 94.12 76.92 85.19 88.89 84.00 84.21 74.29 80.00 94.74 80.43 80.85 95.65 86.49 84.38 74.07 70.73 83.61 86.36 78.72 77.78 91.43 86.21 80.00 76.47 86.54 86.27 70.97 76.09 82.61 91.30 81.25 80.56 76.00 80.95 87.10 K intron_retention CG3077 chr2L - chr2L_2765428_2765495 chr2L_2765427_2765428;chr2L_2765495_2765496 chr2L_2765284_2765427;chr2L_2765496_2765675 0.00 0.00 0.00 3.45 0.00 3.85 6.67 5.13 4.00 4.35 0.00 0.00 NA 0.00 4.17 3.57 0.00 0.00 6.67 3.57 0.00 0.00 0.00 2.17 4.55 9.09 20.00 19.05 0.00 0.00 3.85 6.67 3.45 2.94 0.00 4.35 0.00 0.00 0.00 0.00 4.35 6.78 0.00 0.00 0.00 0.00 0.00 5.71 7.50 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor Ptp4E,EI_chrX_4842231_4842425 chrX + chrX_4847655_4848167;chrX_4847655_4848149 chrX_4847655_4847757 chrX_4847526_4847654;chrX_4848168_4848168 8.33 8.33 5.88 19.05 5.56 11.76 10.71 8.70 14.58 10.00 8.33 17.39 62.50 6.67 5.88 14.29 5.56 14.29 6.67 9.38 0.00 4.35 3.03 9.38 0.00 0.00 0.00 0.00 0.00 3.70 7.41 7.14 13.33 19.35 8.33 5.88 2.63 4.35 3.03 10.00 15.79 14.81 10.00 10.71 5.56 13.04 7.41 18.18 8.70 4.00 6.06 5.00 11.11 0.00 15.38 0.00 11.76 8.70 K intron_retention CkIIalpha-i1 chr3L + chr3L_15810274_15810331 chr3L_15810273_15810274;chr3L_15810331_15810332 chr3L_15810092_15810273;chr3L_15810332_15811721 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K cassette CG18659,E_chr2R_5011363_5019110,RI_chr2R_5013572_5014531,I_chr2R_5016147_5016997 chr2R - chr2R_5011651_5014531;chr2R_5011651_5014923 chr2R_5011651_5013055;chr2R_5013572_5014531,chr2R_5013572_5014923 chr2R_5013056_5013571 chr2R_5011194_5011650;chr2R_5014924_5015382 99.00 99.11 98.70 91.95 100.00 98.73 97.75 98.84 98.60 100.00 98.25 99.32 100.00 100.00 98.77 100.00 100.00 100.00 100.00 98.28 93.15 89.33 97.67 99.38 99.09 98.33 99.33 98.36 99.29 98.40 100.00 98.85 97.18 99.08 97.96 99.00 98.49 99.25 98.00 99.42 97.35 98.14 98.04 97.17 100.00 99.23 99.22 100.00 99.24 99.25 97.65 98.57 100.00 96.40 98.85 99.15 99.12 99.01 K intron_retention CG5969,noncoding_13793,CG5976 chr3L + chr3L_20467422_20467486 chr3L_20467421_20467422;chr3L_20467486_20467487 chr3L_20467378_20467421;chr3L_20467487_20467743 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.56 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Pegarn chr3L + chr3L_12783425_12784534 chr3L_12783424_12783425;chr3L_12784534_12784535 chr3L_12783403_12783424;chr3L_12784535_12784733 40.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 17.65 NA NA NA 50.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 46.67 NA 25.00 NA NA NA NA NA NA NA NA NA 40.00 K intron_retention dos,I_chr3L_2589746_2592161 chr3L + chr3L_2594466_2594521 chr3L_2594465_2594466;chr3L_2594521_2594522 chr3L_2593865_2594465;chr3L_2594522_2595590 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.87 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG34394,I_chr2L_3365674_3365965,RI_chr2L_3365677_3365965,I_chr2L_3365701_3365757 chr2L - chr2L_3365677_3367244 chr2L_3365676_3365677;chr2L_3367244_3367245 chr2L_3365601_3365676;chr2L_3367245_3367719 36.31 40.00 42.86 43.48 41.67 42.86 42.31 43.64 44.57 24.00 34.21 30.49 33.33 43.24 47.22 38.78 47.50 44.83 34.62 34.72 35.48 50.00 33.33 27.03 37.14 52.78 35.42 52.17 18.52 23.08 41.18 25.00 13.33 40.00 23.68 21.62 28.38 21.05 30.00 34.21 NA 41.77 46.15 23.33 22.22 29.41 39.13 23.08 47.06 42.31 33.33 31.82 15.00 31.82 51.35 42.86 47.62 41.67 K jcn_only_AA RluA-2,I_chr2L_10480906_10481097 chr2L + chr2L_10482575_10482636 chr2L_10482575_10482624 chr2L_10482285_10482574;chr2L_10482637_10482786 26.45 NA NA 21.43 NA NA 48.15 37.93 22.86 NA NA 31.82 NA NA NA NA 33.33 NA NA 36.36 NA NA 11.54 NA NA NA 16.00 NA NA NA 13.51 NA NA 24.00 NA NA NA NA NA 30.00 20.83 13.89 NA 25.81 22.73 31.58 31.43 42.86 24.24 NA NA NA NA NA 33.33 16.67 27.08 35.00 K intron_retention CG1603 chr2R - chr2R_3403088_3403147 chr2R_3403087_3403088;chr2R_3403147_3403148 chr2R_3402725_3403087;chr2R_3403148_3403402 0.00 NA NA 0.00 0.00 NA 0.00 0.00 9.09 NA NA 7.69 NA NA 0.00 0.00 0.00 NA NA 0.00 NA NA 0.00 NA NA NA 11.11 NA NA 0.00 NA NA 0.00 4.76 NA 0.00 0.00 NA NA NA NA NA NA NA NA 0.00 NA NA 12.50 NA NA NA NA NA 6.25 0.00 0.00 NA K jcn_only_AD CG10737 chr2R + chr2R_15062592_15063752;chr2R_15062754_15063752 chr2R_15062814_15063752 chr2R_15063753_15063852;chr2R_15062387_15062591 63.33 NA NA 45.00 NA NA 82.00 NA 63.33 NA NA NA NA NA NA NA NA NA NA 65.71 NA 46.43 NA NA NA NA NA NA NA NA NA NA 30.77 50.00 NA NA NA NA NA NA NA 68.00 NA NA 73.68 NA NA 55.00 65.38 NA NA NA NA NA NA NA 70.00 62.50 K alternative_donor nimC1,I_chr2L_13975880_13975977 chr2L - chr2L_13975880_13976476 chr2L_13975880_13975977 chr2L_13975780_13975879;chr2L_13976477_13976753 26.67 27.59 28.57 24.32 21.21 25.00 27.03 25.24 25.23 NA 21.82 29.11 30.00 36.36 26.42 38.71 30.56 25.93 37.78 23.23 27.27 22.22 33.33 30.77 25.00 21.21 31.58 36.36 11.11 31.25 36.36 36.36 26.67 30.16 27.27 33.33 21.74 8.33 22.22 33.33 10.00 25.58 35.48 20.00 NA 29.41 20.00 31.25 28.05 21.43 37.50 22.73 NA NA 20.63 23.08 21.43 18.18 K intron_retention I_chr2R_13460029_13460240,Dcr-2,I_chr2R_13466001_13466072 chr2R - chr2R_13467618_13467673 chr2R_13467617_13467618;chr2R_13467673_13467674 chr2R_13466921_13467617;chr2R_13467674_13467980 8.77 7.32 9.09 22.95 17.24 9.09 9.64 7.44 6.96 11.54 4.35 10.28 3.45 12.50 7.79 10.59 4.55 6.12 12.86 7.08 5.13 9.23 8.77 11.63 21.05 15.25 7.69 26.53 7.84 5.13 18.87 NA 14.71 10.75 7.50 21.88 8.00 0.00 5.56 8.79 22.22 9.17 6.67 7.55 NA 6.67 NA 10.39 8.65 NA 10.64 8.33 NA NA 13.51 0.00 0.00 2.70 N alternative_acceptor Rab2,I_chr2R_2584435_2585553 chr2R + chr2R_2585891_2585965 chr2R_2585891_2585950 chr2R_2585554_2585890;chr2R_2585966_2586134 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 85.26 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AA CG1667,RI_chr2R_5731409_5731653,I_chr2R_5732410_5732504 chr2R + chr2R_5732410_5732504 chr2R_5732410_5732494 chr2R_5732341_5732409;chr2R_5732505_5732561 100.00 96.15 100.00 98.46 100.00 98.31 100.00 100.00 98.69 100.00 100.00 99.07 100.00 100.00 98.75 100.00 98.25 100.00 100.00 98.71 100.00 100.00 98.11 98.39 100.00 98.28 100.00 100.00 98.31 100.00 100.00 100.00 100.00 98.17 100.00 NA 98.59 100.00 100.00 99.12 96.83 100.00 98.31 97.22 97.26 98.80 100.00 98.33 100.00 100.00 96.77 100.00 100.00 100.00 100.00 100.00 98.73 96.43 K jcn_only_AA wun2,I_chr2R_5302867_5303906,I_chr2R_5304606_5304660 chr2R + chr2R_5302867_5304149 chr2R_5302867_5303906 chr2R_5302767_5302866;chr2R_5304150_5304298 2.13 1.52 1.80 0.46 0.00 2.94 1.69 2.15 2.46 0.00 0.86 1.05 4.55 3.82 1.64 2.09 0.00 1.00 2.67 5.98 0.76 1.42 2.35 2.73 1.65 0.00 3.81 0.00 5.56 0.00 7.14 4.44 2.78 2.67 4.44 5.21 2.07 2.13 2.73 2.22 1.98 1.85 1.80 1.48 2.15 2.07 3.70 5.41 1.54 4.92 2.99 1.37 3.85 1.12 2.21 3.09 1.63 4.17 K alternative_donor d4 chr2R + chr2R_1182563_1182620;chr2R_1182573_1182620;chr2R_1182566_1182620 chr2R_1182569_1182620 chr2R_1182621_1183461;chr2R_1182302_1182562 41.03 43.90 32.61 38.81 43.90 34.21 40.98 35.19 36.89 61.11 38.46 52.94 46.67 40.62 37.84 43.64 37.50 48.28 51.61 38.46 44.12 34.69 44.68 47.62 50.00 31.03 45.28 38.46 34.62 40.00 51.72 40.91 41.67 40.00 48.00 41.18 44.64 41.03 46.00 47.69 43.90 40.00 39.29 31.91 46.55 50.00 38.00 54.90 40.00 38.60 43.48 42.86 38.18 46.15 37.50 40.00 37.65 50.00 K intron_retention CG5792,F_chr2L_12714547_12714695 chr2L - chr2L_12718057_12721450 chr2L_12718056_12718057;chr2L_12721450_12721451 chr2L_12717565_12718056;chr2L_12721451_12721525 30.77 NA NA NA NA NA NA NA 41.67 NA NA NA NA NA NA NA NA NA NA NA NA 31.58 15.79 0.00 NA NA 30.77 NA NA NA NA NA NA 46.15 NA NA NA NA NA NA NA 11.11 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA N alternative_acceptor CG34394,I_chr2L_3365674_3365965,RI_chr2L_3365677_3365965,I_chr2L_3365701_3365757 chr2L - chr2L_3365976_3367244;chr2L_3365677_3367244 chr2L_3365674_3367244 chr2L_3367245_3367719;chr2L_3365601_3365673 39.13 38.10 42.86 29.17 26.67 39.13 33.33 35.14 41.07 38.89 19.05 32.69 38.89 26.32 33.33 36.36 34.78 43.48 43.75 40.82 44.44 27.47 42.42 44.00 48.39 41.18 37.50 35.71 23.53 38.71 47.83 NA 39.13 30.00 41.38 48.28 36.73 34.62 39.22 44.44 NA 48.21 35.71 51.85 36.36 53.85 56.25 61.54 40.62 36.84 47.50 57.89 42.86 33.33 48.00 33.33 40.00 NA K intron_retention Pp1-87B chr3R - chr3R_8249602_8249672 chr3R_8249601_8249602;chr3R_8249672_8249673 chr3R_8249335_8249601;chr3R_8249673_8249908 98.83 100.00 95.05 100.00 100.00 100.00 99.38 98.83 98.28 97.87 98.75 99.07 96.81 97.14 99.09 98.72 98.68 89.71 99.19 97.18 98.51 97.14 99.03 96.43 97.92 100.00 99.16 99.02 99.09 100.00 100.00 97.24 98.06 100.00 100.00 100.00 100.00 97.78 97.92 97.63 98.84 99.33 98.89 99.07 99.31 96.96 98.67 98.58 99.52 98.41 100.00 100.00 98.53 98.61 98.29 95.74 99.12 98.77 K jcn_only_AD Mbs,I_chr3L_16045251_16046108,RI_chr3L_16045275_16045854,RI_chr3L_16045275_16046111,RI_chr3L_16045277_16046104,I_chr3L_16045316_16046104,I_chr3L_16057100_16057329 chr3L + chr3L_16045251_16046104;chr3L_16045277_16046104;chr3L_16045275_16046104 chr3L_16045316_16046104 chr3L_16046105_16046204;chr3L_16045216_16045250 0.00 0.00 0.00 0.00 2.63 0.00 0.00 1.87 1.67 0.00 0.00 0.00 0.00 0.00 0.00 1.12 0.00 0.00 1.20 0.00 1.85 0.00 0.00 0.00 0.00 1.28 0.00 3.33 1.56 0.00 1.35 0.00 0.00 0.00 0.00 0.00 2.38 2.78 0.00 0.00 0.00 0.00 1.64 1.75 0.00 0.00 0.00 0.00 0.91 0.00 1.92 0.00 0.00 NA 0.00 5.56 NA 0.00 K alternative_acceptor SPoCk,I_chr3L_22776339_22776519,I_chr3L_22777865_22778359 chr3L + chr3L_22768238_22770210 chr3L_22768238_22770191 chr3L_22768075_22768237;chr3L_22770211_22771924 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 NA 0.00 NA 0.00 NA NA 0.00 NA 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 NA NA NA 0.00 0.00 NA NA K jcn_only_AD None chrU + chrU_1178980_1183262;chrU_1179335_1183262 chrU_1182323_1183262 0.97 2.16 2.14 0.00 0.00 0.00 0.97 0.32 0.86 0.00 0.00 0.72 2.10 0.00 1.57 0.43 1.69 1.82 0.00 0.38 0.00 0.00 1.54 1.53 1.61 0.00 0.76 4.08 0.82 1.98 1.69 0.85 3.28 0.54 6.48 0.00 2.35 2.74 1.03 1.01 1.23 0.27 2.24 1.01 3.60 1.65 1.24 1.56 1.15 0.00 2.05 1.00 0.89 0.00 0.00 0.00 0.00 0.95 K cassette tou,I_chr2R_7468394_7468453,RI_chr2R_7474644_7475275,I_chr2R_7479681_7491857,I_chr2R_7504956_7505020 chr2R - chr2R_7468904_7470519 chr2R_7468904_7469132;chr2R_7469651_7470519 chr2R_7469133_7469650 chr2R_7468454_7468903;chr2R_7470520_7474530 52.94 58.46 56.36 45.30 45.00 56.36 54.41 50.57 58.73 50.00 40.00 56.76 56.67 53.57 54.69 63.24 61.36 59.18 41.77 51.47 50.00 63.82 55.12 62.24 60.66 45.76 53.77 63.77 40.00 50.00 43.48 49.23 51.82 56.18 52.63 50.00 50.60 51.85 51.59 49.04 52.94 54.39 55.10 52.22 45.88 53.85 65.08 38.13 57.76 55.38 62.63 56.60 62.50 52.46 52.17 47.83 52.46 39.74 K jcn_only_AD eRF1,CG5618,I_chr3L_20346714_20347106,I_chr3L_20346738_20347058,I_chr3L_20348230_20348404 chr3L + chr3L_20341925_20342041;chr3L_20341636_20342041;chr3L_20341865_20342041;chr3L_20341486_20342041;chr3L_20341522_20342041;chr3L_20341751_20342041;chr3L_20341530_20342041;chr3L_20341629_20342041;chr3L_20341598_20342041;chr3L_20341759_20342041 chr3L_20341509_20342041 chr3L_20342042_20342306;chr3L_20341482_20341485 4.35 3.03 3.33 4.59 6.67 9.30 1.23 5.74 9.86 4.35 6.98 1.33 7.14 5.26 1.43 10.26 4.62 5.88 4.76 7.09 0.00 8.70 2.63 6.12 2.44 5.71 6.45 7.41 0.00 7.41 1.15 4.55 2.44 9.16 NA 0.00 4.08 5.56 3.45 2.54 0.00 6.45 5.26 0.00 5.41 2.22 0.00 7.50 8.39 2.13 0.00 2.50 0.00 NA 3.06 3.33 0.00 2.47 K alternative_acceptor rdgA chrX + chrX_8914065_8914914 chrX_8914065_8914899 chrX_8913982_8914064;chrX_8914915_8915324 6.67 NA NA NA NA NA NA NA NA NA NA 6.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 6.67 NA 0.00 7.69 NA NA NA NA NA NA NA NA NA NA 7.69 NA NA NA NA NA NA NA K jcn_only_AA CG9992 chrX - chrX_16277545_16278620;chrX_16277559_16278620 chrX_16277201_16278620 chrX_16278621_16278914 31.63 40.00 35.09 63.30 33.33 33.33 55.24 31.62 31.46 NA 34.43 43.12 53.75 35.71 40.62 26.21 38.57 7.89 31.65 29.86 38.33 52.08 25.30 32.35 47.22 38.98 25.00 16.28 51.61 27.78 31.25 33.33 NA 26.17 29.73 59.52 38.36 29.73 30.00 19.61 27.27 32.52 38.81 22.97 26.09 24.24 18.00 NA 27.83 28.99 25.00 20.34 33.33 33.33 25.76 23.40 28.89 32.35 K jcn_only_AD foi,I_chr3L_8520658_8520733,I_chr3L_8524905_8524976 chr3L + chr3L_8518753_8523659;chr3L_8518805_8523659 chr3L_8518490_8523659 chr3L_8523660_8524249;chr3L_8518407_8518489 7.06 3.53 8.16 8.45 4.71 6.59 1.56 4.46 4.05 12.20 7.69 0.96 3.33 3.96 6.45 4.14 7.07 3.15 4.26 5.70 5.26 11.11 9.72 7.84 12.33 0.89 4.44 11.76 23.38 8.70 5.97 7.50 13.04 6.33 6.76 8.65 12.50 4.65 4.08 8.87 11.96 4.44 7.06 10.91 14.08 8.99 18.42 8.67 2.28 11.29 4.88 3.85 7.50 15.00 5.30 6.58 11.27 8.63 K mutually_exclusive ens,I_chr3L_4130719_4131120 chr3L - chr3L_4127163_4129650,chr3L_4129792_4131120;chr3L_4127163_4130388,chr3L_4130644_4131120 chr3L_4127163_4128613,chr3L_4128974_4131120 chr3L_4129651_4129791;chr3L_4130389_4130643 chr3L_4128614_4128973 chr3L_4126989_4127162;chr3L_4131121_4131220 0.88 0.97 1.11 0.00 1.23 1.08 0.00 0.00 0.55 1.39 0.00 0.67 0.00 0.00 1.08 1.64 0.00 1.67 0.00 0.00 0.00 0.65 0.64 1.63 0.00 0.00 0.83 2.11 3.92 0.87 0.88 1.64 1.50 0.68 1.96 0.80 0.56 1.57 2.08 0.52 6.02 1.02 1.39 0.74 3.26 2.30 2.47 0.69 0.70 0.00 0.65 1.05 1.49 1.82 0.00 1.20 2.17 1.33 K alternative_acceptor Rcd6,I_chr2R_16518342_16520460,I_chr2R_16518620_16518916,RI_chr2R_16520388_16520855 chr2R - chr2R_16518342_16520294 chr2R_16518620_16520294 chr2R_16520295_16520328;chr2R_16518242_16518341 100.00 NA NA 85.71 100.00 NA 100.00 90.00 100.00 100.00 NA 85.71 87.50 NA 85.71 85.71 NA 100.00 100.00 83.33 NA 100.00 88.89 100.00 100.00 100.00 100.00 100.00 80.00 100.00 100.00 100.00 88.89 100.00 85.71 100.00 83.33 NA 85.71 100.00 NA 100.00 NA 100.00 100.00 100.00 80.00 87.50 87.50 NA 100.00 80.00 NA NA 100.00 83.33 NA 85.71 K jcn_only_AD CG2003 chr3R + chr3R_27812832_27814973;chr3R_27812850_27814973 chr3R_27812907_27814973 chr3R_27814974_27815051;chr3R_27812763_27812831 0.00 2.00 3.85 0.00 0.00 0.00 0.00 1.74 1.35 NA 2.70 1.09 0.00 3.57 8.93 2.70 0.00 0.00 0.00 1.43 5.56 NA 0.00 2.44 4.55 2.17 0.00 NA NA 0.00 0.00 0.00 0.00 0.94 0.00 0.00 0.00 0.00 0.00 1.85 4.65 1.87 4.55 2.50 0.00 1.69 0.00 2.44 0.69 0.00 0.00 0.00 0.00 NA 1.54 0.00 0.00 0.00 K alternative_acceptor CG7145,I_chr3L_21832928_21833150,I_chr3L_21832932_21833106 chr3L - chr3L_21832928_21833150 chr3L_21832932_21833150 chr3L_21833151_21833168;chr3L_21832832_21832927 100.00 100.00 100.00 90.91 NA 100.00 100.00 93.33 95.00 NA 87.50 100.00 90.00 100.00 85.71 100.00 100.00 100.00 90.00 96.67 100.00 NA 100.00 NA NA 90.91 NA NA 100.00 NA 100.00 NA 100.00 93.33 NA NA 100.00 NA NA 100.00 100.00 100.00 NA 100.00 NA 100.00 NA 91.67 100.00 NA 100.00 NA NA NA 100.00 NA NA 100.00 K intron_retention CG7028,I_chr3L_207277_208117 chr3L - chr3L_210400_210453 chr3L_210399_210400;chr3L_210453_210454 chr3L_209784_210399;chr3L_210454_210738 100.00 100.00 100.00 100.00 100.00 100.00 96.55 100.00 98.21 100.00 93.33 97.50 96.15 100.00 97.06 100.00 100.00 94.74 100.00 100.00 100.00 96.15 100.00 100.00 90.91 100.00 97.30 100.00 93.75 100.00 100.00 100.00 96.97 100.00 100.00 100.00 100.00 96.43 96.77 100.00 100.00 100.00 95.45 96.30 100.00 100.00 100.00 96.97 100.00 100.00 97.06 100.00 100.00 100.00 100.00 100.00 94.44 96.00 K alternative_donor E2f,I_chr3R_17447419_17447508,CG6353 chr3R - chr3R_17447419_17448533 chr3R_17447419_17447508 chr3R_17447319_17447418;chr3R_17448534_17449373 0.24 0.32 0.00 0.31 0.00 0.00 0.33 0.77 0.39 0.00 0.00 0.52 0.56 0.51 0.40 0.47 0.69 0.00 0.57 0.17 0.00 0.33 0.24 0.31 0.00 0.00 0.00 0.00 0.44 0.00 0.47 0.00 0.00 0.68 0.36 0.38 0.00 0.33 0.00 0.43 0.00 0.48 0.00 0.00 0.32 0.34 0.00 0.47 0.78 0.00 0.24 0.75 0.00 0.00 0.00 0.00 0.29 0.00 K alternative_acceptor CG9399,I_chr3R_5403032_5403329 chr3R - chr3R_5399352_5399524;chr3R_5399318_5399524 chr3R_5399255_5399524 chr3R_5399525_5399559;chr3R_5399076_5399254 0.00 NA NA 0.00 NA 0.00 0.00 NA 0.00 6.67 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 NA NA 0.00 NA 0.00 0.00 NA NA NA 0.00 NA 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 11.11 0.00 NA 0.00 0.00 NA NA NA 0.00 K multi_cassette capt,I_chr2L_1156009_1158078,I_chr2L_1153732_1154551,I_chr2L_1153732_1157370,I_chr2L_1163632_1163759 chr2L - chr2L_1153732_1155745 chr2L_1153732_1154281;chr2L_1154407_1154551;chr2L_1155054_1155745 chr2L_1154282_1154406;chr2L_1154552_1155053 chr2L_1153632_1153731;chr2L_1155746_1155788 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 10.00 NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD RpL15 chr3LHet + chr3LHet_2398018_2398127;chr3LHet_2397859_2398127;chr3LHet_2397925_2398127;chr3LHet_2397992_2398127;chr3LHet_2398060_2398127;chr3LHet_2397841_2398127;chr3LHet_2398002_2398127;chr3LHet_2397820_2398127 chr3LHet_2398053_2398127 chr3LHet_2398128_2398454;chr3LHet_2397802_2397819 2.00 16.22 1.39 0.27 3.12 4.35 17.58 1.61 7.04 0.00 2.86 3.51 7.14 6.25 1.54 5.88 0.88 5.45 0.00 3.33 2.56 2.34 14.29 0.00 0.00 1.06 7.41 0.00 1.97 0.89 2.34 1.86 0.00 0.57 0.00 3.49 8.00 NA 8.70 0.21 1.10 1.11 1.12 0.65 0.35 0.95 4.55 0.64 2.04 7.41 7.69 13.04 0.00 17.39 0.85 12.50 9.52 0.00 K intron_retention baf,I_chr2L_8029734_8029787 chr2L + chr2L_8029734_8029815 chr2L_8029733_8029734;chr2L_8029815_8029816 chr2L_8029634_8029733;chr2L_8029816_8029887 0.00 0.00 0.00 0.00 0.00 0.26 0.00 0.45 0.30 0.00 0.00 0.27 0.00 0.00 0.00 0.58 0.00 0.00 0.44 0.00 0.00 0.31 0.00 0.14 0.00 0.42 0.62 0.76 0.18 0.20 0.00 0.00 0.24 0.16 0.00 0.00 0.26 0.00 0.00 0.00 0.30 0.11 0.00 0.15 0.00 0.00 0.00 0.00 0.37 0.00 0.00 0.00 0.00 0.00 0.39 0.30 0.34 0.11 K alternative_donor mthl3 chr2R - chr2R_13338538_13338593;chr2R_13338538_13340067;chr2R_13338538_13339957;chr2R_13338538_13340007 chr2R_13338538_13340031 chr2R_13338407_13338537;chr2R_13340068_13340078 0.00 0.00 0.00 0.00 0.00 9.09 4.00 3.45 2.70 0.00 0.00 0.00 0.00 7.14 8.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 4.17 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 K intron_retention CG8323,CG18327 chr2R + chr2R_10053230_10053647 chr2R_10053229_10053230;chr2R_10053647_10053648 chr2R_10053094_10053229;chr2R_10053648_10054496 0.00 0.00 0.00 23.08 NA NA 0.00 12.50 0.00 NA NA 5.13 NA NA 0.00 5.56 NA 19.05 NA 0.00 NA NA 3.70 0.00 0.00 0.00 8.70 0.00 0.00 3.57 0.00 0.00 7.14 6.90 0.00 0.00 0.00 0.00 0.00 1.89 5.41 6.25 NA 0.00 3.45 4.00 0.00 5.26 3.23 7.14 0.00 0.00 0.00 0.00 0.00 0.00 14.29 5.00 K intron_retention I_chrX_15680663_15680821,Rhp chrX + chrX_15685430_15685494 chrX_15685429_15685430;chrX_15685494_15685495 chrX_15685276_15685429;chrX_15685495_15685935 0.00 NA NA 0.00 NA NA 10.00 0.00 0.00 NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA 0.00 NA NA NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA NA NA NA NA NA 0.00 NA 0.00 NA NA 0.00 0.00 NA 0.00 0.00 0.00 NA NA NA NA NA NA 0.00 NA K jcn_only_AD CG13319,RI_chr2R_8812301_8816468 chr2R + chr2R_8811853_8811926 chr2R_8811857_8811926 chr2R_8811927_8812157;chr2R_8811372_8811852 10.71 6.35 10.64 6.25 3.23 5.26 7.69 13.04 12.31 7.81 NA 12.68 12.00 10.81 15.00 13.64 13.33 10.26 17.24 3.03 25.00 7.14 6.00 18.48 14.63 8.33 12.00 10.17 6.45 4.88 8.00 5.88 18.42 18.97 5.13 5.00 10.98 13.13 7.21 13.79 8.82 18.82 12.12 15.09 14.52 3.90 9.90 6.45 18.33 13.04 10.77 13.89 12.77 14.29 2.27 5.10 9.05 5.56 K intron_retention CG8369,EI_chr3R_4647896_4648190 chr3R + chr3R_4648389_4648445 chr3R_4648388_4648389;chr3R_4648445_4648446 chr3R_4648191_4648388;chr3R_4648446_4648577 22.97 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 36.84 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 9.09 NA NA NA NA NA NA NA NA K intron_retention Pi3K59F,apt chr2R + chr2R_19450832_19450889 chr2R_19450831_19450832;chr2R_19450889_19450890 chr2R_19450470_19450831;chr2R_19450890_19451605 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.82 0.00 5.88 0.00 0.00 0.00 0.00 0.00 0.00 4.84 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.68 0.00 1.89 0.00 0.00 0.00 1.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Lam chr2L + chr2L_5542661_5543324 chr2L_5542660_5542661;chr2L_5543324_5543325 chr2L_5542527_5542660;chr2L_5543325_5543794 0.00 0.00 3.77 0.00 0.00 0.00 0.00 3.33 2.52 0.00 3.23 1.64 0.00 3.57 0.00 1.59 0.00 0.00 0.00 1.46 0.00 0.00 0.67 0.00 0.00 0.00 0.00 1.64 0.00 0.00 1.52 0.00 2.14 1.75 0.00 0.00 1.08 0.85 0.00 0.79 0.00 2.40 0.00 0.00 1.57 0.00 0.00 0.00 1.24 0.00 1.87 0.00 0.00 0.00 0.00 0.00 0.00 1.54 K jcn_only_AA CG5991 chr3R + chr3R_19876703_19877425;chr3R_19876703_19877411 chr3R_19876703_19877421 chr3R_19876688_19876702;chr3R_19877426_19877477 38.02 NA NA 33.33 NA NA 38.71 42.59 41.03 NA NA 37.50 NA NA 62.07 27.59 30.00 NA 32.00 55.56 NA NA NA NA NA 34.62 NA NA NA NA NA NA 32.00 38.24 NA 31.82 NA NA NA 39.47 21.74 37.21 40.91 NA NA 37.93 NA 39.13 34.78 NA 43.48 NA NA NA 45.71 NA NA 38.10 K intron_retention yata chr3R + chr3R_25577990_25578050 chr3R_25577989_25577990;chr3R_25578050_25578051 chr3R_25577870_25577989;chr3R_25578051_25578453 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.65 0.00 0.91 0.00 0.00 0.00 0.00 1.22 6.71 0.48 0.00 0.00 0.00 0.16 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.71 0.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention RpL24,I_chr2L_13394941_13395015 chr2L - chr2L_13394800_13394864 chr2L_13394799_13394800;chr2L_13394864_13394865 chr2L_13394521_13394799;chr2L_13394865_13394940 0.00 0.00 0.00 0.02 0.00 0.00 0.00 0.00 0.04 0.04 0.00 0.03 0.00 0.00 0.05 0.00 0.00 0.00 0.00 0.02 0.00 0.04 0.00 0.01 0.00 0.00 0.13 0.27 0.54 0.00 0.00 0.00 0.12 0.00 0.00 0.00 0.02 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.03 0.05 0.03 0.00 0.03 0.05 0.00 0.03 0.03 0.02 0.00 0.01 0.02 0.02 N jcn_only_AA kay,noncoding_19957,E_chr3R_25616137_25617114 chr3R + chr3R_25599544_25617114 chr3R_25599544_25599635 chr3R_25598998_25599543;chr3R_25617115_25617214 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.94 0.00 0.00 0.00 5.74 0.00 8.74 0.00 0.00 0.00 0.00 0.00 11.97 14.93 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 7.19 0.00 0.00 0.00 0.00 0.00 3.69 0.00 5.19 0.00 0.00 0.00 4.03 0.00 2.33 0.00 3.42 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor SdhA,I_chr2R_15283283_15283411,I_chr2R_15283319_15283369 chr2R - chr2R_15283283_15283369 chr2R_15283319_15283369 chr2R_15283370_15283469;chr2R_15283219_15283282 23.08 16.00 15.79 6.56 17.50 20.00 31.25 17.65 18.18 40.00 14.81 19.05 20.00 20.00 17.07 14.29 16.67 16.22 7.50 27.87 23.08 25.00 53.33 53.57 46.15 32.00 30.43 41.67 52.63 24.00 20.59 40.91 23.08 18.92 20.83 62.50 25.00 34.62 22.03 32.81 60.00 19.05 17.14 19.57 9.52 42.31 25.93 15.00 16.95 30.77 32.43 36.00 27.27 19.23 23.08 40.00 25.00 25.00 K jcn_only_AA cora,I_chr2R_15125277_15130573,I_chr2R_15125940_15130208,I_chr2R_15129291_15129988 chr2R + chr2R_15129901_15129994 chr2R_15129901_15129988 chr2R_15129679_15129900;chr2R_15129995_15130088 98.20 98.30 97.34 98.75 99.00 98.06 98.39 98.22 98.19 98.17 98.83 98.08 99.39 98.36 98.23 99.20 98.24 98.29 99.24 98.21 98.06 98.37 97.26 98.20 99.27 98.14 97.38 95.67 96.97 97.82 97.22 98.73 98.47 98.04 98.67 97.05 97.62 98.69 98.45 98.00 98.47 98.14 98.69 97.01 98.10 98.29 98.20 98.04 98.30 97.07 99.02 97.46 97.89 98.33 97.26 98.36 98.16 97.41 K jcn_only_AD Chc,RI_chrX_15728405_15729273,I_chrX_15728405_15729401,I_chrX_15728946_15729357 chrX - chrX_15728405_15729260;chrX_15728405_15729370;chrX_15728405_15729476;chrX_15728405_15729357 chrX_15728405_15729319 chrX_15728305_15728404;chrX_15729477_15729501 9.11 9.17 10.11 13.23 10.34 9.84 9.15 8.02 9.33 11.90 7.87 6.82 8.08 10.27 7.93 8.43 5.67 10.31 12.24 9.12 10.24 4.42 9.82 5.88 6.61 10.14 8.21 10.53 19.48 6.36 8.96 9.30 5.41 7.99 9.02 12.12 10.99 16.67 3.12 10.05 2.70 9.48 6.82 8.09 NA 4.88 3.53 10.09 7.54 11.36 11.88 9.09 16.22 24.44 9.04 8.22 3.23 8.51 K intron_retention CG12304 chr3L + chr3L_15576982_15577096 chr3L_15576981_15576982;chr3L_15577096_15577097 chr3L_15576765_15576981;chr3L_15577097_15577162 25.71 12.00 26.67 33.33 10.53 20.00 30.00 23.53 21.88 36.84 NA 24.14 NA 23.08 20.00 12.50 NA NA NA 26.47 NA 36.36 23.08 15.91 44.44 54.55 38.46 47.17 56.25 25.71 57.69 28.00 24.00 14.29 23.81 19.23 25.49 24.32 15.56 28.57 56.25 25.81 28.57 26.67 31.58 44.00 9.52 57.69 19.05 31.82 21.05 22.22 9.52 31.82 18.75 26.19 10.53 29.41 K alternative_donor gro chr3R + chr3R_21868626_21868716;chr3R_21868622_21868716 chr3R_21868657_21868716 chr3R_21868717_21869101;chr3R_21868588_21868621 31.01 30.00 28.57 53.85 50.00 33.33 41.18 60.00 36.67 28.57 NA 29.17 40.00 42.86 22.22 27.78 33.33 18.75 22.22 33.33 22.22 30.77 26.32 28.57 44.44 30.00 27.78 41.18 25.00 22.22 33.33 NA 18.18 36.00 28.57 31.25 23.53 41.67 31.58 21.74 NA 33.33 50.00 38.89 NA 25.00 25.00 42.86 23.81 18.18 37.50 55.56 NA 20.00 38.46 27.27 33.33 33.33 K intron_retention RpL30,I_chr2L_19008540_19008948,REI_chr2L_19008544_19008723,I_chr2L_19008544_19008918,snoRNA:Me28S-A2113 chr2L - chr2L_19008544_19008723 chr2L_19008543_19008544;chr2L_19008723_19008724 chr2L_19008444_19008543;chr2L_19008724_19008823 5.41 6.25 13.64 6.98 11.11 10.53 6.67 12.31 7.02 3.17 8.00 6.74 11.43 6.25 3.39 8.20 12.90 4.26 9.09 4.24 4.08 6.14 3.85 3.33 3.66 6.82 10.24 14.88 6.52 3.61 3.63 2.60 4.69 13.16 3.64 2.60 4.76 5.17 2.99 3.50 7.46 8.89 10.00 1.75 0.00 6.36 3.01 1.67 12.50 5.36 2.98 3.61 7.09 3.70 6.06 3.07 5.10 5.41 K cassette dnc,I_chrX_3150245_3150319,I_chrX_3150351_3152643 chrX + chrX_3215251_3226474 chrX_3215251_3219959;chrX_3219999_3226474 chrX_3219960_3219998 chrX_3215074_3215250;chrX_3226475_3226579 17.65 15.79 25.00 20.00 30.77 17.65 12.00 22.58 14.71 NA 17.65 26.09 11.11 38.46 13.04 14.29 9.09 20.00 15.38 24.32 25.00 13.33 15.79 12.50 NA 5.56 NA NA NA NA 21.88 NA 14.29 24.24 10.53 NA 23.08 7.69 13.33 19.05 NA 19.44 46.15 NA NA NA NA NA 20.83 15.00 17.65 NA NA NA 12.90 NA NA NA K jcn_only_AD CG8334,I_chr3L_19870731_19870822 chr3L + chr3L_19870674_19871932 chr3L_19870731_19871932 chr3L_19871933_19872579;chr3L_19870631_19870673 59.81 59.38 56.25 65.77 75.61 73.33 64.79 72.84 62.00 57.69 55.26 55.29 74.29 60.00 50.94 58.18 80.49 46.51 73.17 46.73 48.57 58.43 55.56 58.54 35.71 63.64 67.24 81.25 47.37 55.93 51.39 63.64 71.59 61.54 73.68 57.14 60.42 65.31 65.22 59.38 64.44 59.63 55.26 67.14 78.72 69.23 57.14 57.94 60.61 60.87 46.81 59.38 43.59 NA 72.00 60.00 48.39 50.00 K cassette Ptp4E,EI_chrX_4842231_4842425 chrX + chrX_4847655_4849003 chrX_4847655_4848149;chrX_4848658_4849003 chrX_4848150_4848657 chrX_4847526_4847654;chrX_4849004_4849551 90.91 90.00 100.00 88.24 100.00 91.67 81.25 81.82 95.65 90.00 87.50 94.12 88.89 100.00 92.86 100.00 100.00 87.50 93.33 100.00 88.89 32.14 80.95 100.00 90.91 71.43 86.67 100.00 80.00 91.67 88.24 87.50 90.91 95.24 88.89 90.00 93.75 90.00 87.50 100.00 76.92 86.36 100.00 90.91 91.67 94.12 90.91 91.67 95.24 92.86 88.89 90.00 80.00 80.00 92.86 90.00 100.00 100.00 K intron_retention CG30046 chr2R + chr2R_8202797_8202857 chr2R_8202796_8202797;chr2R_8202857_8202858 chr2R_8202597_8202796;chr2R_8202858_8203112 10.53 13.79 16.67 9.09 2.94 3.33 7.69 12.16 7.46 4.76 10.71 13.16 8.33 16.67 5.26 15.00 10.53 6.45 10.53 12.12 13.89 10.53 17.65 14.81 NA 4.35 6.25 NA 15.00 11.11 14.29 22.22 6.67 14.00 0.00 13.64 0.00 NA 0.00 17.78 6.25 12.31 10.00 0.00 12.50 0.00 9.09 17.07 11.84 6.25 15.15 9.09 6.67 20.00 14.04 3.57 4.94 11.34 K intron_retention mod(r),RI_chrX_515831_515923,I_chrX_516392_517480 chrX + chrX_516392_516478 chrX_516391_516392;chrX_516478_516479 chrX_516292_516391;chrX_516479_517065 20.00 NA 0.00 NA NA NA 30.77 26.32 17.65 NA NA 22.22 NA NA NA 22.22 NA 7.14 NA 22.73 NA 16.67 NA NA NA NA NA NA 22.73 NA NA 33.33 13.04 22.22 NA NA 18.75 NA NA 29.41 33.33 13.64 NA NA 5.00 15.62 20.00 25.00 18.18 22.22 35.71 NA 14.29 NA 0.00 14.29 21.05 6.67 K cassette Ctr1A chrX + chrX_6555835_6559032 chrX_6555835_6556272;chrX_6556375_6559032 chrX_6556273_6556374 chrX_6555724_6555834;chrX_6559033_6559111 37.78 22.64 53.12 37.50 29.63 41.67 35.56 34.43 34.51 21.15 41.67 37.21 31.25 43.33 37.78 51.22 44.12 61.29 46.88 50.88 56.67 33.87 21.74 28.33 45.83 64.71 22.03 21.05 36.67 27.03 40.00 52.63 38.81 45.10 45.45 64.29 16.50 23.08 37.78 44.26 44.00 33.82 40.74 19.75 73.08 47.37 29.41 48.65 47.17 26.23 29.79 17.95 36.00 42.31 42.11 25.93 19.10 45.57 K alternative_donor CG9705,I_chr3L_16773492_16773604,I_chr3L_16773517_16773604,I_chr3L_16774043_16774562 chr3L + chr3L_16773521_16773604;chr3L_16773492_16773604 chr3L_16773517_16773604 chr3L_16773605_16773704;chr3L_16773417_16773491 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.17 0.00 0.00 0.00 0.00 2.56 0.00 2.00 0.00 0.00 0.00 2.82 0.00 0.00 0.00 1.89 0.00 0.00 2.13 0.00 0.00 0.00 0.85 0.00 0.00 1.96 0.00 0.00 0.00 1.92 1.32 0.00 0.00 0.00 0.00 0.00 0.00 0.83 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor Myb,RI_chrX_15752571_15753225 chrX - chrX_15751579_15751673;chrX_15751579_15751682;chrX_15751579_15751749 chrX_15751579_15751709 chrX_15749823_15751578;chrX_15751750_15751876 3.12 3.85 0.00 5.17 8.00 3.57 6.67 1.32 1.16 0.00 3.85 0.00 2.56 2.50 2.86 1.10 5.26 3.45 2.08 4.49 10.71 3.12 2.44 0.00 0.00 3.23 3.45 5.88 4.35 3.70 0.00 4.55 2.33 1.27 4.55 0.00 3.33 0.00 0.00 1.79 5.26 3.85 2.70 2.63 4.35 0.00 0.00 0.00 3.33 6.67 0.00 3.85 4.76 7.14 2.04 4.76 5.00 1.72 K jcn_only_AA fbp,I_chr2L_19762832_19763529,RI_chr2L_19763745_19764069 chr2L - chr2L_19763745_19764069;chr2L_19763498_19764069 chr2L_19762832_19764069 chr2L_19764070_19764120 26.92 NA 40.00 55.56 NA NA NA 41.67 27.27 3.45 NA 18.52 NA NA NA 24.00 NA NA 91.30 37.04 NA 16.67 NA 22.58 NA NA NA NA NA NA 13.79 NA 26.92 26.92 NA NA 22.22 NA 33.33 10.53 NA 27.59 45.45 13.33 NA 28.57 NA 41.38 37.50 36.00 17.86 NA NA 25.00 31.25 NA 22.73 16.00 N multi_cassette CG12065,CE_chrX_8469528_8477573 chrX + chrX_8478609_8481290 chrX_8478609_8478875;chrX_8478957_8479842;chrX_8479952_8480018;chrX_8480279_8481290 chrX_8478876_8478956;chrX_8479843_8479951;chrX_8480019_8480278 chrX_8478489_8478608;chrX_8481291_8481558 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 92.92 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor l(2)gl,I_chr2L_17213_21135,RI_chr2L_20021_20830,I_chr2L_20974_21065 chr2L - chr2L_20021_21065;chr2L_20021_21135 chr2L_20021_20830 chr2L_19921_20020;chr2L_21136_21145 8.85 NA NA 12.50 NA NA 12.50 11.11 6.67 NA NA 10.00 NA NA NA 0.00 NA NA 12.50 NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA 7.69 NA NA NA NA NA NA NA 10.00 0.00 14.29 NA NA NA 0.00 7.69 NA NA NA NA NA NA NA NA NA K jcn_only_AA RpS3A,I_chr4_87364_87465,I_chr4_87533_87717,I_chr4_87549_87717,I_chr4_87549_87769 chr4 - chr4_87648_87717;chr4_87549_87717 chr4_87533_87717 chr4_87718_87817;chr4_87466_87532 29.03 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 29.03 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention WASp,I_chr3R_24656400_24656715,I_chr3R_24656400_24656880,I_chr3R_24656400_24657416 chr3R - chr3R_24656400_24657416 chr3R_24656399_24656400;chr3R_24657416_24657417 chr3R_24656300_24656399;chr3R_24657417_24657516 90.84 NA NA 71.43 NA NA 100.00 NA 91.67 NA NA 100.00 NA NA NA NA NA NA NA 92.86 NA 91.67 NA NA NA NA 100.00 72.73 90.00 NA 100.00 NA 90.00 88.89 NA 100.00 NA NA NA 73.33 87.50 88.89 NA NA NA NA NA 88.89 92.86 NA 88.89 NA NA NA NA NA NA 100.00 K intron_retention drd chrX + chrX_15030524_15030594 chrX_15030523_15030524;chrX_15030594_15030595 chrX_15030375_15030523;chrX_15030595_15031278 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA 5.88 14.29 NA 0.00 NA NA NA NA NA NA NA NA NA NA NA 0.00 NA 0.00 NA NA NA NA 0.00 5.00 NA NA NA NA NA NA NA NA K intron_retention 14-3-3epsilon,I_chr3R_14068632_14073155,RI_chr3R_14074062_14074138 chr3R + chr3R_14073625_14073692 chr3R_14073624_14073625;chr3R_14073692_14073693 chr3R_14073211_14073624;chr3R_14073693_14073873 0.00 0.00 0.08 0.24 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.37 0.00 0.00 0.00 0.00 0.14 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.08 0.07 0.00 K intron_retention eIF2B-delta chr2R + chr2R_19275136_19275194 chr2R_19275135_19275136;chr2R_19275194_19275195 chr2R_19274530_19275135;chr2R_19275195_19275755 0.00 0.00 0.00 6.15 0.00 0.00 5.56 7.46 1.82 0.00 0.00 5.63 0.00 0.00 0.00 0.00 3.03 0.00 0.00 2.74 0.00 0.00 2.83 1.02 0.00 7.69 3.45 0.00 1.45 0.00 1.82 0.00 0.99 0.00 1.45 1.43 0.00 0.00 0.00 0.00 3.12 4.60 0.00 0.00 2.63 4.42 0.00 0.00 0.00 0.79 3.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention PP2A-B',RI_chr3R_13993929_13994503 chr3R + chr3R_13993590_13995205 chr3R_13993589_13993590;chr3R_13995205_13995206 chr3R_13993510_13993589;chr3R_13995206_13995270 19.05 30.77 NA 16.67 NA NA 11.76 15.15 16.67 NA NA 14.29 NA 3.85 11.76 12.24 23.08 NA 17.65 20.83 NA 26.32 46.15 15.00 23.08 13.33 NA NA 53.85 NA 5.00 NA 37.50 19.35 NA NA NA NA NA 18.18 35.71 19.35 19.23 40.91 NA NA NA 31.82 13.51 NA 19.05 14.29 NA NA 18.52 NA 25.00 50.00 K intron_retention rho-7,noncoding_6143 chr2R - chr2R_7876069_7876123 chr2R_7876068_7876069;chr2R_7876123_7876124 chr2R_7876008_7876068;chr2R_7876124_7876254 56.44 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 54.55 NA NA NA NA NA NA 58.33 NA 6.25 NA NA NA NA 70.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG4686 chr3R + chr3R_15690648_15690710 chr3R_15690647_15690648;chr3R_15690710_15690711 chr3R_15690125_15690647;chr3R_15690711_15691019 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.21 0.00 0.00 0.00 4.00 0.00 0.00 0.00 1.72 0.00 0.00 0.00 0.00 0.00 0.00 1.48 1.49 0.00 0.00 0.00 0.00 1.19 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.02 0.00 0.00 0.00 2.20 1.40 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Uch,CG10880 chr2L - chr2L_2213959_2214027 chr2L_2213958_2213959;chr2L_2214027_2214028 chr2L_2213896_2213958;chr2L_2214028_2214049 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.28 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.33 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.77 100.00 100.00 96.30 100.00 100.00 K jcn_only_AA CG17514 chr2RHet + chr2RHet_2775916_2775978 chr2RHet_2775916_2775968 chr2RHet_2775909_2775915;chr2RHet_2775979_2776071 93.06 NA 94.59 91.04 NA 96.15 91.36 93.06 89.19 NA NA 93.33 93.48 95.74 100.00 95.52 96.30 82.61 92.16 91.30 NA NA NA NA NA 90.48 NA NA NA NA 94.74 NA NA 93.44 NA NA NA NA NA 90.48 NA 91.18 93.55 NA NA NA NA NA 90.91 NA NA NA NA NA 92.11 NA NA NA K jcn_only_AA I_chr4_913576_919018,I_chr4_924098_927699,RI_chr4_927233_927699,RI_chr4_927771_929704,CG32021,RI_chr4_928180_928245,RI_chr4_928193_928245,I_chr4_928482_929704,noncoding_20815,I_chr4_929811_932812 chr4 - chr4_928482_929704;chr4_928551_929704 chr4_927771_929704 chr4_929705_929804;chr4_927741_927770 12.86 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 5.71 NA NA NA NA NA NA NA NA NA NA 20.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention shtd chrX - chrX_15351477_15351535 chrX_15351476_15351477;chrX_15351535_15351536 chrX_15351042_15351476;chrX_15351536_15353580 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 9.09 4.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.50 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette B4,REI_chr2L_13509793_13534906,EI_chr2L_13513471_13534906,I_chr2L_13513474_13549131,I_chr2L_13547304_13549131 chr2L - chr2L_13513474_13549131 chr2L_13513474_13534906;chr2L_13535027_13549131 chr2L_13534907_13535026 chr2L_13513374_13513473;chr2L_13549132_13549231 90.91 100.00 NA 100.00 100.00 85.71 83.33 100.00 92.31 NA NA 100.00 100.00 100.00 85.71 90.00 100.00 100.00 100.00 92.31 NA 80.00 88.89 100.00 85.71 NA 90.00 90.91 85.71 71.43 85.71 80.00 39.13 90.91 NA 100.00 100.00 NA 92.31 100.00 NA 100.00 87.50 100.00 83.33 88.89 88.89 66.67 90.91 90.00 100.00 100.00 100.00 83.33 83.33 100.00 90.00 77.78 K cassette scarface,I_chr2R_1568023_1575180 chr2R - chr2R_1568023_1575180 chr2R_1568023_1572308;chr2R_1572483_1575180 chr2R_1572309_1572482 chr2R_1567923_1568022;chr2R_1575181_1575280 100.00 98.89 100.00 96.48 100.00 98.36 100.00 98.65 99.31 100.00 100.00 99.25 100.00 98.39 98.48 100.00 97.87 98.46 100.00 99.31 100.00 99.47 100.00 99.16 98.70 100.00 97.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.63 99.37 99.02 99.27 100.00 95.00 99.28 100.00 99.25 100.00 99.03 100.00 99.12 100.00 100.00 100.00 98.68 98.33 100.00 100.00 100.00 98.46 98.31 N jcn_only_AD CG8531,RI_chr2R_10144869_10144912 chr2R + chr2R_10145138_10145276;chr2R_10145070_10145276 chr2R_10145224_10145276 chr2R_10145277_10145393;chr2R_10144926_10145069 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.16 90.79 100.00 100.00 95.18 100.00 100.00 100.00 92.45 100.00 100.00 100.00 95.69 100.00 76.79 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 71.24 100.00 100.00 94.30 100.00 100.00 100.00 87.88 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 93.04 82.17 83.33 100.00 100.00 100.00 100.00 100.00 100.00 100.00 N cassette crol,I_chr2L_11799403_11802904 chr2L - chr2L_11800323_11803784 chr2L_11800323_11802904;chr2L_11803675_11803784 chr2L_11802905_11803674 chr2L_11800155_11800322;chr2L_11803785_11803898 100.00 100.00 100.00 95.70 100.00 100.00 100.00 96.20 97.98 100.00 100.00 100.00 100.00 100.00 94.77 100.00 100.00 100.00 100.00 97.08 100.00 97.21 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.70 96.91 97.49 98.03 100.00 100.00 97.50 100.00 100.00 100.00 100.00 100.00 95.48 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_donor CG12746,I_chr3R_1391015_1391809,I_chr3R_1391178_1391809,I_chr3R_1391690_1391809,Rheb chr3R + chr3R_1390705_1391809 chr3R_1390747_1391809 chr3R_1391810_1391909;chr3R_1390681_1390704 80.35 NA NA NA NA NA NA 85.71 75.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention sec8 chr3R - chr3R_1582991_1583060 chr3R_1582990_1582991;chr3R_1583060_1583061 chr3R_1582866_1582990;chr3R_1583061_1583811 0.00 1.89 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.90 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.14 0.00 0.00 0.00 0.00 0.00 0.00 3.03 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.94 0.00 0.00 0.00 0.00 0.00 0.00 2.67 0.00 0.00 0.00 0.00 0.00 0.00 1.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor CG3632,RI_chrX_16195880_16196242 chrX + chrX_16190824_16191693;chrX_16190917_16191693 chrX_16190941_16191693 chrX_16191694_16191751;chrX_16190763_16190823 33.81 23.08 14.29 22.22 40.00 25.00 34.38 32.43 35.00 NA 18.18 21.21 37.50 20.00 23.81 27.78 33.33 35.71 31.58 34.29 30.77 41.67 27.27 40.00 38.46 35.71 35.71 41.67 42.86 50.00 27.27 42.86 28.57 39.39 42.86 30.00 17.65 33.33 33.33 30.77 NA 28.95 28.57 38.46 50.00 58.33 30.00 38.46 36.36 42.86 31.58 12.50 50.00 NA 36.84 18.18 38.46 58.33 K intron_retention CG14778 chrX + chrX_1364131_1364189 chrX_1364130_1364131;chrX_1364189_1364190 chrX_1364048_1364130;chrX_1364190_1364372 77.78 NA NA NA NA NA NA NA NA NA NA 88.89 NA NA NA NA NA NA NA 69.23 NA NA NA NA NA NA NA NA NA NA 77.78 NA NA NA NA NA 80.00 NA NA NA NA 63.64 NA NA 64.29 87.50 NA 72.73 NA NA NA NA NA NA NA NA NA 87.50 K intron_retention Ptp99A,I_chr3R_25302126_25302175 chr3R + chr3R_25302126_25307188 chr3R_25302125_25302126;chr3R_25307188_25307189 chr3R_25302026_25302125;chr3R_25307189_25307478 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention fw chrX - chrX_11888764_11888847 chrX_11888763_11888764;chrX_11888847_11888848 chrX_11888724_11888763;chrX_11888848_11888960 50.00 60.00 NA NA NA NA NA NA 45.00 NA NA 40.00 NA NA NA NA NA NA NA 46.15 NA 9.52 60.00 55.56 NA NA 50.00 NA NA NA 73.33 NA NA NA NA 28.57 50.00 NA 33.33 47.06 NA 50.00 NA 52.94 72.73 63.64 46.67 NA 50.00 46.67 50.00 60.00 76.47 50.00 60.00 50.00 58.82 NA K jcn_only_AD MED1 chr3L - chr3L_21623014_21624037 chr3L_21623014_21624032 chr3L_21621425_21623013;chr3L_21624038_21625939 100.00 100.00 NA NA NA NA NA NA 100.00 100.00 NA 96.00 NA NA NA NA NA NA NA 96.15 NA 100.00 100.00 100.00 NA NA 100.00 NA 100.00 100.00 NA 100.00 97.53 NA 96.15 100.00 96.97 100.00 100.00 100.00 100.00 NA NA 100.00 98.44 98.18 100.00 98.86 96.00 NA 100.00 NA 100.00 100.00 NA 100.00 100.00 100.00 K alternative_donor woc,I_chr3R_23089174_23089688,I_chr3R_23089174_23089695,I_chr3R_23096096_23096561 chr3R - chr3R_23089174_23089688;chr3R_23089174_23089498 chr3R_23089174_23089695 chr3R_23089074_23089173;chr3R_23089696_23089772 1.52 1.79 1.35 2.80 1.61 2.04 3.16 0.88 2.35 0.00 1.72 0.68 1.47 0.00 1.19 0.93 1.75 4.76 2.53 2.87 1.61 13.95 2.44 1.56 0.00 1.52 0.00 0.00 0.00 0.00 1.08 0.00 0.00 1.69 2.27 0.00 1.64 4.26 1.54 0.84 2.63 1.43 0.00 1.56 2.44 2.63 0.00 2.91 0.68 0.00 0.00 0.00 0.00 0.00 4.35 0.00 3.12 1.92 K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2387249_2393243 chrX_2387249_2389073;chrX_2389272_2389644;chrX_2389762_2392054;chrX_2392149_2392515;chrX_2392665_2393243 chrX_2389074_2389271;chrX_2389645_2389761;chrX_2392055_2392148;chrX_2392516_2392664 chrX_2387149_2387248;chrX_2393244_2393291 0.00 NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG17490 chr2L + chr2L_22431301_22432684 chr2L_22431300_22431301;chr2L_22432684_22432685 chr2L_22431022_22431300;chr2L_22432685_22433056 90.00 82.14 94.12 91.18 94.12 86.21 100.00 84.21 88.41 88.89 55.00 91.30 96.00 87.88 95.83 98.88 96.43 92.31 92.50 84.00 78.95 95.45 81.82 91.67 90.91 78.95 95.00 91.67 94.44 66.67 81.82 92.31 76.19 91.07 95.65 83.33 93.75 73.33 85.71 89.47 90.00 83.33 81.25 80.00 95.00 85.00 96.15 80.95 90.00 95.00 96.15 80.95 94.74 93.33 88.24 82.61 83.87 73.17 K alternative_donor RpL10Ab,snoRNA:Psi18S-920 chr3L + chr3L_11815991_11816299 chr3L_11816042_11816299 chr3L_11816300_11816370;chr3L_11815955_11815990 0.00 0.00 0.00 0.00 0.00 0.00 0.16 0.07 0.00 0.00 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.05 0.00 0.14 0.00 0.00 0.00 0.00 NA 0.00 0.08 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.07 0.00 0.00 0.04 0.00 0.00 0.00 0.07 0.00 1.61 0.00 0.00 NA 0.00 0.00 0.00 0.03 K alternative_acceptor Zyx102EF,I_chr4_1080463_1081366,REF_chr4_1081261_1081452,F_chr4_1081280_1081398,F_chr4_1081280_1081452 chr4 - chr4_1081280_1081366;chr4_1081261_1081366 chr4_1081286_1081366 chr4_1081367_1081379;chr4_1081180_1081260 21.05 NA NA 16.67 NA NA 21.05 20.00 25.93 NA NA 28.57 8.33 NA NA 28.57 NA NA 25.00 18.75 NA NA NA NA NA NA NA NA NA NA 15.38 NA NA 23.53 NA NA NA NA NA NA NA 20.00 NA NA NA NA NA NA 25.00 NA NA NA NA NA NA NA NA NA K mutually_exclusive vib,RI_chr3R_15051793_15052186 chr3R - chr3R_15044234_15044690,chr3R_15044769_15044910 chr3R_15044234_15044405,chr3R_15044487_15044910 chr3R_15044691_15044768 chr3R_15044406_15044486 chr3R_15044124_15044233;chr3R_15044911_15045062 2.88 1.98 2.17 1.54 4.41 2.94 2.88 3.97 3.33 0.00 0.00 2.19 10.94 5.63 2.86 2.54 4.05 4.76 2.33 3.43 1.30 5.41 3.65 3.97 4.11 0.00 4.42 9.09 7.55 2.60 2.56 3.64 1.85 1.71 6.67 5.06 3.79 2.15 1.75 2.99 4.76 2.84 1.61 3.19 4.88 1.72 0.72 6.58 1.95 2.02 2.80 4.82 0.00 3.81 2.73 3.64 0.58 2.15 K multi_cassette CG1674,F_chr4_258186_259747,R_chr4_261460_261560,I_chr4_263840_263891,I_chr4_264634_265805 chr4 + chr4_261460_265805 chr4_261460_263086;chr4_263306_263795;chr4_264212_264259;chr4_264375_265805 chr4_263087_263305;chr4_263796_264211;chr4_264260_264374 chr4_261360_261459;chr4_265806_265905 100.00 100.00 100.00 100.00 93.33 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.30 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AA CG15514 chr3R - chr3R_25686337_25686428 chr3R_25686358_25686428 chr3R_25686429_25687281;chr3R_25685755_25686336 50.57 57.26 44.63 63.04 54.13 61.48 67.55 44.87 47.85 50.57 51.40 55.85 50.88 44.76 52.99 49.63 58.02 52.50 57.00 49.75 50.00 70.59 46.32 47.33 45.68 67.18 47.10 41.56 53.98 50.00 42.98 43.30 42.97 45.34 54.72 70.59 41.57 58.18 41.88 57.96 56.60 52.94 50.00 50.00 44.85 49.33 48.06 50.00 41.85 47.25 52.82 53.49 59.22 52.59 55.91 54.27 50.30 65.00 K intron_retention Arp66B chr3L - chr3L_8107152_8107212 chr3L_8107151_8107152;chr3L_8107212_8107213 chr3L_8106588_8107151;chr3L_8107213_8107296 0.00 0.00 0.47 0.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.66 0.00 0.00 1.03 0.45 0.00 0.00 0.00 0.00 0.00 0.00 0.52 0.00 0.00 0.00 0.00 0.00 0.80 0.00 0.00 0.00 0.00 0.00 0.00 0.56 0.00 0.32 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA CG32306,I_chr3L_2436229_2459590,I_chr3L_2439831_2459590 chr3L + chr3L_2436229_2439576 chr3L_2436229_2439498 chr3L_2436209_2436228;chr3L_2439577_2439583 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.57 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.47 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG17159,CG17162,noncoding_25215 chrXHet - chrXHet_66049_66121 chrXHet_66048_66049;chrXHet_66121_66122 chrXHet_64549_66048;chrXHet_66122_66324 73.17 77.55 63.46 91.67 63.16 78.38 73.61 73.26 68.10 67.57 73.53 60.00 71.88 72.73 68.33 79.73 69.23 73.17 74.07 71.30 75.76 72.22 80.30 64.41 75.00 81.03 91.67 91.30 88.57 64.58 60.00 65.62 66.67 69.74 65.12 76.47 78.57 62.96 75.00 64.71 76.92 77.78 67.44 74.55 87.88 64.15 73.68 67.82 71.60 81.25 77.55 74.47 71.79 80.00 67.19 71.11 90.00 62.50 K jcn_only_AD CG3884,I_chr2R_8837592_8837657 chr2R - chr2R_8837592_8839677 chr2R_8837592_8837657 chr2R_8837492_8837591;chr2R_8839678_8839836 1.68 2.94 3.12 1.52 8.70 2.17 0.00 0.00 1.37 6.90 0.00 17.39 NA 0.00 0.00 0.00 4.35 3.45 0.00 1.11 2.94 0.00 0.00 2.13 2.13 0.00 2.00 3.85 0.00 0.00 1.75 0.00 NA 3.85 0.00 0.00 4.55 0.00 0.00 1.67 NA 1.69 4.17 3.28 2.94 3.12 3.70 0.00 0.00 0.00 0.00 0.00 8.57 8.33 1.89 3.12 0.00 4.00 K intron_retention CG4589,I_chr2R_20402394_20402706 chr2R - chr2R_20398317_20398376 chr2R_20398316_20398317;chr2R_20398376_20398377 chr2R_20398020_20398316;chr2R_20398377_20400694 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.01 0.85 0.00 3.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.31 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette pho,RI_chr4_1193657_1194431,I_chr4_1193830_1194784,EI_chr4_1193830_1195360,RI_chr4_1193830_1195384,I_chr4_1193830_1201673 chr4 - chr4_1193830_1194784 chr4_1193830_1194431;chr4_1194724_1194784 chr4_1194432_1194723 chr4_1193730_1193829;chr4_1194785_1194884 96.59 96.77 95.24 92.75 96.15 93.10 94.52 96.59 95.24 100.00 96.00 96.72 97.92 95.45 100.00 97.75 97.44 100.00 95.24 90.28 95.24 100.00 95.00 100.00 94.44 89.47 97.14 100.00 78.95 100.00 97.83 94.74 94.44 95.18 95.83 95.45 100.00 100.00 100.00 89.74 95.65 94.87 97.67 97.06 95.65 100.00 100.00 92.86 98.95 97.37 100.00 93.75 100.00 95.65 95.65 100.00 97.50 97.56 K alternative_donor lgs,RI_chr4_463390_463489 chr4 - chr4_459792_460088 chr4_459792_460073 chr4_459601_459791;chr4_460089_462077 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 94.74 91.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 NA 100.00 100.00 NA 100.00 100.00 100.00 100.00 94.74 NA 97.14 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 92.31 100.00 K alternative_acceptor CG8177,E_chr3L_9756800_9772650,RI_chr3L_9757294_9758708,I_chr3L_9773534_9773635,I_chr3L_9774319_9774602 chr3L + chr3L_9757294_9764754 chr3L_9757294_9758708 chr3L_9757194_9757293;chr3L_9764755_9765019 0.00 0.00 0.00 2.08 0.00 0.00 0.00 2.44 1.49 0.00 0.00 2.70 0.00 0.00 0.00 2.56 0.00 0.00 0.00 2.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 7.14 0.00 0.00 0.00 0.00 0.00 2.27 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA NA 0.00 K intron_retention CG9577,CG9578 chrX + chrX_20061153_20061223 chrX_20061152_20061153;chrX_20061223_20061224 chrX_20060990_20061152;chrX_20061224_20061848 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.04 0.00 0.00 0.00 0.00 0.00 2.63 5.08 2.47 5.13 0.00 3.57 8.57 5.41 0.00 6.12 0.00 4.44 0.00 0.00 0.00 2.78 4.62 1.43 2.88 6.45 0.00 0.00 0.00 0.00 1.20 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.35 3.77 K alternative_last_exon noncoding_21282,RI_chrX_941459_976499,I_chrX_941459_982652,CG14629 chrX + chrX_941459_982652 chrX_941459_982554 chrX_982653_982899 chrX_982555_982604 chrX_941359_941458 69.23 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 69.23 K intron_retention CG18317,RI_chr2L_1718492_1723881,I_chr2L_1718904_1718995,RI_chr2L_1718904_1724234 chr2L - chr2L_1718904_1723881 chr2L_1718903_1718904;chr2L_1723881_1723882 chr2L_1718804_1718903;chr2L_1723882_1723981 0.00 2.27 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 4.35 0.00 NA 0.00 NA 0.00 0.00 0.00 1.75 0.00 3.57 2.70 0.00 0.00 0.00 0.00 0.00 6.25 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.55 0.00 0.00 0.00 K jcn_only_AD CG5608 chr3R - chr3R_8288525_8288579 chr3R_8288525_8288577 chr3R_8288136_8288524;chr3R_8288580_8288820 97.94 100.00 100.00 96.97 NA NA 96.15 97.62 95.65 NA NA 100.00 NA NA 95.65 94.87 100.00 100.00 100.00 95.35 91.67 100.00 100.00 100.00 NA 100.00 98.00 NA NA NA 100.00 NA NA 97.73 96.00 100.00 NA 100.00 100.00 100.00 NA 97.62 100.00 100.00 100.00 95.83 97.67 NA 96.88 96.97 97.50 95.65 NA 95.56 97.06 97.87 100.00 NA K alternative_acceptor SWAP,RI_chrX_936466_936762,I_chrX_936466_936835,RI_chrX_938935_938985,I_chrX_941459_982652 chrX + chrX_936466_936835;chrX_936466_936966 chrX_936466_936762 chrX_936366_936465;chrX_936967_937018 50.00 66.67 66.67 40.00 33.33 28.57 41.18 62.50 59.09 33.33 NA 50.00 57.14 42.86 50.00 NA 62.50 33.33 70.00 40.00 NA 50.00 42.86 33.33 NA NA 50.00 NA 33.33 40.00 45.45 75.00 42.86 57.14 50.00 NA 33.33 80.00 50.00 37.50 11.11 55.56 NA 83.33 60.00 44.44 60.00 50.00 50.00 54.55 38.46 75.00 100.00 50.00 60.00 14.29 60.00 44.44 K intron_retention CG4896,REI_chr2L_1179197_1179859,I_chr2L_1191535_1191648 chr2L + chr2L_1179197_1179859 chr2L_1179196_1179197;chr2L_1179859_1179860 chr2L_1179127_1179196;chr2L_1179860_1179937 34.31 NA NA 5.56 NA NA NA 42.11 41.18 NA NA 43.75 NA NA NA NA NA NA NA 35.71 NA NA 30.77 13.33 NA NA NA NA NA NA 16.67 NA NA 33.33 NA 9.09 17.39 NA NA 40.00 NA 37.50 NA NA NA NA 50.00 28.57 27.27 NA 35.29 NA NA NA 38.46 NA NA NA K alternative_donor CG12162,I_chr3R_1293876_1293924,I_chr3R_1294319_1294410 chr3R + chr3R_1293872_1293924 chr3R_1293876_1293924 chr3R_1293925_1294024;chr3R_1293776_1293871 0.00 1.96 6.67 2.94 0.00 0.00 0.00 4.44 0.00 0.00 0.00 1.59 NA 0.00 0.00 0.00 0.00 0.00 0.00 4.29 0.00 3.03 2.67 2.38 0.00 0.00 0.00 0.00 3.57 0.00 0.00 0.00 3.37 0.00 0.00 3.33 0.00 1.27 1.23 0.97 3.92 1.43 NA 0.00 0.00 1.03 0.00 1.54 1.69 1.85 0.00 0.00 0.00 1.64 0.00 1.59 0.00 1.39 K intron_retention Bsg,I_chr2L_8088454_8089057,I_chr2L_8107426_8107747 chr2L + chr2L_8089737_8105691 chr2L_8089736_8089737;chr2L_8105691_8105692 chr2L_8089558_8089736;chr2L_8105692_8105782 0.00 0.00 0.00 0.00 0.32 0.00 0.25 0.32 0.19 0.00 0.00 0.51 0.00 0.00 0.00 0.48 0.38 0.00 0.00 0.37 0.00 0.00 0.39 0.00 0.00 0.23 0.23 0.00 0.00 0.00 0.00 0.00 0.00 0.32 0.00 0.00 0.00 0.00 0.00 0.20 0.00 0.12 0.00 0.41 0.00 0.00 0.00 0.00 0.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor ifc,I_chr2L_5986893_5987347,RI_chr2L_5987175_5987347,noncoding_1271 chr2L + chr2L_5986893_5987615 chr2L_5986893_5987347 chr2L_5986793_5986892;chr2L_5987616_5987779 4.23 5.29 2.53 4.31 2.00 2.63 4.36 3.67 4.59 5.56 3.68 3.91 6.87 3.49 3.91 6.47 3.31 5.10 5.28 4.68 4.23 4.07 5.31 4.04 5.37 1.33 4.41 8.79 3.51 5.38 4.33 5.94 4.83 4.37 3.59 4.51 3.67 3.83 2.65 4.15 4.29 3.49 4.07 5.26 3.70 4.76 3.09 6.93 4.26 4.96 3.17 5.19 2.15 2.86 2.88 4.23 2.87 4.49 K intron_retention ham chr2L - chr2L_18769192_18771252 chr2L_18769191_18769192;chr2L_18771252_18771253 chr2L_18769035_18769191;chr2L_18771253_18771397 0.00 0.00 0.00 0.00 0.00 2.70 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 NA 0.00 0.00 K intron_retention Vha100-1,I_chr3R_24958227_24960770,I_chr3R_24959804_24960770,CE_chr3R_24962426_24962797 chr3R + chr3R_24960321_24960770 chr3R_24960320_24960321;chr3R_24960770_24960771 chr3R_24960279_24960320;chr3R_24960771_24960870 25.00 NA NA 20.00 NA NA NA 7.14 38.46 NA NA 14.29 NA NA NA NA NA NA NA 20.00 NA 50.00 30.43 21.43 28.57 NA NA NA NA NA NA NA NA NA NA 16.67 25.00 NA 33.33 NA NA 25.00 NA NA 20.00 NA NA NA NA NA 38.46 NA NA NA NA NA NA NA K intron_retention ens,I_chr3L_4130719_4131120 chr3L - chr3L_4127163_4128307 chr3L_4127162_4127163;chr3L_4128307_4128308 chr3L_4126989_4127162;chr3L_4128308_4128373 39.02 NA NA NA NA NA NA NA NA NA NA 27.50 NA NA NA NA NA NA NA 12.50 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 41.67 NA NA NA NA NA NA NA 46.67 41.67 NA 36.36 NA NA NA NA NA NA NA K alternative_donor HP4,I_chr3L_7968788_7968857 chr3L - chr3L_7968788_7968861 chr3L_7968788_7968857 chr3L_7968688_7968787;chr3L_7968862_7968957 0.00 0.54 0.62 0.39 0.00 0.00 1.09 0.00 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.51 0.72 0.00 0.00 0.00 0.00 0.31 0.00 0.00 0.00 0.00 0.64 0.00 0.00 0.37 0.00 0.00 0.00 0.39 0.00 0.47 0.00 0.45 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.36 K alternative_last_exon CG33691_CG33692,CG33691,noncoding_22320 chrX + chrX_6766955_6771946 chrX_6766955_6768354 chrX_6771947_6772516 chrX_6768355_6768589 chrX_6766749_6766954 22.73 18.57 22.95 21.79 18.18 21.43 17.46 31.58 25.00 13.11 45.00 21.10 21.95 28.57 22.95 35.59 26.53 34.92 30.51 22.05 33.96 7.35 17.65 15.91 8.70 15.38 14.29 13.83 19.28 15.12 18.87 34.62 25.77 24.49 21.43 7.59 9.72 12.77 10.26 29.57 25.58 21.21 28.89 23.33 23.73 36.11 22.73 24.51 20.95 38.03 14.85 17.54 25.58 26.67 23.38 26.23 34.09 39.51 K intron_retention Pk61C chr3L + chr3L_142880_142942 chr3L_142879_142880;chr3L_142942_142943 chr3L_141895_142879;chr3L_142943_143217 0.00 0.00 0.00 1.30 0.00 0.00 0.00 1.19 0.00 0.00 0.00 1.61 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.98 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD DMAP1,I_chr2R_16531774_16531833,I_chr2R_16532870_16532932 chr2R + chr2R_16532870_16532932 chr2R_16532874_16532932 chr2R_16532933_16533032;chr2R_16532770_16532869 98.55 98.11 97.92 98.44 98.00 100.00 97.78 100.00 100.00 100.00 100.00 97.62 100.00 97.14 97.83 95.00 100.00 95.24 97.73 98.51 100.00 100.00 98.77 98.65 100.00 97.67 95.59 98.21 100.00 97.83 94.74 100.00 98.48 100.00 100.00 97.22 95.08 100.00 100.00 95.59 98.28 94.94 94.12 97.06 98.44 98.63 98.81 100.00 100.00 98.94 98.53 100.00 96.55 100.00 100.00 98.55 100.00 100.00 K jcn_only_AD CG1275,I_chr3L_2261108_2261339 chr3L - chr3L_2253272_2253328 chr3L_2253272_2253324 chr3L_2252785_2253271;chr3L_2253329_2253692 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.10 0.00 0.00 0.29 0.00 0.00 0.00 0.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.10 K alternative_donor larp,F_chr3R_24151542_24153876,I_chr3R_24160430_24160932,I_chr3R_24160430_24160971,RI_chr3R_24160430_24161527 chr3R - chr3R_24160430_24160932;chr3R_24160430_24160971;chr3R_24160430_24160975;chr3R_24160430_24160979;chr3R_24160430_24161939;chr3R_24160430_24161527 chr3R_24160430_24161729 chr3R_24160330_24160429;chr3R_24161940_24162125 73.00 78.21 72.83 80.69 73.33 72.97 79.08 81.98 78.34 69.44 75.41 76.14 78.95 79.78 73.86 74.17 79.49 77.38 77.17 75.62 75.00 70.30 69.30 68.69 66.67 74.32 74.23 81.20 48.00 69.62 75.00 68.97 73.03 78.12 71.21 65.79 66.32 65.22 73.00 64.34 73.08 73.63 78.12 63.01 59.09 65.00 77.94 59.50 70.25 71.88 65.69 68.00 63.33 72.73 75.96 71.74 72.34 58.76 K jcn_only_AA SelR,I_chr3R_6692390_6692530,I_chr3R_6692461_6692530,I_chr3R_6694098_6694160 chr3R - chr3R_6692416_6692530 chr3R_6692461_6692530 chr3R_6692531_6692630;chr3R_6692361_6692415 0.00 1.14 0.00 0.00 2.38 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.06 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.97 0.00 0.00 0.00 0.00 0.00 0.00 3.16 6.35 0.00 0.00 0.00 2.56 1.28 0.00 0.00 0.74 0.00 1.18 0.00 0.00 2.08 0.00 1.79 0.00 1.12 1.08 0.98 0.00 0.00 0.00 0.00 0.00 0.84 0.00 0.54 K intron_retention CG17119,sav chr3R - chr3R_18881861_18881920 chr3R_18881860_18881861;chr3R_18881920_18881921 chr3R_18881764_18881860;chr3R_18881921_18882048 1.12 0.00 2.73 1.16 0.00 0.00 0.00 0.66 0.77 0.00 0.00 1.12 0.00 0.00 1.83 0.79 1.06 0.00 0.00 0.00 0.00 4.12 1.55 1.28 0.00 0.85 5.07 14.29 7.46 1.19 1.54 2.70 1.96 0.00 1.61 2.70 1.05 1.75 2.41 2.16 3.03 0.00 0.00 1.42 0.00 2.33 0.93 2.80 0.51 3.05 2.26 0.00 0.00 2.41 0.80 1.60 1.30 1.99 K intron_retention CG6621 chr3R - chr3R_6718574_6718636 chr3R_6718573_6718574;chr3R_6718636_6718637 chr3R_6718362_6718573;chr3R_6718637_6719133 0.00 0.00 0.00 0.00 NA 0.00 4.55 0.00 3.85 NA NA 0.00 NA NA 0.00 0.00 NA NA NA 0.00 NA 0.00 0.00 0.00 NA 0.00 4.00 21.74 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 NA 0.00 0.00 0.00 2.63 NA 0.00 NA NA NA 0.00 0.00 0.00 0.00 K intron_retention CG7830 chr2L - chr2L_8307874_8307982 chr2L_8307873_8307874;chr2L_8307982_8307983 chr2L_8307147_8307873;chr2L_8307983_8308265 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.45 1.03 0.00 0.00 0.00 0.00 0.00 0.00 1.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.53 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.67 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention tnc,beta4GalT7,Hr96 chr3R + chr3R_20849189_20849249 chr3R_20849188_20849189;chr3R_20849249_20849250 chr3R_20848918_20849188;chr3R_20849250_20849871 6.06 0.00 0.00 6.90 5.88 0.00 3.33 0.00 12.20 5.56 0.00 2.63 9.09 NA 8.33 12.00 0.00 0.00 NA 11.76 0.00 15.38 9.76 7.84 9.68 14.29 5.56 8.33 8.00 8.00 19.23 5.26 8.16 4.55 7.41 6.25 3.64 6.67 3.70 6.94 7.69 4.44 NA 1.59 1.64 6.45 8.89 2.70 0.00 15.15 3.57 13.79 0.00 10.00 7.41 5.17 0.00 3.12 K intron_retention jagn chr3R + chr3R_1605895_1605956 chr3R_1605894_1605895;chr3R_1605956_1605957 chr3R_1605522_1605894;chr3R_1605957_1606289 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG7188 chr3L - chr3L_8301646_8301795 chr3L_8301645_8301646;chr3L_8301795_8301796 chr3L_8301192_8301645;chr3L_8301796_8302038 0.00 0.00 0.00 1.49 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.90 0.00 0.00 0.00 1.69 0.00 0.36 0.00 0.00 0.29 1.79 0.00 0.00 0.85 0.00 0.00 0.28 0.00 0.00 0.00 0.93 0.57 0.00 0.00 0.21 0.00 0.00 0.00 0.00 0.00 0.00 0.72 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD bowl,RI_chr2L_3772695_3773616 chr2L + chr2L_3771874_3772460;chr2L_3771755_3772460 chr2L_3771785_3772460 chr2L_3772461_3772694;chr2L_3771707_3771754 76.67 NA NA NA NA NA 70.83 68.18 76.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 78.57 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 90.48 NA NA NA K cassette CG31145,I_chr3R_19444761_19448092,I_chr3R_19452259_19452318 chr3R - chr3R_19442045_19452318 chr3R_19442045_19448092;chr3R_19448372_19452318 chr3R_19448093_19448371 chr3R_19441993_19442044;chr3R_19452319_19452369 100.00 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA K alternative_acceptor RpS3A,I_chr4_87364_87465,I_chr4_87533_87717,I_chr4_87549_87717,I_chr4_87549_87769 chr4 - chr4_87533_87769 chr4_87549_87769 chr4_87770_87817;chr4_87466_87532 99.94 99.95 99.95 99.91 99.88 99.94 99.93 99.92 99.91 100.00 99.95 99.95 99.96 100.00 99.96 99.88 100.00 99.93 99.93 99.84 99.94 99.90 99.94 99.94 99.92 99.96 100.00 99.92 100.00 99.71 99.96 99.55 99.86 99.93 99.91 100.00 100.00 99.91 99.94 99.87 100.00 99.98 99.95 100.00 99.49 99.85 99.90 99.66 99.97 99.87 100.00 100.00 99.93 100.00 99.90 100.00 99.92 99.30 K intron_retention Arf51F,I_chr2R_11210733_11210953 chr2R + chr2R_11210218_11210953 chr2R_11210217_11210218;chr2R_11210953_11210954 chr2R_11209979_11210217;chr2R_11210954_11211053 57.75 55.56 57.75 48.42 58.70 59.68 65.43 42.42 58.47 64.44 52.00 75.73 58.33 56.45 60.24 55.22 59.32 69.01 56.92 56.20 58.90 55.56 67.95 69.70 70.59 67.11 71.79 55.32 57.14 59.42 58.46 52.38 40.91 56.52 56.25 78.38 79.31 71.43 65.67 40.68 41.89 56.69 53.85 59.65 56.63 37.17 56.45 37.07 58.93 65.38 55.56 65.31 52.08 50.88 54.55 67.86 59.02 33.92 K alternative_acceptor rho-7,noncoding_6143 chr2R - chr2R_7876063_7876127 chr2R_7876069_7876127 chr2R_7876128_7876254;chr2R_7876008_7876062 100.00 94.12 93.75 NA NA 100.00 100.00 100.00 100.00 100.00 100.00 95.24 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 93.75 100.00 100.00 100.00 100.00 100.00 100.00 93.75 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 94.74 100.00 100.00 100.00 100.00 95.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.83 K intron_retention CG10737 chr2R + chr2R_15064249_15064445 chr2R_15064248_15064249;chr2R_15064445_15064446 chr2R_15064096_15064248;chr2R_15064446_15064451 24.24 NA NA 19.05 NA NA NA 42.86 37.50 NA NA 24.24 0.00 NA NA NA NA NA NA 10.53 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA 25.00 NA 28.57 NA NA NA 12.50 NA NA 25.00 NA NA NA NA NA NA NA NA NA N jcn_only_AA CG14253 chr3R + chr3R_22807474_22809684 chr3R_22807474_22807525 chr3R_22807374_22807473;chr3R_22809685_22809939 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.02 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.62 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG17549,R_chr2L_19388305_19388473,RI_chr2L_19388570_19389427,I_chr2L_19388570_19389922 chr2L - chr2L_19388570_19389427;chr2L_19388570_19389926;chr2L_19388570_19389935 chr2L_19388570_19389764 chr2L_19388474_19388569;chr2L_19389936_19390022 33.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 33.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA N jcn_only_AA Tsp42Ed chr2R - chr2R_2897806_2897936 chr2R_2897868_2897936 chr2R_2897937_2898098;chr2R_2897608_2897805 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.93 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD slik,I_chr2R_20286707_20287372,REI_chr2R_20287415_20287722,I_chr2R_20288968_20289185,RI_chr2R_20289332_20289739,I_chr2R_20289332_20289846,I_chr2R_20289332_20290093 chr2R - chr2R_20289332_20289739;chr2R_20289332_20290093;chr2R_20289332_20289846 chr2R_20289332_20290083 chr2R_20289232_20289331;chr2R_20290094_20290193 90.00 NA NA 63.89 NA 95.83 90.24 82.93 79.41 NA NA 87.50 86.67 81.58 73.33 90.62 84.21 83.33 73.17 91.49 91.67 74.19 93.75 85.71 NA 88.24 100.00 95.65 NA 94.44 93.02 NA 86.96 90.00 96.55 100.00 95.45 NA NA 85.71 NA 83.33 85.19 80.95 NA 90.32 90.48 93.88 92.73 NA 94.87 93.75 86.36 NA 84.38 NA NA 90.32 K intron_retention PNUTS,I_chr2L_870553_871317 chr2L + chr2L_871275_871340 chr2L_871274_871275;chr2L_871340_871341 chr2L_871122_871274;chr2L_871341_871417 4.44 NA 0.00 0.00 NA NA 15.38 3.23 4.44 NA NA 0.00 11.11 8.70 NA 15.38 NA NA 8.70 0.00 NA NA 3.57 0.00 25.00 NA 28.57 6.67 14.29 6.67 NA NA NA 16.13 NA 26.67 0.00 0.00 0.00 7.69 NA 3.85 NA 0.00 NA NA NA NA 7.14 0.00 6.45 0.00 NA NA NA NA 0.00 NA K intron_retention l(2)k14505,I_chr2L_21261891_21262012,I_chr2L_21275807_21277205 chr2L + chr2L_21261958_21262012 chr2L_21261957_21261958;chr2L_21262012_21262013 chr2L_21261777_21261957;chr2L_21262013_21262112 0.68 0.00 2.44 3.36 0.00 0.00 2.80 1.82 0.00 0.00 3.51 1.56 0.00 0.00 1.22 0.00 4.35 0.00 0.00 1.40 0.00 0.00 0.91 0.00 5.88 1.11 8.74 10.53 1.47 4.44 0.00 0.00 1.43 2.52 0.00 0.00 0.00 1.59 0.00 0.00 10.00 1.71 0.00 0.00 0.00 0.86 0.00 0.00 1.64 0.00 0.83 0.00 3.30 2.35 0.00 0.95 0.68 0.85 K intron_retention MRP,F_chr2L_12727117_12736035 chr2L + chr2L_12738748_12738806 chr2L_12738747_12738748;chr2L_12738806_12738807 chr2L_12738241_12738747;chr2L_12738807_12739188 0.00 0.00 0.00 0.00 0.00 0.73 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.42 0.00 0.00 0.37 0.00 1.08 1.77 0.58 0.00 0.00 0.00 0.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.31 0.00 0.00 0.00 0.00 0.00 0.00 0.60 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.10 K intron_retention gish chr3R + chr3R_12106734_12107802 chr3R_12106733_12106734;chr3R_12107802_12107803 chr3R_12106723_12106733;chr3R_12107803_12107810 45.80 NA NA NA NA NA NA NA 69.23 NA NA NA NA NA NA 45.45 NA NA NA 46.15 NA 40.00 NA 63.64 NA NA NA NA NA 41.67 NA NA NA NA NA NA NA NA NA 36.36 NA NA NA 50.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG14438 chrX + chrX_6654244_6654309 chrX_6654243_6654244;chrX_6654309_6654310 chrX_6654025_6654243;chrX_6654310_6654379 0.00 0.00 0.00 0.00 0.00 0.00 9.52 2.27 5.48 0.00 NA 3.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.44 2.44 0.00 0.00 3.85 10.81 19.05 12.12 0.00 0.00 NA 0.00 0.00 0.00 2.94 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 NA 0.00 0.00 NA NA 0.00 NA NA 0.00 K intron_retention Dhc64C chr3L - chr3L_4812256_4813327 chr3L_4812255_4812256;chr3L_4813327_4813328 chr3L_4812189_4812255;chr3L_4813328_4815436 3.77 0.00 NA 21.05 NA 0.00 15.38 0.00 5.88 NA 12.50 12.90 NA NA 0.00 8.00 NA NA 0.00 0.00 NA 0.00 5.66 6.45 9.09 NA 6.45 18.52 NA 10.53 0.00 NA 3.85 10.81 0.00 3.45 0.00 0.00 11.54 21.21 NA 3.77 NA 0.00 0.00 0.00 0.00 8.82 9.30 9.52 11.54 0.00 0.00 NA 0.00 0.00 0.00 6.25 K jcn_only_AA f-cup,EI_chr3R_9524613_9524789 chr3R - chr3R_9524004_9524789 chr3R_9524582_9524789 chr3R_9524790_9524889 0.00 0.00 2.50 0.00 0.00 0.00 0.00 2.27 0.00 NA 0.00 0.00 0.00 3.12 2.33 0.00 4.00 8.00 3.33 3.08 0.00 0.00 3.03 0.00 0.00 0.00 3.33 0.00 2.86 3.23 4.17 5.00 2.56 2.04 6.90 5.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.41 10.00 3.12 0.00 0.00 2.27 0.00 0.00 4.55 0.00 NA 0.00 4.35 0.00 0.00 K jcn_only_AA Uch,CG10880 chr2L - chr2L_2213549_2213615 chr2L_2213558_2213615 chr2L_2213616_2213684;chr2L_2213489_2213548 100.00 100.00 100.00 100.00 100.00 99.61 99.66 100.00 100.00 100.00 100.00 99.79 98.97 100.00 99.71 100.00 99.51 100.00 100.00 100.00 100.00 100.00 100.00 99.72 100.00 100.00 100.00 99.13 99.57 100.00 99.69 99.52 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.68 100.00 100.00 100.00 99.38 100.00 100.00 99.64 99.53 99.53 100.00 99.72 99.61 99.78 100.00 K alternative_donor mys,I_chrX_7958795_7961094 chrX + chrX_7955904_7957872;chrX_7955914_7957872;chrX_7955759_7957872;chrX_7956114_7957872;chrX_7955901_7957872;chrX_7956125_7957872;chrX_7955967_7957872 chrX_7955908_7957872 chrX_7957873_7958492;chrX_7955741_7955758 1.02 1.49 0.76 0.53 0.00 0.91 1.46 1.20 0.82 1.22 0.00 0.38 0.00 1.42 0.65 0.57 0.00 0.79 0.64 0.57 0.81 0.55 2.17 2.56 2.04 1.23 1.79 2.70 0.81 2.13 0.44 0.00 0.57 0.42 1.69 1.85 1.48 1.72 1.18 1.05 1.92 1.01 1.03 1.02 1.10 1.03 2.08 0.47 1.15 3.03 2.00 1.69 0.89 0.00 0.56 0.00 2.53 0.77 K jcn_only_AD CG14005,I_chr2L_5801609_5801677 chr2L - chr2L_5801609_5801677 chr2L_5801609_5801671 chr2L_5801509_5801608;chr2L_5801678_5801777 95.00 NA NA NA NA 86.96 NA 91.67 100.00 NA NA 100.00 NA NA NA 95.45 NA NA NA 100.00 NA NA 93.33 90.32 NA NA 95.45 NA NA 89.66 96.30 95.00 96.77 94.59 92.59 88.89 95.00 92.59 95.65 97.30 NA 90.00 NA 100.00 86.96 90.91 NA 84.38 85.71 93.10 88.00 100.00 100.00 95.00 95.00 95.83 95.45 90.00 K intron_retention CG9836,I_chr3R_4654041_4664113,I_chr3R_4749124_4756437 chr3R - chr3R_4649524_4649706 chr3R_4649523_4649524;chr3R_4649706_4649707 chr3R_4649075_4649523;chr3R_4649707_4649871 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.68 0.00 0.00 0.00 0.00 0.00 0.79 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.83 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.49 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention sli,RI_chr2R_11794739_11809143 chr2R - chr2R_11761183_11761794 chr2R_11761182_11761183;chr2R_11761794_11761795 chr2R_11761040_11761182;chr2R_11761795_11761827 0.00 NA NA NA NA NA NA NA 0.00 NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA 0.00 0.00 0.00 NA NA NA NA NA NA NA NA 0.00 NA NA NA 5.88 NA 0.00 NA NA NA NA NA 0.00 NA NA 0.00 NA 0.00 NA NA NA NA NA NA NA NA K intron_retention RhoGAP5A,C_chrX_5514320_5515557 chrX - chrX_5511090_5511153 chrX_5511089_5511090;chrX_5511153_5511154 chrX_5510684_5511089;chrX_5511154_5511259 0.00 7.32 0.00 3.33 0.00 0.00 3.03 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 5.36 0.00 15.38 1.39 3.57 4.44 0.00 1.75 2.56 26.67 0.00 0.00 0.00 0.00 0.00 0.00 2.17 2.00 3.64 3.49 3.23 0.00 3.08 0.00 0.00 0.00 2.70 3.12 2.56 0.00 6.15 3.77 0.00 3.03 4.35 0.00 0.00 3.75 0.00 K intron_retention CG11357,C_chr3L_4563905_4578759 chr3L + chr3L_4551941_4552104 chr3L_4551940_4551941;chr3L_4552104_4552105 chr3L_4551002_4551940;chr3L_4552105_4553455 0.00 0.00 0.00 1.06 0.00 0.00 0.23 0.43 0.23 0.00 0.00 0.00 0.00 0.37 0.00 0.00 0.00 0.00 0.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.36 0.00 0.00 0.00 0.00 0.00 0.00 0.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K multi_cassette cora,I_chr2R_15125277_15130573,I_chr2R_15125940_15130208,I_chr2R_15129291_15129988 chr2R + chr2R_15125940_15130208 chr2R_15125940_15126293;chr2R_15128442_15128462;chr2R_15129291_15129678;chr2R_15129901_15129994;chr2R_15130091_15130208 chr2R_15126294_15128441;chr2R_15128463_15129290;chr2R_15129679_15129900;chr2R_15129995_15130090 chr2R_15125887_15125939;chr2R_15130209_15130308 100.00 100.00 100.00 99.80 100.00 100.00 100.00 100.00 100.00 99.45 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.73 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor CG10737 chr2R + chr2R_15062754_15063752;chr2R_15062754_15063770 chr2R_15062754_15063692 chr2R_15062592_15062753;chr2R_15063771_15063852 94.12 91.92 91.51 89.66 92.31 97.70 87.00 96.82 92.52 97.44 95.24 93.53 95.74 95.40 96.91 86.11 96.88 94.69 96.94 92.20 86.79 84.69 94.92 96.15 96.88 94.39 96.00 90.00 98.28 93.98 94.96 98.33 67.77 87.92 90.79 96.67 94.26 92.55 95.10 93.62 98.39 91.63 86.42 97.30 85.71 98.36 97.06 90.28 91.57 94.51 93.97 91.78 91.95 94.12 95.69 89.29 95.00 93.04 K intron_retention RI_chr3R_18950918_18950979,CG31457 chr3R - chr3R_18952768_18952826 chr3R_18952767_18952768;chr3R_18952826_18952827 chr3R_18952226_18952767;chr3R_18952827_18953680 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 0.00 NA NA NA 0.00 NA NA NA 0.00 NA 2.38 0.00 0.00 NA 0.00 NA 0.00 8.33 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 3.85 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 K intron_retention Caf1,mRpS10 chr3R + chr3R_11052249_11052358 chr3R_11052248_11052249;chr3R_11052358_11052359 chr3R_11051691_11052248;chr3R_11052359_11053336 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.64 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.57 0.00 0.00 0.00 0.00 0.00 0.00 0.40 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.87 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG14778,CG14780 chrX + chrX_1367204_1367268 chrX_1367203_1367204;chrX_1367268_1367269 chrX_1366909_1367203;chrX_1367269_1367730 0.00 0.00 NA NA NA NA NA NA 0.00 NA NA 5.88 NA NA NA NA NA NA NA 0.00 NA NA NA 0.00 NA NA NA NA NA NA 6.67 NA NA NA NA NA 0.00 0.00 5.26 0.00 NA 0.00 NA NA 0.00 NA NA NA 0.00 NA NA NA 0.00 0.00 NA NA 0.00 NA K jcn_only_AD Ptp4E,EI_chrX_4842231_4842425 chrX + chrX_4833234_4834454;chrX_4833203_4834454;chrX_4833308_4834454;chrX_4833338_4834454 chrX_4833364_4834454 chrX_4834455_4834880;chrX_4833197_4833202 7.07 NA 9.09 8.11 14.29 NA 8.33 7.32 6.82 4.17 NA 5.56 3.85 11.76 NA 12.50 6.25 NA 12.50 1.96 NA 4.55 NA NA NA NA NA NA NA 3.23 8.33 NA 6.78 9.09 NA NA NA NA NA NA NA 2.70 9.09 NA NA NA NA 3.23 11.11 NA NA NA NA NA 4.76 NA NA NA K intron_retention Itp-r83A chr3R + chr3R_1356653_1356709 chr3R_1356652_1356653;chr3R_1356709_1356710 chr3R_1356497_1356652;chr3R_1356710_1356863 0.00 0.00 0.00 3.33 0.00 NA 3.70 0.00 0.00 0.00 0.00 7.14 0.00 0.00 0.00 0.00 5.56 0.00 4.00 0.00 0.00 0.00 15.38 0.00 5.00 17.65 5.26 NA 11.11 0.00 5.56 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA NA NA 10.53 0.00 0.00 0.00 0.00 NA NA 0.00 NA NA NA K intron_retention CG1637 chrX - chrX_10767513_10767577 chrX_10767512_10767513;chrX_10767577_10767578 chrX_10767169_10767512;chrX_10767578_10767741 6.67 NA NA 11.11 NA NA NA NA 9.09 NA NA 10.53 NA NA NA NA NA NA NA NA NA 6.67 NA NA NA NA 5.88 NA NA NA NA NA NA 0.00 NA NA NA 14.29 0.00 NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD hppy,I_chr2R_15066378_15066915,I_chr2R_15105700_15106080,I_chr2R_15106144_15108248 chr2R + chr2R_15066304_15067003;chr2R_15066378_15067003;chr2R_15066243_15067003 chr2R_15066358_15067003 chr2R_15067004_15067015;chr2R_15066237_15066242 3.30 NA NA NA NA NA NA NA 0.00 NA NA 0.00 NA NA NA 0.00 NA NA 0.00 0.00 NA 0.00 3.57 NA NA NA NA 13.04 6.90 NA NA NA NA NA NA NA NA 9.52 NA 4.55 NA NA NA 3.03 NA NA NA 2.86 12.50 NA 6.45 NA NA NA 14.29 NA NA NA N intron_retention nimC1,I_chr2L_13975880_13975977 chr2L - chr2L_13976221_13976476 chr2L_13976220_13976221;chr2L_13976476_13976477 chr2L_13971741_13976220;chr2L_13976477_13976753 100.00 NA NA 100.00 NA NA 100.00 100.00 100.00 NA NA 100.00 NA 100.00 NA 100.00 NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA 30.43 NA NA 100.00 NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA K intron_retention Psn,RI_chr3L_20430213_20430358 chr3L + chr3L_20427346_20427647 chr3L_20427345_20427346;chr3L_20427647_20427648 chr3L_20427187_20427345;chr3L_20427648_20427812 78.72 83.12 74.07 73.44 75.68 68.00 87.27 78.18 76.19 70.97 78.12 81.58 78.79 81.58 78.57 94.44 77.14 94.12 86.21 80.56 88.24 86.27 77.55 81.71 73.58 78.05 80.56 81.25 92.68 86.67 78.95 81.63 83.72 78.12 82.50 89.36 78.08 71.67 78.72 68.09 80.95 72.62 78.12 82.09 78.48 75.36 75.34 80.00 81.97 78.18 75.90 78.12 85.11 81.36 85.71 75.00 74.32 78.57 K intron_retention Syx13,RI_chr3L_13037959_13038017,CG11279 chr3L + chr3L_13038696_13039316 chr3L_13038695_13038696;chr3L_13039316_13039317 chr3L_13038018_13038695;chr3L_13039317_13039993 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.87 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.88 0.00 0.00 1.69 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention RpL15 chr3LHet + chr3LHet_2397992_2398049 chr3LHet_2397991_2397992;chr3LHet_2398049_2398050 chr3LHet_2397802_2397991;chr3LHet_2398050_2398052 50.00 43.75 51.28 45.61 50.00 52.00 22.15 50.00 54.46 54.55 53.85 46.94 44.90 46.34 61.11 55.88 45.16 30.00 42.86 56.00 29.41 21.33 65.31 52.50 39.39 30.43 78.57 87.50 53.33 52.00 48.08 41.94 54.55 48.53 50.00 74.42 65.22 50.00 58.82 55.10 41.18 46.67 50.00 34.21 50.00 45.28 48.72 48.28 54.84 55.32 40.74 53.57 79.17 54.29 50.00 43.18 57.89 62.86 K alternative_acceptor CG17683,I_chr2R_18774_18869,I_chr2R_19002_19060 chr2R + chr2R_19002_19064 chr2R_19002_19060 chr2R_18902_19001;chr2R_19065_19124 100.00 100.00 100.00 100.00 100.00 100.00 96.88 100.00 97.56 100.00 100.00 100.00 100.00 100.00 94.12 95.83 100.00 100.00 100.00 100.00 100.00 92.86 100.00 100.00 100.00 100.00 95.00 100.00 100.00 94.12 100.00 92.86 100.00 96.55 100.00 100.00 96.00 100.00 100.00 100.00 100.00 96.55 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AA CG9776,CG9772 chr3R - chr3R_161636_161730 chr3R_161668_161730 chr3R_161731_161797;chr3R_161571_161635 99.55 98.26 99.39 100.00 100.00 99.17 99.54 99.07 99.69 100.00 100.00 99.17 100.00 100.00 100.00 99.32 100.00 100.00 100.00 99.38 100.00 100.00 99.52 99.54 100.00 100.00 98.81 100.00 100.00 99.08 98.91 100.00 100.00 99.50 98.88 98.92 98.75 98.82 99.60 99.11 100.00 99.65 100.00 99.35 99.20 98.09 99.50 98.96 99.55 100.00 99.55 100.00 100.00 99.24 99.40 98.41 100.00 100.00 K intron_retention dwg,RI_chrX_2622297_2622430,RI_chrX_2622435_2622577,RI_chrX_2627170_2627263 chrX + chrX_2622968_2623029 chrX_2622967_2622968;chrX_2623029_2623030 chrX_2622578_2622967;chrX_2623030_2623121 0.00 0.00 0.00 4.76 NA NA NA 0.00 0.00 0.00 0.00 2.94 NA NA 0.00 NA NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 6.25 0.00 10.71 18.18 3.45 0.00 0.00 0.00 1.79 0.00 0.00 0.00 0.00 0.00 3.77 2.50 0.00 4.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.85 0.00 0.00 0.00 0.00 K intron_retention Nup98 chr3R - chr3R_19602830_19603159 chr3R_19602829_19602830;chr3R_19603159_19603160 chr3R_19602654_19602829;chr3R_19603160_19603342 6.38 0.00 5.77 7.87 5.26 7.69 8.82 10.11 4.85 7.69 8.57 6.02 16.67 1.89 2.00 8.96 4.88 5.00 11.90 9.52 7.69 2.13 2.53 3.03 11.76 8.70 5.80 7.69 24.14 6.25 5.77 7.14 12.50 6.33 0.00 6.38 3.85 0.00 3.03 4.84 8.00 7.41 4.65 8.89 0.00 5.13 8.33 4.17 5.13 16.36 8.00 7.14 18.75 0.00 5.00 7.69 9.76 6.45 K jcn_only_AA plexA,I_chr4_1035140_1035208,I_chr4_1035153_1035403,RI_chr4_1036247_1047588,RI_chr4_1040642_1047395,RF_chr4_1044307_1047399 chr4 - chr4_1035140_1035208 chr4_1035153_1035208 chr4_1035209_1035277;chr4_1035081_1035139 99.14 98.92 100.00 99.41 100.00 100.00 96.72 98.96 97.46 96.67 95.89 97.21 100.00 100.00 95.50 99.42 100.00 100.00 98.46 99.47 100.00 100.00 100.00 100.00 100.00 98.61 99.19 100.00 100.00 96.61 98.51 97.62 100.00 97.70 96.67 100.00 98.65 100.00 97.56 96.00 100.00 98.94 96.88 98.75 100.00 100.00 100.00 95.00 94.71 97.32 98.25 100.00 100.00 98.48 99.14 98.99 97.12 100.00 K mutually_exclusive Pkn,EI_chr2R_5143544_5143611,CI_chr2R_5143544_5146344,I_chr2R_5171635_5172166 chr2R - chr2R_5143215_5144914,chr2R_5145566_5146344 chr2R_5143215_5143333,chr2R_5143544_5146344 chr2R_5144915_5145565 chr2R_5143334_5143543 chr2R_5143018_5143214;chr2R_5146345_5146444 0.00 NA 0.00 0.00 NA NA NA NA 0.00 0.00 NA 0.00 0.00 NA NA 0.00 NA NA NA 0.00 NA 0.00 14.29 0.00 0.00 NA 0.00 0.00 16.67 0.00 NA NA 0.00 0.00 0.00 0.00 12.50 0.00 0.00 50.00 NA 0.00 NA 33.33 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 NA NA NA 0.00 NA 0.00 K intron_retention Tsp42Ee,RI_chr2R_2904593_2904783 chr2R + chr2R_2904593_2904783 chr2R_2904592_2904593;chr2R_2904783_2904784 chr2R_2904518_2904592;chr2R_2904784_2904880 99.93 99.93 99.93 100.00 99.93 100.00 100.00 99.96 100.00 99.87 99.86 99.96 99.92 99.92 99.93 99.95 100.00 99.92 100.00 99.83 99.93 99.85 99.95 99.95 100.00 100.00 99.94 99.74 100.00 99.91 99.85 99.75 99.65 99.86 99.56 100.00 99.95 99.93 99.94 99.58 99.90 99.96 100.00 99.95 99.79 99.93 99.93 99.89 99.85 99.84 99.93 99.92 100.00 99.89 99.94 99.93 100.00 99.94 K alternative_donor CG10737 chr2R + chr2R_15060394_15060936 chr2R_15060427_15060936 chr2R_15060937_15061148;chr2R_15060217_15060393 0.00 0.00 0.00 1.75 0.00 0.00 0.00 0.00 0.40 1.18 0.00 0.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.68 0.00 0.48 0.84 0.00 0.00 0.00 0.00 1.20 0.00 0.00 0.00 0.00 0.37 0.00 0.78 0.62 0.37 0.00 0.42 0.00 0.00 0.42 0.00 0.00 0.00 0.62 0.87 1.03 0.51 0.00 0.00 0.00 0.00 0.00 0.00 0.75 0.00 0.00 K cassette NFAT,RI_chrX_13543535_13546911,I_chrX_13544101_13544542 chrX + chrX_13544101_13548816 chrX_13544101_13546911;chrX_13547539_13548816 chrX_13546912_13547538 chrX_13544001_13544100;chrX_13548817_13549237 45.83 45.83 45.00 56.14 47.06 38.89 41.46 48.48 44.79 43.40 16.28 50.60 25.58 45.16 41.18 55.36 45.16 31.71 33.33 25.49 28.57 61.90 56.67 51.11 44.12 40.62 65.00 50.00 72.73 53.85 35.14 43.48 58.62 40.91 59.26 36.67 42.17 48.78 48.61 58.00 66.67 38.30 41.38 50.91 59.09 55.56 42.86 58.33 37.04 50.00 45.65 43.75 54.55 50.00 44.00 47.83 47.06 55.56 K alternative_donor Gbeta13F,I_chrX_15754284_15755167,I_chrX_15754284_15755184,RI_chrX_15754356_15755268,I_chrX_15754356_15755409,RI_chrX_15755345_15755409 chrX + chrX_15755345_15755409;chrX_15754356_15755409 chrX_15754284_15755409 chrX_15755410_15755509;chrX_15754256_15754283 90.77 92.77 90.36 92.00 90.77 91.43 92.55 90.18 88.79 89.19 90.20 80.69 75.64 85.15 90.28 92.71 90.67 90.00 90.20 90.85 92.73 94.68 95.10 81.54 91.80 86.57 91.95 89.19 89.36 87.72 91.82 91.43 83.67 90.00 91.18 82.69 91.67 94.92 91.38 84.21 92.68 87.67 83.33 93.40 88.00 88.57 93.65 86.15 89.01 89.19 91.30 92.55 94.59 92.59 90.91 94.74 96.05 91.67 K jcn_only_AA CG10277,I_chr3R_2208983_2210253,I_chr3R_2211939_2212057 chr3R + chr3R_2208983_2210702 chr3R_2208983_2210253 chr3R_2208883_2208982;chr3R_2210703_2210980 0.00 5.26 0.00 0.00 0.00 0.00 0.59 0.88 0.00 0.85 0.00 0.00 2.22 0.00 0.00 0.00 4.76 0.00 0.96 0.23 0.00 0.00 0.00 0.70 0.00 0.00 0.58 2.25 0.60 0.64 2.29 0.00 0.00 0.76 0.00 0.00 0.00 NA 0.00 0.87 0.64 1.35 0.00 0.00 0.00 0.00 0.00 0.00 0.60 0.00 0.00 0.00 0.00 0.00 0.97 0.00 0.00 0.00 K intron_retention CG8745 chr3L - chr3L_13858536_13859702 chr3L_13858535_13858536;chr3L_13859702_13859703 chr3L_13858417_13858535;chr3L_13859703_13860072 46.15 NA NA NA NA NA NA 54.55 30.77 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 28.57 NA NA NA 77.78 46.15 NA NA NA NA NA NA NA 12.50 46.15 K intron_retention noncoding_7780,CG30120,CG5189 chr2R + chr2R_14334211_14334268 chr2R_14334210_14334211;chr2R_14334268_14334269 chr2R_14334117_14334210;chr2R_14334269_14334314 15.07 15.38 6.45 37.50 5.00 3.33 33.33 8.70 15.38 7.69 25.00 12.82 NA NA 6.67 NA 0.00 0.00 22.22 15.38 0.00 16.67 21.88 14.29 15.00 21.43 NA NA 35.29 NA 19.35 14.29 35.71 15.38 14.29 30.00 21.74 9.68 15.15 41.67 50.00 11.90 22.22 NA 16.00 15.56 11.76 12.50 13.16 16.67 25.00 21.43 7.69 5.71 11.54 9.09 10.81 4.00 K jcn_only_AA Tao-1,I_chrX_19470426_19470727 chrX - chrX_19470426_19470727 chrX_19470429_19470727 chrX_19470728_19470827;chrX_19470326_19470425 98.97 98.11 99.43 97.58 98.40 100.00 98.37 98.92 99.01 98.64 98.15 99.16 99.18 99.02 99.31 98.30 100.00 99.34 99.25 98.94 99.27 99.35 98.97 99.54 98.28 98.00 98.68 100.00 100.00 99.45 100.00 98.65 99.33 100.00 99.28 98.68 98.83 98.23 98.59 99.20 97.33 100.00 100.00 97.91 98.91 98.53 98.29 98.88 99.23 100.00 98.39 97.81 97.87 98.95 99.39 100.00 99.00 98.18 K intron_retention CG9253 chr2L + chr2L_21143504_21143563 chr2L_21143503_21143504;chr2L_21143563_21143564 chr2L_21143322_21143503;chr2L_21143564_21143822 0.00 0.00 0.00 3.47 0.00 0.00 0.70 1.05 2.11 0.00 0.00 0.00 0.00 0.00 0.00 1.35 0.00 0.92 0.00 0.61 0.00 0.00 1.05 0.00 0.00 0.00 2.80 1.95 0.00 0.00 0.45 0.00 0.00 1.05 0.00 1.50 0.00 0.00 0.00 0.00 0.00 0.41 0.00 0.00 0.00 0.00 0.00 0.32 0.38 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.19 K intron_retention CG12384,I_chr2R_7245925_7246462,RI_chr2R_7245930_7246231,RI_chr2R_7245930_7246259 chr2R - chr2R_7245777_7245840 chr2R_7245776_7245777;chr2R_7245840_7245841 chr2R_7245312_7245776;chr2R_7245841_7245924 0.00 0.00 0.00 1.17 0.00 0.00 0.00 0.34 0.30 0.00 0.00 0.62 0.00 0.00 0.43 0.00 0.00 0.00 0.00 0.58 0.00 0.00 0.00 0.00 0.00 1.05 0.00 1.34 0.77 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.27 0.00 0.00 0.50 0.00 0.00 0.00 0.00 0.57 0.00 0.95 0.00 0.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention aPKC,I_chr2R_10833552_10833654,RI_chr2R_10849347_10850391 chr2R - chr2R_10832733_10833654 chr2R_10832732_10832733;chr2R_10833654_10833655 chr2R_10832714_10832732;chr2R_10833655_10833754 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA NA 100.00 100.00 100.00 100.00 95.83 100.00 100.00 100.00 100.00 NA NA 93.33 91.67 100.00 NA 100.00 NA NA NA 100.00 NA 100.00 100.00 NA 100.00 100.00 NA NA 100.00 NA 100.00 100.00 100.00 NA 100.00 NA 100.00 100.00 100.00 100.00 100.00 NA NA 100.00 NA 100.00 100.00 K intron_retention Hrb87F chr3R - chr3R_9484020_9484183 chr3R_9484019_9484020;chr3R_9484183_9484184 chr3R_9483046_9484019;chr3R_9484184_9484235 0.97 0.44 0.61 8.98 0.53 1.55 2.17 3.76 0.68 0.57 0.00 1.99 2.35 1.81 2.71 3.19 2.92 1.23 1.47 0.98 0.00 1.25 1.04 1.11 0.82 1.92 1.13 1.55 0.33 0.45 2.11 0.74 0.77 2.15 0.00 1.52 0.68 0.48 0.97 0.76 0.56 1.47 0.00 0.66 0.31 0.55 0.48 0.42 1.39 0.94 0.98 1.32 1.28 0.71 2.05 0.82 0.83 0.53 K intron_retention CG8051,I_chrX_19198128_19201351 chrX - chrX_19198128_19199326 chrX_19198127_19198128;chrX_19199326_19199327 chrX_19198028_19198127;chrX_19199327_19199358 13.25 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 11.11 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 6.67 NA NA 16.67 NA 15.38 NA NA NA NA NA NA NA K alternative_acceptor CG7861 chr2R + chr2R_1931884_1931956 chr2R_1931884_1931938 chr2R_1931601_1931883;chr2R_1931957_1932469 100.00 100.00 100.00 97.44 100.00 100.00 97.06 100.00 100.00 100.00 100.00 97.62 95.65 100.00 100.00 100.00 100.00 100.00 100.00 98.25 100.00 100.00 100.00 100.00 100.00 100.00 96.97 100.00 97.06 100.00 100.00 100.00 100.00 97.56 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.90 100.00 100.00 97.87 96.15 100.00 95.24 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention cwo,noncoding_15870,chr3R_6215619_6216520.0,chr3R_6216827_6217291.0,chr3R_6217556_6219555.0,chr3R_6219984_6221958.0 chr3R + chr3R_6215160_6223084 chr3R_6215159_6215160;chr3R_6223084_6223085 chr3R_6214846_6215159;chr3R_6223085_6223406 50.00 NA NA NA NA NA 21.43 50.00 44.44 NA NA 47.37 NA NA NA 53.33 NA NA NA 46.15 NA 51.72 63.16 68.75 50.00 NA 50.00 NA 50.00 61.11 NA NA 63.16 70.00 53.33 40.00 47.06 53.33 47.06 65.38 69.23 42.11 NA 41.18 NA 33.33 63.64 47.83 55.56 72.73 70.59 NA 54.55 NA 46.15 NA NA 50.00 K alternative_acceptor ana2,MrgBP,CG8258 chr2R - chr2R_4786818_4786871 chr2R_4786821_4786871 chr2R_4786872_4787717;chr2R_4786228_4786817 25.00 30.43 20.00 17.39 30.77 16.67 29.17 24.24 28.57 NA 23.08 31.03 22.22 27.78 22.22 25.93 5.56 25.00 20.00 22.73 30.77 25.00 22.73 29.63 26.67 13.33 16.67 33.33 NA 29.41 7.69 21.05 22.22 20.83 26.67 23.53 24.24 50.00 21.74 33.33 30.00 22.86 30.77 18.75 40.00 30.00 25.93 25.00 26.32 23.08 33.33 36.36 21.74 26.92 35.00 27.27 28.57 23.81 K alternative_donor Cctgamma chr3R + chr3R_12473409_12473557;chr3R_12473318_12473557;chr3R_12473479_12473557;chr3R_12473420_12473557;chr3R_12473424_12473557 chr3R_12473464_12473557 chr3R_12473558_12473651;chr3R_12473311_12473317 0.00 0.00 0.00 0.00 0.00 0.00 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.26 0.00 4.76 7.69 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.33 0.00 2.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD Pros35,I_chr2L_10222136_10222201,I_chr2L_10222136_10222259,CG4908 chr2L + chr2L_10222136_10222201 chr2L_10222144_10222201 chr2L_10222202_10222270;chr2L_10222075_10222135 99.50 99.64 99.31 99.43 99.30 99.66 99.69 99.31 99.80 98.97 100.00 99.55 99.71 99.15 99.32 99.42 99.72 99.42 98.60 99.59 99.47 99.50 99.10 99.69 99.72 99.45 99.80 99.75 99.79 99.82 99.19 99.18 100.00 99.64 99.71 99.28 99.24 99.08 99.86 99.65 99.66 99.33 98.33 99.00 99.41 99.50 99.57 100.00 99.82 99.17 99.60 98.95 99.35 98.91 99.74 99.69 99.65 99.45 K alternative_acceptor tacc,I_chr3R_570388_572101,I_chr3R_574271_574512 chr3R - chr3R_563485_565232;chr3R_563461_565232 chr3R_563503_565232 chr3R_565233_565290;chr3R_563195_563460 80.00 85.00 88.24 97.44 73.68 64.71 63.64 86.67 86.89 76.92 62.50 90.48 85.00 81.82 85.00 80.00 87.50 84.21 80.00 86.67 83.33 84.21 63.16 66.67 81.82 85.71 NA 88.89 71.43 66.67 89.29 80.00 80.00 74.29 NA 72.73 85.71 71.43 78.57 85.71 75.00 82.61 78.57 85.71 72.73 66.67 NA 73.33 88.37 83.33 69.23 94.44 63.64 NA 96.43 77.78 75.00 75.00 K alternative_acceptor CG7185 chr3L - chr3L_8304813_8304873 chr3L_8304816_8304873 chr3L_8304874_8305173;chr3L_8304747_8304812 98.15 97.10 98.75 98.36 97.92 96.92 100.00 97.10 100.00 100.00 97.67 98.00 100.00 96.30 98.53 98.15 97.73 98.61 98.33 96.99 98.44 98.78 97.67 100.00 98.61 100.00 97.67 97.56 95.95 98.08 97.33 97.73 98.26 97.47 98.75 96.47 97.18 98.61 99.00 95.83 98.86 98.68 98.04 96.97 97.28 97.64 99.01 98.48 98.51 96.91 98.39 98.15 98.75 97.03 98.57 98.88 94.67 97.81 K intron_retention shot,I_chr2R_9754481_9757364,I_chr2R_9762249_9762363,I_chr2R_9771216_9771599,I_chr2R_9782813_9788941,I_chr2R_9791078_9791208 chr2R - chr2R_9754481_9755660 chr2R_9754480_9754481;chr2R_9755660_9755661 chr2R_9754381_9754480;chr2R_9755661_9755854 0.00 0.00 0.48 0.77 0.00 0.42 0.00 0.84 0.22 0.00 0.00 0.55 4.23 0.00 0.00 0.00 0.00 0.38 0.00 0.00 0.00 0.29 0.48 0.00 0.00 0.00 0.38 0.70 0.45 0.27 0.93 0.00 0.19 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.19 0.60 0.28 0.00 0.00 0.00 0.83 0.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N jcn_only_AD CG33936,CG33937,RI_chr3R_5183458_5183705 chr3R + chr3R_5183178_5183705;chr3R_5180806_5183705 chr3R_5182946_5183705 chr3R_5183706_5183805 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.18 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette CG7945,RI_chr3L_15515681_15516932,RI_chr3L_15516824_15516932 chr3L - chr3L_15515603_15516067 chr3L_15515603_15515659;chr3L_15515681_15516067 chr3L_15515660_15515680 chr3L_15515581_15515602;chr3L_15516068_15516564 100.00 100.00 100.00 100.00 100.00 100.00 97.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.77 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 N alternative_acceptor unc-5,E_chr2R_11238100_11240757,I_chr2R_11252444_11252570 chr2R + chr2R_11246255_11247919 chr2R_11246255_11247482 chr2R_11246084_11246254;chr2R_11247920_11247973 3.45 5.56 4.55 6.90 0.00 8.33 9.09 0.00 3.85 0.00 0.00 4.35 NA NA 0.00 9.09 NA 66.67 0.00 5.26 0.00 2.60 1.96 0.00 0.00 6.67 0.00 9.09 8.70 3.45 3.85 NA 6.67 3.45 0.00 4.76 3.33 0.00 2.86 6.67 NA 4.65 NA 3.12 6.67 0.00 0.00 3.85 3.85 5.00 2.50 0.00 0.00 0.00 4.35 NA NA 5.26 K intron_retention CG32626 chrX - chrX_13725134_13725200 chrX_13725133_13725134;chrX_13725200_13725201 chrX_13724782_13725133;chrX_13725201_13725311 0.79 0.50 1.20 1.57 0.00 0.79 0.92 0.86 1.35 0.00 1.27 1.34 0.00 0.00 0.00 0.54 0.00 1.32 1.53 0.58 0.00 1.06 0.71 0.78 0.00 0.79 0.44 3.20 1.85 0.00 1.35 0.00 0.43 0.96 1.45 1.20 0.32 1.00 0.89 1.13 1.35 1.05 0.00 0.35 0.75 0.87 1.46 1.69 2.11 0.47 1.02 0.00 0.53 0.00 0.61 0.37 0.63 1.92 K intron_retention CG2747,noncoding_15264,RI_chr3R_3843183_3843929 chr3R - chr3R_3842728_3843929 chr3R_3842727_3842728;chr3R_3843929_3843930 chr3R_3842585_3842727;chr3R_3843930_3844029 0.00 0.00 0.00 3.70 0.00 0.00 1.64 0.00 1.19 3.03 0.00 1.72 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.95 0.00 2.50 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.86 0.00 0.00 0.00 1.92 0.00 2.86 0.00 0.00 0.00 0.00 0.00 2.38 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.06 K intron_retention CG30090,RI_chr2R_11577574_11577625 chr2R + chr2R_11577672_11577758 chr2R_11577671_11577672;chr2R_11577758_11577759 chr2R_11577626_11577671;chr2R_11577759_11577937 3.57 2.38 3.57 12.20 0.00 0.00 6.49 6.06 4.17 NA 0.00 5.56 5.08 6.82 0.00 10.00 0.00 4.00 8.89 1.44 0.00 7.89 10.53 0.00 0.00 0.00 8.70 NA 5.26 3.70 3.92 7.41 0.00 2.44 0.00 6.67 0.00 0.00 4.65 4.76 0.00 2.27 0.00 0.00 0.00 6.25 3.92 0.00 5.10 0.00 0.00 0.00 4.17 0.00 3.77 5.00 2.44 6.67 K jcn_only_AA dnc,I_chrX_3150245_3150319,I_chrX_3150351_3152643 chrX + chrX_3150245_3152643;chrX_3150245_3150319 chrX_3150245_3152646 chrX_3150235_3150244;chrX_3152647_3152733 16.18 NA 12.12 20.00 NA 20.00 11.54 22.58 NA NA NA 19.23 25.00 NA 15.15 20.51 NA NA 7.69 22.73 NA NA NA NA NA NA NA NA NA NA 16.00 NA NA 10.26 NA NA NA NA NA NA NA 5.88 NA NA NA NA NA NA 16.36 NA NA NA NA NA 13.64 NA NA NA K alternative_donor rin,I_chr3R_9476825_9476895 chr3R + chr3R_9472923_9473104;chr3R_9473004_9473104 chr3R_9472992_9473104 chr3R_9473105_9473268;chr3R_9472709_9472922 0.00 0.00 0.00 0.00 2.13 1.54 0.61 0.44 0.38 0.00 0.00 0.00 0.00 0.00 0.00 1.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 2.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.33 0.00 0.00 0.00 0.00 2.17 0.00 NA 0.00 0.00 0.00 0.00 0.00 2.70 0.00 NA 0.67 0.00 0.00 0.00 K jcn_only_AA RI_chrX_6482284_6482336,Pat1,I_chrX_6489999_6490050,APC7 chrX + chrX_6489505_6489571 chrX_6489505_6489568 chrX_6489347_6489504;chrX_6489572_6489993 99.09 100.00 98.94 98.64 97.80 98.81 98.39 99.40 99.05 98.28 97.73 98.77 98.23 98.88 98.36 100.00 98.82 99.18 98.97 100.00 98.10 99.23 100.00 96.43 98.51 99.02 99.22 98.95 100.00 97.80 99.09 100.00 100.00 97.89 98.57 100.00 100.00 100.00 99.09 100.00 100.00 99.49 98.78 100.00 95.06 100.00 100.00 100.00 99.44 100.00 95.97 98.51 100.00 100.00 97.44 100.00 100.00 98.26 K intron_retention Pax,RI_chr2L_19404683_19426205,RI_chr2L_19404823_19409403 chr2L - chr2L_19410414_19410479 chr2L_19410413_19410414;chr2L_19410479_19410480 chr2L_19410248_19410413;chr2L_19410480_19410643 0.00 0.00 0.67 0.00 0.00 0.00 0.00 0.00 0.27 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.28 0.00 0.00 0.00 0.00 0.00 0.00 0.90 1.52 0.65 0.00 0.00 0.00 0.00 0.46 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.34 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG17683,I_chr2R_18774_18869 chr2R + chr2R_18630_18692 chr2R_18630_18680 chr2R_18552_18629;chr2R_18693_18747 96.88 NA NA 92.86 NA NA 100.00 88.89 100.00 NA NA 100.00 NA NA NA 91.67 NA NA 100.00 91.67 NA NA 91.67 NA NA NA 100.00 NA NA NA 91.67 NA NA 93.75 80.00 NA NA NA NA 100.00 NA 100.00 NA 100.00 NA NA 87.50 NA 93.33 100.00 88.89 NA NA NA NA 100.00 100.00 NA N jcn_only_AA CG31431 chr3R + chr3R_17697863_17697938;chr3R_17697863_17697989 chr3R_17697863_17698131 chr3R_17697704_17697862;chr3R_17698132_17698247 100.00 100.00 100.00 100.00 100.00 100.00 69.44 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 91.79 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 83.33 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.75 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AD Ank,RI_chr4_144049_144406,I_chr4_150069_150423 chr4 - chr4_150069_150307;chr4_150069_150180;chr4_150069_150378;chr4_150069_150353;chr4_150069_150295 chr4_150069_150205 chr4_149969_150068;chr4_150379_150379 4.71 NA NA 7.02 6.67 4.76 7.32 2.47 6.52 NA NA 4.17 6.67 14.81 4.17 6.67 4.65 0.00 0.00 7.41 NA NA NA NA NA 3.85 NA NA NA NA 5.13 NA NA 3.90 NA NA NA NA NA NA NA 3.51 5.00 NA NA NA NA NA 1.37 NA NA NA NA NA 2.70 NA NA NA K intron_retention RpL7A,I_chrX_6426455_6427156,I_chrX_6426579_6427002 chrX - chrX_6426455_6426522 chrX_6426454_6426455;chrX_6426522_6426523 chrX_6426355_6426454;chrX_6426523_6426578 0.00 0.00 0.00 0.04 0.00 0.00 0.08 0.00 0.00 0.00 0.00 0.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.05 0.00 0.00 0.20 0.45 0.00 0.00 0.07 0.00 0.00 0.07 0.00 0.04 0.00 0.00 0.00 0.05 0.00 0.00 0.00 0.00 0.00 0.03 0.00 0.00 0.04 0.05 0.03 0.00 0.00 0.05 0.00 0.07 0.11 0.00 K jcn_only_AA wun,I_chr2R_5291118_5291211,I_chr2R_5297151_5300729,I_chr2R_5297159_5300813 chr2R - chr2R_5290341_5291211 chr2R_5291118_5291211 chr2R_5291212_5291311;chr2R_5290161_5290340 1.29 1.69 0.00 1.96 0.00 0.00 10.00 0.00 0.00 1.75 14.29 0.00 0.00 0.00 0.00 0.00 3.03 12.00 3.12 1.79 4.35 7.59 0.86 1.09 1.08 NA 1.20 2.33 2.86 0.00 5.56 2.94 1.89 1.72 1.18 11.90 0.85 0.00 1.35 0.00 1.92 0.00 3.57 1.30 1.27 0.00 3.19 2.56 3.45 1.28 3.19 0.00 0.00 1.27 2.13 1.35 0.00 0.00 K alternative_donor Eip78C,I_chr3L_21255841_21256095 chr3L + chr3L_21233904_21256095 chr3L_21255841_21256095 chr3L_21256096_21256195;chr3L_21233887_21233903 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 NA 0.00 20.00 NA 0.00 0.00 NA NA 0.00 0.00 NA NA K intron_retention CG13760 chrX - chrX_2478969_2479030 chrX_2478968_2478969;chrX_2479030_2479031 chrX_2478700_2478968;chrX_2479031_2479344 0.00 4.26 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.45 0.00 0.00 0.00 3.85 2.30 0.00 17.65 0.00 0.00 0.00 0.00 0.00 0.00 7.14 0.00 0.00 0.00 2.78 0.00 0.00 0.00 2.25 2.13 3.57 3.12 2.94 0.00 0.00 0.00 3.33 2.08 0.00 7.14 2.27 0.00 0.00 0.00 0.00 0.00 0.00 3.92 0.00 0.00 K intron_retention I_chr2L_8029734_8029787,Cka,CG7429 chr2L + chr2L_8036299_8036357 chr2L_8036298_8036299;chr2L_8036357_8036358 chr2L_8035821_8036298;chr2L_8036358_8036576 0.00 0.00 0.00 1.27 0.00 0.00 2.33 0.00 0.00 0.00 0.00 2.13 0.00 0.00 0.00 1.82 0.00 0.00 0.00 1.68 1.92 2.59 1.41 0.00 0.00 0.00 2.33 0.00 0.00 1.61 0.00 0.00 0.78 0.00 1.85 0.00 3.06 1.67 0.00 2.75 4.76 1.68 0.00 0.00 0.00 1.72 0.00 0.00 3.06 0.00 1.30 0.00 0.00 0.00 0.00 0.00 0.00 1.45 K intron_retention Irbp chr3R + chr3R_7236841_7236963 chr3R_7236840_7236841;chr3R_7236963_7236964 chr3R_7236778_7236840;chr3R_7236964_7238112 100.00 97.06 100.00 100.00 95.45 100.00 100.00 97.30 98.44 96.67 96.88 100.00 100.00 95.65 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.44 100.00 100.00 96.88 98.31 100.00 100.00 100.00 100.00 97.14 100.00 97.83 96.97 100.00 98.28 100.00 100.00 98.78 98.04 100.00 100.00 98.21 100.00 100.00 100.00 100.00 97.96 98.39 98.18 97.30 100.00 97.87 100.00 97.73 95.95 97.44 K cassette Gpo-1,I_chr2R_11747621_11747699,EI_chr2R_11747445_11747699,I_chr2R_11749758_11750187,I_chr2R_11756325_11756380 chr2R - chr2R_11747445_11747699 chr2R_11747445_11747511;chr2R_11747625_11747699 chr2R_11747512_11747624 chr2R_11747345_11747444;chr2R_11747700_11747768 100.00 98.39 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.55 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.48 97.78 100.00 100.00 100.00 100.00 98.70 99.24 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.89 100.00 99.07 100.00 100.00 100.00 99.37 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor CtBP chr3R + chr3R_8847365_8850545 chr3R_8847365_8850521 chr3R_8847142_8847364;chr3R_8850546_8850586 67.43 NA NA NA NA NA NA 90.00 75.00 NA NA 68.18 NA NA NA NA NA NA NA 63.64 NA 71.43 NA 54.55 NA NA NA NA 50.00 NA 88.89 NA 90.91 NA NA NA 35.71 NA NA 72.73 NA 64.29 NA 60.00 NA 90.00 NA 66.67 56.25 NA 75.00 NA NA NA NA NA NA 53.85 K intron_retention lark,noncoding_11093,REI_chr3L_7332718_7333975,RI_chr3L_7334219_7334452 chr3L + chr3L_7333871_7333975 chr3L_7333870_7333871;chr3L_7333975_7333976 chr3L_7333152_7333870;chr3L_7333976_7334075 6.12 4.81 10.87 9.30 9.30 12.50 0.00 18.52 7.00 6.12 13.04 6.98 0.00 0.00 6.45 0.00 10.26 12.77 8.16 9.00 6.25 7.78 4.38 5.30 4.44 10.42 5.00 9.76 7.89 6.02 7.14 4.88 5.07 5.38 4.82 2.90 4.29 4.35 4.88 6.78 3.70 7.59 7.32 9.68 5.86 4.46 4.88 8.77 8.70 2.38 7.04 7.02 4.40 3.23 8.51 3.73 0.00 4.79 K intron_retention Sap47,I_chr3R_11761076_11761674,I_chr3R_11761436_11761674,F_chr3R_11761635_11761698,E_chr3R_11761635_11761703 chr3R + chr3R_11761307_11761698 chr3R_11761306_11761307;chr3R_11761698_11761699 chr3R_11761299_11761306;chr3R_11761699_11761774 100.00 100.00 100.00 97.44 100.00 96.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.00 96.00 100.00 100.00 100.00 96.77 100.00 100.00 98.18 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.44 93.33 100.00 100.00 96.30 94.44 100.00 100.00 100.00 97.87 100.00 100.00 100.00 100.00 100.00 97.06 100.00 100.00 100.00 K intron_retention robo chr2R - chr2R_18587540_18587595 chr2R_18587539_18587540;chr2R_18587595_18587596 chr2R_18587307_18587539;chr2R_18587596_18587684 94.25 NA NA NA NA NA 100.00 NA 91.67 NA NA NA NA NA NA NA NA 92.86 NA NA NA 95.65 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CanB2,CG12825 chr2R + chr2R_3675038_3675104 chr2R_3675038_3675095 chr2R_3674969_3675037;chr2R_3675105_3675170 100.00 100.00 99.50 99.38 100.00 100.00 100.00 100.00 100.00 98.97 100.00 99.66 100.00 99.40 100.00 99.65 100.00 100.00 99.45 99.77 98.90 99.31 99.46 100.00 99.19 99.44 100.00 99.15 99.19 100.00 100.00 98.72 100.00 100.00 98.54 99.38 99.45 100.00 99.50 99.59 100.00 100.00 100.00 98.94 99.43 100.00 100.00 100.00 99.45 100.00 100.00 100.00 97.95 100.00 100.00 100.00 99.51 99.65 K mutually_exclusive CG11873,I_chr3R_24900749_24922953,GM04590 chr3R + chr3R_24888870_24900684,chr3R_24900749_24922953 chr3R_24888870_24889524,chr3R_24890335_24922953 chr3R_24900685_24900748 chr3R_24889525_24890334 chr3R_24888832_24888869;chr3R_24922954_24923053 100.00 100.00 96.97 100.00 100.00 100.00 98.15 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.50 97.96 97.06 100.00 97.44 98.55 100.00 100.00 98.15 100.00 100.00 100.00 97.73 96.55 96.00 98.48 100.00 100.00 100.00 98.48 100.00 100.00 100.00 100.00 100.00 98.41 100.00 98.46 100.00 98.31 100.00 96.77 100.00 99.01 100.00 100.00 97.73 100.00 100.00 90.00 100.00 100.00 100.00 96.43 K alternative_donor Ten-a chrX + chrX_12097912_12098171;chrX_12097945_12098171;chrX_12098018_12098171;chrX_12098030_12098171 chrX_12098012_12098171 chrX_12098172_12098306;chrX_12097907_12097911 0.00 NA 0.00 NA NA NA NA 0.00 25.00 NA NA NA NA NA 0.00 0.00 NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 NA NA NA NA 20.00 0.00 NA 0.00 NA NA NA NA NA NA NA K intron_retention Hel25E,I_chr2L_5540301_5540396 chr2L - chr2L_5540110_5540168 chr2L_5540109_5540110;chr2L_5540168_5540169 chr2L_5539707_5540109;chr2L_5540169_5540300 0.23 0.00 0.93 0.80 0.00 0.78 0.00 0.56 0.23 0.00 0.00 0.12 0.29 0.26 0.41 0.00 0.00 0.00 0.66 0.53 0.00 0.00 0.95 0.48 1.12 0.60 1.32 2.25 0.47 0.00 0.00 0.44 0.00 0.33 0.00 0.00 0.00 0.00 0.00 0.43 0.00 0.24 0.61 0.00 0.00 0.24 1.22 0.00 0.37 1.45 0.18 0.00 0.00 0.23 0.20 0.71 0.38 0.00 K alternative_donor CG8839,I_chr2R_8229288_8229488,I_chr2R_8229288_8231538 chr2R - chr2R_8229288_8231968;chr2R_8229288_8231964;chr2R_8229288_8231966 chr2R_8229288_8232025 chr2R_8229188_8229287;chr2R_8232026_8232112 87.31 89.09 87.18 88.94 88.89 89.41 86.26 92.16 88.62 77.78 91.51 89.52 85.00 88.24 88.67 86.62 87.96 87.60 91.61 86.55 88.17 89.66 86.21 89.86 86.44 89.58 84.78 85.07 81.94 86.67 90.53 86.76 85.29 87.31 80.00 86.67 79.37 86.36 87.18 90.79 81.82 88.72 84.55 79.45 85.37 88.04 84.44 81.13 87.80 90.00 83.64 86.44 89.09 93.33 91.52 90.38 87.32 80.00 K jcn_only_AA CG14767,RI_chr2R_4609761_4610761,RI_chr2R_4610372_4610761 chr2R - chr2R_4607538_4610761 chr2R_4609761_4610761 chr2R_4610762_4610861;chr2R_4607438_4607537 0.00 0.33 0.23 0.00 0.00 0.23 1.00 0.17 0.10 1.51 0.00 0.00 0.28 0.00 0.00 0.18 0.00 0.28 0.00 0.86 0.00 0.00 0.21 0.25 0.00 0.82 0.12 0.15 0.00 0.00 1.48 0.00 0.00 0.33 0.24 0.00 0.10 0.59 0.21 0.24 0.00 0.12 0.00 0.00 0.00 0.38 0.00 0.77 0.14 0.00 0.00 0.00 0.00 0.19 0.00 0.00 0.00 0.00 K intron_retention CG7011 chr3L - chr3L_15154200_15154264 chr3L_15154199_15154200;chr3L_15154264_15154265 chr3L_15153969_15154199;chr3L_15154265_15154472 7.14 3.92 1.82 8.41 5.56 4.76 9.43 9.64 5.00 8.33 11.90 7.89 5.00 6.25 3.03 15.91 7.14 0.00 10.42 7.53 9.09 14.58 5.13 0.00 5.13 8.00 8.82 15.62 8.96 6.12 6.38 16.67 8.77 6.94 10.20 6.15 4.55 4.76 1.35 15.00 6.48 12.82 2.70 19.35 15.00 7.14 5.33 16.88 10.14 8.33 2.50 7.69 7.81 1.47 3.28 4.35 2.11 11.11 K jcn_only_AD Aats-val,I_chr2R_9088330_9088393,I_chr2R_9088412_9088502 chr2R + chr2R_9088330_9088502 chr2R_9088412_9088502 chr2R_9088503_9088602;chr2R_9088312_9088329 0.00 1.16 0.00 1.74 0.69 0.00 0.00 0.00 0.00 0.64 0.00 0.89 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.21 0.00 0.00 0.00 0.00 0.64 0.64 3.17 0.51 0.00 1.45 0.91 0.00 0.77 1.53 0.28 0.00 0.00 0.39 0.00 0.00 0.00 0.00 2.74 0.52 0.00 0.00 0.46 0.53 0.36 0.56 0.00 0.00 0.00 0.00 0.00 1.94 K jcn_only_AA CG10737 chr2R + chr2R_15062754_15063752;chr2R_15062754_15063692 chr2R_15062754_15063770 chr2R_15062592_15062753;chr2R_15063771_15063852 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention SP2637,Gint3 chr2R - chr2R_14530268_14545584 chr2R_14530267_14530268;chr2R_14545584_14545585 chr2R_14529910_14530267;chr2R_14545585_14545707 0.00 NA NA NA NA NA 4.55 NA 3.45 NA NA 5.56 NA NA NA 0.00 NA NA 0.00 0.00 NA 0.00 0.00 NA NA NA 0.00 0.00 NA 0.00 0.00 14.29 0.00 NA NA NA 0.00 NA NA 0.00 NA 7.14 NA 0.00 NA NA NA 0.00 5.88 0.00 NA 0.00 NA NA 0.00 NA 10.53 0.00 K intron_retention CG9641,I_chr2L_2986815_2987511 chr2L - chr2L_2975080_2975150 chr2L_2975079_2975080;chr2L_2975150_2975151 chr2L_2974966_2975079;chr2L_2975151_2976554 0.00 0.00 0.00 2.38 0.00 0.00 1.47 0.00 2.82 0.00 0.00 2.41 5.56 0.00 0.00 0.00 0.00 2.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.92 2.17 2.11 1.39 0.00 1.14 0.00 0.00 3.23 0.00 0.00 5.41 1.67 1.06 0.85 1.15 0.00 0.00 0.00 1.79 0.00 0.88 1.92 0.00 0.00 0.00 2.27 0.00 0.00 1.15 0.00 1.59 K intron_retention RpL31,CG1827 chr2R + chr2R_5475212_5475281 chr2R_5475211_5475212;chr2R_5475281_5475282 chr2R_5475113_5475211;chr2R_5475282_5475378 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.02 0.01 0.00 0.00 0.03 0.00 0.00 0.00 0.00 0.00 0.01 0.00 0.01 0.02 0.35 0.00 0.00 0.00 0.02 0.02 0.09 0.05 0.00 0.00 0.00 0.02 0.00 0.00 0.03 0.00 0.00 0.00 0.03 0.02 0.01 0.00 0.00 0.01 0.04 0.02 0.00 0.02 0.00 0.03 0.00 0.03 0.02 0.01 0.02 0.01 0.02 K intron_retention rgn chr3L + chr3L_21413463_21413564 chr3L_21413462_21413463;chr3L_21413564_21413565 chr3L_21413351_21413462;chr3L_21413565_21413789 50.00 43.40 43.33 73.68 42.42 37.04 84.62 51.22 46.15 48.15 59.09 42.42 40.74 53.12 43.18 46.34 50.00 45.45 40.00 49.18 56.67 23.81 47.17 59.52 55.56 58.62 58.33 93.33 70.83 48.15 50.00 50.00 51.43 40.00 50.00 61.29 57.14 48.57 47.54 43.10 NA 43.42 53.85 26.09 40.91 67.50 57.41 41.18 42.00 72.73 50.88 57.14 65.62 65.85 46.51 72.50 80.00 44.83 K alternative_donor CG7231 chr2L + chr2L_7985434_7985552;chr2L_7985442_7985552 chr2L_7985494_7985552 chr2L_7985553_7985768;chr2L_7985425_7985433 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA K intron_retention cdc2c,EI_chr3R_16561477_16561812,RI_chr3R_16562395_16562445 chr3R + chr3R_16561547_16561812 chr3R_16561546_16561547;chr3R_16561812_16561813 chr3R_16561320_16561546;chr3R_16561813_16561912 9.84 6.67 12.50 7.14 NA 0.00 0.00 0.00 9.52 NA NA 9.68 13.33 12.50 NA 0.00 NA NA 13.33 4.44 NA NA 9.52 14.29 NA NA 12.00 NA NA NA NA 0.00 NA 16.67 8.70 0.00 23.08 10.53 7.69 10.00 NA 7.41 0.00 26.67 NA 12.50 15.00 NA 12.50 7.41 3.12 15.38 7.69 NA 13.33 15.38 17.65 14.29 K jcn_only_AA Rbcn-3A chrX - chrX_6137848_6137905 chrX_6137866_6137905 chrX_6137906_6138157;chrX_6137623_6137847 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.42 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.65 0.00 0.00 0.48 0.00 0.00 0.00 0.00 0.32 0.00 0.27 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.60 0.00 0.00 K cassette CG32813 chrX + chrX_1282830_1283633 chrX_1282830_1282929;chrX_1283114_1283633 chrX_1282930_1283113 chrX_1282661_1282829;chrX_1283634_1284090 20.00 NA NA NA NA NA NA NA 18.18 NA NA NA NA NA NA NA NA NA NA 10.00 NA 50.00 NA 20.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 22.22 NA NA 25.00 NA NA NA NA NA NA 10.00 NA NA NA NA NA NA NA NA NA K intron_retention CG9894,RE_chr2L_2752712_2753371,I_chr2L_2753119_2753371,RI_chr2L_2755946_2756007 chr2L + chr2L_2752838_2753371 chr2L_2752837_2752838;chr2L_2753371_2753372 chr2L_2752820_2752837;chr2L_2753372_2753471 43.01 49.48 35.11 44.91 19.31 35.93 40.37 49.78 33.75 39.39 26.14 42.91 34.06 38.41 37.44 52.70 38.89 30.41 40.21 31.60 38.73 61.33 62.83 48.72 54.39 38.46 69.70 39.80 44.93 54.26 41.67 45.06 61.00 45.64 76.29 65.13 31.03 37.88 36.00 27.82 61.88 38.21 49.12 38.01 42.12 59.22 73.08 52.23 41.91 64.49 61.00 50.00 43.01 83.53 40.09 67.31 58.46 58.57 K intron_retention Cyp4e2,Cyp4e1 chr2R + chr2R_4332436_4332862 chr2R_4332435_4332436;chr2R_4332862_4332863 chr2R_4332244_4332435;chr2R_4332863_4332972 4.00 6.12 3.03 4.00 4.17 0.00 4.84 4.92 4.79 6.67 3.57 2.33 3.08 0.00 3.12 2.35 0.00 9.62 2.70 6.60 3.57 2.74 5.88 3.03 12.00 3.70 5.48 5.00 26.42 1.35 4.48 10.00 3.42 5.50 3.77 4.17 2.70 6.82 4.69 4.35 1.54 4.84 2.13 0.00 3.39 3.08 5.13 5.48 5.00 4.11 6.94 0.00 4.00 0.00 6.02 1.85 3.77 4.44 K alternative_donor par-1,I_chr2R_15348122_15353660,RI_chr2R_15348122_15356294,EF_chr2R_15349994_15351814,F_chr2R_15349994_15351846,noncoding_8037,I_chr2R_15350149_15350210,FI_chr2R_15350149_15351814,I_chr2R_15350437_15351814,I_chr2R_15350437_15351825,I_chr2R_15350905_15351814,RI_chr2R_15355419_15356294,F_chr2R_15362147_15365138,RI_chr2R_15363358_15365120,I_chr2R_15365210_15370456 chr2R + chr2R_15350285_15351846;chr2R_15350149_15351846;chr2R_15350437_15351846 chr2R_15350157_15351846 chr2R_15351847_15351914;chr2R_15350068_15350148 0.00 12.50 0.00 0.00 0.00 10.00 8.33 7.69 0.00 0.00 0.00 6.67 10.00 0.00 0.00 6.25 0.00 0.00 0.00 5.56 0.00 8.33 0.00 10.00 0.00 0.00 0.00 20.00 0.00 0.00 0.00 NA 0.00 0.00 16.67 11.11 0.00 0.00 0.00 10.00 NA 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 14.29 0.00 NA 0.00 NA 12.50 0.00 K intron_retention TMS1 chr3L + chr3L_16408057_16408120 chr3L_16408056_16408057;chr3L_16408120_16408121 chr3L_16407921_16408056;chr3L_16408121_16408488 0.00 0.36 0.00 1.65 0.00 0.00 0.45 0.23 0.40 0.00 0.00 0.41 0.00 0.47 0.00 0.69 0.00 0.40 0.36 0.65 0.00 0.58 0.56 0.70 0.48 0.36 1.09 2.35 0.36 0.00 0.00 0.00 0.00 0.00 0.47 0.00 0.00 0.00 0.00 0.68 0.00 0.36 0.00 0.00 0.98 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.43 0.34 0.00 0.34 0.26 1.88 K intron_retention rin,I_chr3R_9476825_9476895 chr3R + chr3R_9472923_9473104 chr3R_9472922_9472923;chr3R_9473104_9473105 chr3R_9472709_9472922;chr3R_9473105_9473268 1.14 0.00 2.27 1.19 4.17 3.03 0.61 1.72 2.94 4.55 0.00 1.46 0.00 1.82 0.00 2.20 0.00 0.00 1.50 1.09 0.00 6.12 0.00 0.00 0.00 1.22 0.00 3.57 NA 2.56 1.87 0.00 1.37 0.86 0.00 0.00 0.00 0.00 6.45 3.45 9.09 1.36 0.88 4.35 0.00 NA 0.00 10.87 0.53 0.00 5.00 2.70 0.00 NA 1.97 0.00 0.00 5.88 K cassette Doa,I_chr3R_24715823_24718923,I_chr3R_24747391_24747896 chr3R + chr3R_24715823_24726545 chr3R_24715823_24718923;chr3R_24720785_24726545 chr3R_24718924_24720784 chr3R_24715727_24715822;chr3R_24726546_24726744 34.46 37.77 28.30 37.68 32.05 36.00 53.76 31.40 38.89 35.29 33.33 32.33 27.27 38.40 31.84 30.63 33.85 27.78 38.89 34.93 32.14 35.40 39.38 40.00 43.68 33.11 39.15 28.47 25.10 25.73 32.64 21.05 23.27 35.89 36.32 43.48 37.47 35.47 38.71 22.64 34.46 35.40 28.89 36.16 27.08 32.55 34.93 21.43 35.61 23.46 37.69 45.16 27.78 30.37 35.42 32.47 36.28 14.50 K intron_retention CG42394,noncoding_15936,E_chr3R_6675742_6676058 chr3R + chr3R_6675589_6675653 chr3R_6675588_6675589;chr3R_6675653_6675654 chr3R_6675581_6675588;chr3R_6675654_6675741 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA NA 0.00 NA NA 6.67 NA 0.00 0.00 0.00 1.19 NA NA NA NA NA 0.00 0.00 0.00 0.00 7.69 0.00 0.00 NA 0.00 0.00 NA NA NA NA NA 0.00 NA NA 0.00 K intron_retention CG1746,I_chr3R_27043646_27044664,I_chr3R_27043667_27043890,I_chr3R_27043667_27044393,RI_chr3R_27044771_27045268 chr3R - chr3R_27043667_27044664 chr3R_27043666_27043667;chr3R_27044664_27044665 chr3R_27043567_27043666;chr3R_27044665_27044764 0.00 0.00 0.07 0.07 0.00 0.00 0.00 0.11 0.00 0.00 0.00 0.03 0.00 0.00 0.00 0.11 0.00 0.00 0.00 0.00 0.21 0.00 0.00 0.00 0.00 0.00 0.19 0.40 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.05 0.00 0.00 0.00 0.00 0.06 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Ppn,F_chr3R_24347009_24347078 chr3R - chr3R_24348983_24349248 chr3R_24348982_24348983;chr3R_24349248_24349249 chr3R_24348417_24348982;chr3R_24349249_24349345 12.50 16.28 12.50 11.67 12.00 18.18 17.65 13.41 12.50 25.00 15.00 9.30 6.67 6.67 15.22 23.53 14.29 18.92 15.38 10.09 5.26 0.00 12.20 7.69 14.81 0.00 7.32 NA 31.25 NA 0.00 14.29 NA 25.00 NA 14.63 9.62 9.52 9.80 17.02 0.00 10.26 18.18 15.00 13.04 10.00 8.33 9.52 13.33 15.38 11.76 5.88 15.79 0.00 5.26 14.81 10.17 18.18 K intron_retention CG1021,I_chr3R_2217711_2231390,RI_chr3R_2217711_2231463,I_chr3R_2218465_2231390,RI_chr3R_2218465_2231463,I_chr3R_2218682_2231463,I_chr3R_2219634_2231390,I_chr3R_2231271_2231390,I_chr3R_2231285_2231463,I_chr3R_2231383_2231463 chr3R - chr3R_2231383_2231463 chr3R_2231382_2231383;chr3R_2231463_2231464 chr3R_2231283_2231382;chr3R_2231464_2231490 95.00 88.89 100.00 95.83 100.00 95.00 95.65 100.00 86.84 89.47 100.00 87.88 96.43 95.24 95.24 96.43 100.00 91.67 95.00 96.77 93.33 76.19 90.62 96.43 95.45 93.75 92.31 84.62 95.00 95.00 90.48 91.67 95.83 86.67 96.43 97.06 95.00 94.74 95.00 82.35 96.97 97.14 92.31 86.21 94.44 75.68 82.61 85.00 88.24 96.55 88.24 100.00 96.88 93.75 91.67 90.91 100.00 89.58 K jcn_only_AD Chc,RI_chrX_15728405_15729273,I_chrX_15728405_15729401,I_chrX_15728946_15729357 chrX - chrX_15728405_15729260;chrX_15728405_15729370;chrX_15728405_15729357;chrX_15728405_15729319 chrX_15728405_15729476 chrX_15728305_15728404;chrX_15729477_15729501 0.00 0.83 0.53 1.17 0.00 0.00 0.00 0.50 0.29 0.00 0.00 1.14 0.00 1.08 1.83 0.23 2.13 0.00 0.84 0.54 0.00 0.55 0.45 0.00 0.00 0.00 0.00 0.00 0.00 0.91 1.12 0.00 0.00 0.48 0.00 0.00 0.00 0.00 0.00 0.53 0.00 1.53 1.14 0.00 NA 0.00 0.00 0.92 0.43 0.00 0.62 0.00 0.00 0.00 0.56 0.00 0.00 0.00 K alternative_donor CG32772,CG6903 chrX + chrX_4803353_4803484;chrX_4803242_4803484;chrX_4803206_4803484 chrX_4803395_4803484 chrX_4803485_4803830;chrX_4803181_4803205 50.00 NA NA 50.00 NA NA 25.00 100.00 60.00 NA NA 25.00 NA 40.00 NA 50.00 NA NA 66.67 NA NA NA NA NA NA 66.67 NA NA NA NA NA NA NA 60.00 NA NA NA NA NA NA NA 50.00 33.33 NA NA 50.00 NA NA 100.00 NA NA NA NA NA NA NA NA 14.29 K alternative_acceptor Papss chr3L + chr3L_19838529_19838634;chr3L_19838529_19838596 chr3L_19838529_19838611 chr3L_19838397_19838528;chr3L_19838635_19838730 62.20 41.67 50.00 44.44 83.33 NA 50.00 72.22 61.90 42.86 28.57 57.89 50.00 66.67 77.78 52.94 57.14 70.00 72.73 60.71 NA 83.33 66.67 61.54 63.64 50.00 50.00 42.86 75.00 70.00 61.54 NA 84.62 57.14 55.56 50.00 64.29 75.00 75.00 75.00 75.00 59.26 66.67 42.86 85.71 75.00 58.33 83.33 72.22 45.45 69.23 60.00 50.00 62.50 57.14 66.67 64.29 73.68 K alternative_acceptor jim,I_chr3L_22791582_22791898 chr3L - chr3L_22792291_22792350 chr3L_22792303_22792350 chr3L_22792351_22792548;chr3L_22791902_22792290 3.00 3.23 6.67 3.92 3.85 4.55 0.00 3.33 2.27 0.00 NA 3.85 0.00 0.00 0.00 0.00 0.00 4.17 3.85 0.00 0.00 2.78 3.39 2.70 3.23 3.45 0.00 3.45 5.56 2.78 4.76 NA 7.69 5.00 0.00 3.23 2.33 2.27 1.85 1.67 NA 4.17 6.25 2.13 0.00 4.35 3.70 6.52 0.00 4.00 4.76 0.00 0.00 0.00 0.00 6.67 0.00 7.41 K jcn_only_AD chico,I_chr2L_10246534_10246899 chr2L - chr2L_10246040_10246184;chr2L_10246040_10247024;chr2L_10246040_10246755;chr2L_10246040_10246899 chr2L_10246040_10246867 chr2L_10245878_10246039;chr2L_10247025_10247051 9.09 13.16 6.38 8.33 4.17 11.54 10.42 15.87 10.11 NA 12.12 11.69 2.56 8.82 7.89 12.82 9.38 15.00 9.62 11.24 12.90 2.33 4.29 17.39 10.00 20.00 16.33 9.76 20.00 4.55 6.25 4.00 13.16 10.17 3.23 8.51 2.90 11.32 8.77 3.70 NA 13.85 11.11 8.20 8.33 5.88 3.12 9.09 9.76 4.88 6.90 6.06 13.16 4.55 6.52 3.33 0.00 10.81 K jcn_only_AA I_chr4_247410_247797,yellow-h,R_chr4_261460_261560,I_chr4_264634_265805 chr4 + chr4_248867_249562 chr4_248867_249530 chr4_248662_248866;chr4_249563_249805 100.00 NA 100.00 100.00 NA NA 100.00 100.00 100.00 NA NA 97.56 NA 95.83 100.00 95.74 100.00 NA 100.00 100.00 NA NA 100.00 NA NA NA NA NA NA NA 100.00 NA NA 100.00 NA NA NA NA NA 100.00 NA 100.00 NA NA NA NA NA NA 100.00 NA 100.00 NA NA NA 100.00 NA NA NA K intron_retention CG9588,omd chr3R - chr3R_9501459_9501522 chr3R_9501458_9501459;chr3R_9501522_9501523 chr3R_9500847_9501458;chr3R_9501523_9501849 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 13.04 0.00 0.00 0.00 0.00 0.00 0.00 4.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.35 4.44 2.56 0.00 0.00 0.00 0.00 0.00 0.00 3.45 0.00 0.00 0.00 0.00 K alternative_donor Nmda1,R_chr2R_8766216_8766562,I_chr2R_8766652_8766956,I_chr2R_8766728_8766791,I_chr2R_8766728_8767623 chr2R - chr2R_8766652_8766956 chr2R_8766652_8766727 chr2R_8766628_8766651;chr2R_8766957_8766983 50.00 NA 42.86 NA NA NA 85.71 87.50 44.44 NA NA 42.86 NA NA NA 50.00 NA NA NA 33.33 NA NA NA NA NA NA NA 93.33 NA NA 50.00 NA NA 42.86 NA NA 42.86 NA NA 83.33 NA 50.00 NA 42.86 NA NA NA NA 60.00 NA NA NA NA NA NA NA NA 50.00 K jcn_only_AD CG11163,I_chr2R_1666219_1669711 chr2R - chr2R_1666219_1670203;chr2R_1666219_1670219;chr2R_1666219_1670325;chr2R_1666219_1670281 chr2R_1666219_1669803 chr2R_1666119_1666218;chr2R_1670326_1670328 12.90 4.55 10.81 15.00 10.00 4.00 20.00 7.27 5.45 16.00 10.00 6.25 0.00 12.12 9.68 17.91 10.53 16.00 27.27 6.94 0.00 NA 7.69 21.74 NA 14.29 18.52 NA 12.90 13.04 8.51 22.58 17.24 9.09 17.39 35.00 23.81 NA NA 5.56 12.12 12.28 12.90 15.22 9.52 7.41 NA 16.22 11.11 19.05 28.57 13.64 14.29 NA 10.53 NA 28.57 14.29 K intron_retention bbc,I_chr2R_9376554_9377246,REI_chr2R_9379401_9381986 chr2R - chr2R_9375638_9378939 chr2R_9375637_9375638;chr2R_9378939_9378940 chr2R_9375479_9375637;chr2R_9378940_9379098 49.35 47.96 60.87 40.00 45.33 53.70 45.04 53.66 54.49 54.05 37.89 56.10 38.53 58.93 55.56 48.74 50.75 40.00 50.00 45.51 34.91 76.47 56.47 46.77 45.45 50.00 48.03 49.51 35.64 57.97 63.77 58.54 54.17 55.14 59.52 36.36 47.37 57.78 42.48 44.90 30.30 48.03 45.45 49.35 26.92 49.15 59.02 61.76 47.90 40.66 52.08 50.00 40.00 52.54 50.57 45.35 39.29 51.85 K jcn_only_AA Eb1,RI_chr2R_2640290_2642206,I_chr2R_2640494_2642206,I_chr2R_2641187_2642206,RI_chr2R_2641944_2642025,I_chr2R_2641954_2642206,I_chr2R_2642491_2642549 chr2R + chr2R_2641944_2642206 chr2R_2641944_2642025 chr2R_2641854_2641943;chr2R_2642207_2642306 0.41 0.28 0.19 0.16 0.00 0.00 0.20 0.35 0.69 0.45 0.74 0.38 0.66 0.75 0.00 0.23 0.22 0.19 0.20 0.41 0.18 2.09 0.33 0.44 0.73 0.67 0.63 2.22 0.79 0.60 0.90 1.24 0.94 0.00 0.16 0.94 0.39 0.62 0.33 1.36 1.39 0.26 0.25 1.45 0.81 0.46 0.21 0.84 0.31 1.51 0.51 0.44 0.00 0.13 0.30 0.75 0.12 0.00 K intron_retention I_chr2L_837379_847733,CG4291 chr2L - chr2L_852443_852498 chr2L_852442_852443;chr2L_852498_852499 chr2L_851718_852442;chr2L_852499_852571 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 5.06 0.00 0.00 0.00 0.00 6.25 7.41 22.73 0.00 0.00 0.00 0.00 0.00 0.00 2.94 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG8334,I_chr3L_19870731_19870822 chr3L + chr3L_19870731_19871932 chr3L_19870730_19870731;chr3L_19871932_19871933 chr3L_19870684_19870730;chr3L_19871933_19872579 5.28 NA 4.76 8.62 0.00 4.00 10.81 8.51 4.26 NA 11.76 10.53 5.00 11.76 0.00 0.00 0.00 12.50 4.35 12.20 NA 7.32 4.35 5.56 NA 0.00 12.50 0.00 0.00 7.69 6.90 6.25 4.17 9.38 0.00 20.69 8.70 0.00 0.00 10.87 4.55 7.84 0.00 5.56 3.57 3.70 NA 6.25 0.00 NA 11.11 NA NA NA 7.14 NA NA 2.86 K intron_retention Fak56D,F_chr2R_15323055_15323097 chr2R - chr2R_15319898_15321006 chr2R_15319897_15319898;chr2R_15321006_15321007 chr2R_15319808_15319897;chr2R_15321007_15321146 2.94 0.00 0.00 10.81 0.00 0.00 0.00 7.69 1.85 33.33 11.76 2.94 0.00 0.00 0.00 15.38 NA 0.00 NA 4.44 13.33 NA 0.00 NA NA 0.00 7.69 14.29 NA NA 7.41 NA NA 8.00 NA 14.29 0.00 12.50 5.26 8.33 13.33 5.13 0.00 0.00 NA 0.00 NA 5.88 0.00 0.00 NA NA NA NA 4.35 NA NA 0.00 K intron_retention Past1,I_chr3R_8529216_8529360 chr3R + chr3R_8529216_8529360 chr3R_8529215_8529216;chr3R_8529360_8529361 chr3R_8529116_8529215;chr3R_8529361_8529460 88.89 NA NA NA NA NA NA NA NA NA NA 69.23 NA NA NA NA NA NA NA NA NA 92.31 91.67 88.89 NA NA 91.67 91.30 60.00 NA NA NA 77.78 NA NA NA 90.91 NA 75.00 94.12 100.00 78.57 NA 88.89 NA 83.33 88.89 68.75 NA NA 88.89 NA NA NA NA NA NA 100.00 K intron_retention C3G chrX - chrX_6681300_6681383 chrX_6681299_6681300;chrX_6681383_6681384 chrX_6681291_6681299;chrX_6681384_6681553 94.37 93.02 85.37 96.00 94.29 88.89 91.57 97.73 92.31 95.83 96.97 89.86 96.30 83.33 90.48 92.68 97.06 89.19 97.67 91.76 97.56 98.33 93.55 97.83 94.94 96.61 93.75 95.00 96.88 83.72 86.05 96.67 94.44 96.49 93.18 98.90 94.44 100.00 96.83 92.42 97.96 91.86 94.12 90.91 96.15 97.78 83.33 94.37 96.92 95.24 93.33 92.59 88.89 85.00 87.76 93.55 100.00 94.87 K intron_retention CG17255,I_chrX_10366177_10366615,RI_chrX_10366177_10367270 chrX - chrX_10366177_10367360 chrX_10366176_10366177;chrX_10367360_10367361 chrX_10366077_10366176;chrX_10367361_10367370 56.70 56.25 57.14 57.14 55.56 55.56 60.00 87.50 55.56 87.50 81.82 57.58 55.00 75.00 47.83 56.25 47.83 46.67 56.00 75.00 47.06 46.15 50.00 63.16 69.23 42.11 63.16 90.00 72.73 53.33 53.85 NA 56.00 67.50 56.25 NA 40.91 70.00 50.00 58.82 NA 58.54 75.00 45.45 NA 60.00 NA 62.50 63.41 60.00 57.69 45.45 NA NA 56.00 NA NA 46.15 K intron_retention qkr58E-2,I_chr2R_18305142_18305207 chr2R + chr2R_18305142_18305207 chr2R_18305141_18305142;chr2R_18305207_18305208 chr2R_18305042_18305141;chr2R_18305208_18305307 98.18 97.50 97.56 100.00 100.00 100.00 98.68 97.40 99.19 95.65 97.14 98.82 100.00 97.73 97.67 96.67 98.00 100.00 94.44 99.11 100.00 98.00 98.18 97.83 100.00 97.83 98.15 97.06 97.50 95.12 98.08 100.00 100.00 98.88 100.00 100.00 97.67 100.00 100.00 98.46 100.00 98.98 97.37 100.00 97.78 98.57 100.00 97.67 98.98 97.87 98.08 100.00 97.22 100.00 100.00 96.08 98.11 94.81 K intron_retention CG14899 chr3R - chr3R_12309506_12309589 chr3R_12309505_12309506;chr3R_12309589_12309590 chr3R_12308985_12309505;chr3R_12309590_12309923 1.85 2.01 0.00 4.46 0.00 0.00 1.98 3.85 3.09 0.00 1.49 1.33 4.84 4.55 1.32 7.04 1.92 3.03 0.00 4.09 0.00 3.51 1.14 2.63 2.27 0.00 3.57 4.21 3.81 0.00 0.00 0.00 3.17 0.00 2.78 0.00 0.50 1.31 0.99 1.99 0.00 2.01 1.85 0.00 2.27 5.31 1.61 0.00 4.51 1.75 3.25 1.22 2.41 1.71 3.17 2.61 1.68 0.00 K intron_retention EF_chr2R_8548702_8595112,nemy chr2R - chr2R_8559647_8559706 chr2R_8559646_8559647;chr2R_8559706_8559707 chr2R_8559062_8559646;chr2R_8559707_8560092 99.31 99.15 98.21 99.04 98.36 98.55 98.91 98.88 100.00 99.07 100.00 99.20 97.22 98.46 100.00 100.00 100.00 97.26 100.00 99.35 100.00 99.40 100.00 98.86 99.00 100.00 99.31 99.19 99.35 99.26 100.00 98.95 100.00 98.99 99.06 100.00 99.54 98.75 99.50 99.48 99.12 99.33 100.00 98.29 99.31 99.32 100.00 100.00 99.32 99.31 99.53 98.98 97.95 97.69 98.86 100.00 98.65 99.38 N jcn_only_AA Adgf-A,Msi,F_chr3L_17749926_17757161 chr3L - chr3L_17749920_17757161;chr3L_17747522_17757161;chr3L_17756677_17757161 chr3L_17747526_17757161 chr3L_17757162_17757241 72.75 71.49 70.49 70.81 70.95 72.21 71.28 73.29 73.25 66.45 72.11 74.17 74.13 74.31 75.63 72.75 76.85 76.97 73.83 73.85 74.20 74.55 70.24 76.36 69.15 74.20 69.92 74.43 69.18 69.47 76.68 74.01 73.03 68.99 67.06 75.43 71.86 72.32 74.25 69.77 71.89 73.55 67.32 71.84 73.79 71.77 70.74 70.05 74.96 80.46 67.40 71.51 73.92 78.08 76.64 73.39 70.22 71.34 K cassette CG6206,I_chr2L_10459281_10459879,I_chr2L_10459518_10459620,I_chr2L_10459518_10459661 chr2L + chr2L_10459281_10459879;chr2L_10459281_10459661 chr2L_10459281_10459383;chr2L_10459518_10459661,chr2L_10459518_10459879 chr2L_10459384_10459517 chr2L_10459181_10459280;chr2L_10459880_10459979 100.00 100.00 100.00 99.02 100.00 100.00 100.00 100.00 100.00 100.00 96.67 100.00 100.00 100.00 100.00 97.92 97.22 100.00 100.00 100.00 100.00 100.00 97.87 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.48 100.00 100.00 93.33 100.00 100.00 100.00 100.00 100.00 97.37 100.00 100.00 100.00 100.00 100.00 98.70 100.00 100.00 94.74 100.00 100.00 98.00 100.00 100.00 96.67 K intron_retention CG9240 chrX - chrX_15594841_15595021 chrX_15594840_15594841;chrX_15595021_15595022 chrX_15594205_15594840;chrX_15595022_15595215 0.00 1.59 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.12 0.00 2.11 0.00 0.00 1.59 0.00 0.00 0.00 3.39 5.56 4.17 0.00 0.00 0.00 3.70 0.00 4.76 4.17 0.00 0.00 2.27 2.22 0.00 0.00 0.00 0.00 3.12 0.00 1.54 0.00 0.00 4.35 1.75 0.00 1.67 0.00 2.17 2.99 4.62 0.00 K intron_retention ras chrX + chrX_10639523_10639710 chrX_10639522_10639523;chrX_10639710_10639711 chrX_10639459_10639522;chrX_10639711_10639997 7.92 7.69 16.13 7.84 10.00 13.04 3.70 6.52 5.88 NA 6.25 8.82 3.45 5.13 11.54 5.13 7.41 4.35 16.67 10.34 6.25 7.14 10.64 9.09 10.53 4.76 20.00 34.48 40.00 5.88 8.82 7.69 NA 9.30 0.00 0.00 20.00 8.00 14.81 5.71 NA 5.97 12.50 10.00 7.14 9.52 7.69 NA 3.92 14.71 7.32 10.53 9.09 NA 5.71 7.69 13.79 8.33 K intron_retention eIF5B,I_chr3L_3429084_3443457,I_chr3L_3432366_3445364 chr3L - chr3L_3429084_3432203 chr3L_3429083_3429084;chr3L_3432203_3432204 chr3L_3428984_3429083;chr3L_3432204_3432365 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.25 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.64 0.00 0.00 0.00 0.00 0.00 0.40 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.40 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention I_chr2R_16158045_16158109,CG11788 chr2R + chr2R_16162234_16162292 chr2R_16162233_16162234;chr2R_16162292_16162293 chr2R_16162174_16162233;chr2R_16162293_16163432 8.00 25.00 0.00 NA 10.00 6.67 5.88 9.09 7.55 NA NA 0.00 0.00 0.00 9.09 6.67 10.00 0.00 8.00 12.50 3.85 19.05 20.00 21.43 NA NA 14.29 10.00 NA NA 27.78 NA 7.41 4.35 NA NA 0.00 10.53 6.67 16.67 NA 5.13 0.00 6.67 13.04 8.33 NA 4.55 5.26 9.52 11.76 7.14 0.00 0.00 13.04 12.50 8.33 8.33 K intron_retention CG33558,I_chr2R_2816779_2817354,RI_chr2R_2817876_2819347,I_chr2R_2820149_2820628,EI_chr2R_2820947_2821570,CREI_chr2R_2832933_2850384 chr2R - chr2R_2817876_2820628 chr2R_2817875_2817876;chr2R_2820628_2820629 chr2R_2817851_2817875;chr2R_2820629_2820728 20.00 20.00 NA NA NA NA 36.36 33.33 25.00 NA NA NA NA NA NA NA NA NA NA NA NA 8.00 15.15 25.00 NA NA 15.38 NA NA NA NA NA NA 30.77 NA NA 20.00 0.00 14.29 37.50 20.00 31.82 NA NA NA 11.11 12.50 25.00 33.33 2.56 12.50 NA NA 4.76 NA NA NA 41.67 N jcn_only_AD CG9338,CG31675 chr2L + chr2L_20865586_20866935 chr2L_20866001_20866935 chr2L_20866936_20867640;chr2L_20865412_20865585 0.00 2.73 0.00 6.67 0.00 0.00 0.00 3.48 2.95 0.00 0.00 3.62 0.00 3.98 0.00 0.00 0.00 0.00 0.00 3.22 0.00 0.00 5.84 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.67 5.44 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.02 0.00 0.00 0.00 0.00 0.00 0.00 4.46 0.00 2.88 0.00 0.00 0.00 3.17 3.79 0.00 0.00 K cassette CG14764,RI_chr2R_3841817_3841882 chr2R - chr2R_3836026_3842817 chr2R_3836026_3841406;chr2R_3841817_3842817 chr2R_3841407_3841816 chr2R_3835926_3836025;chr2R_3842818_3843324 100.00 97.78 100.00 98.84 100.00 100.00 98.59 100.00 100.00 100.00 100.00 98.86 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.88 100.00 100.00 100.00 100.00 98.21 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.06 100.00 K alternative_donor CG10080 chr2R + chr2R_17517559_17517991 chr2R_17517589_17517991 chr2R_17517992_17518052;chr2R_17517196_17517558 30.56 30.56 32.14 22.50 38.89 33.33 26.32 11.11 24.00 22.22 32.00 31.91 25.93 31.03 20.00 22.86 19.35 26.67 28.00 21.62 26.67 48.84 30.30 33.33 35.29 17.24 31.43 16.22 31.43 23.81 37.04 32.00 32.00 18.00 50.00 42.11 28.81 27.78 38.89 24.39 26.67 26.09 26.09 36.00 40.91 42.42 40.91 38.10 37.04 26.09 37.50 32.00 28.00 36.84 26.67 21.05 31.82 31.03 K alternative_acceptor CG32202 chr3L + chr3L_18675478_18675538 chr3L_18675478_18675524 chr3L_18675302_18675477;chr3L_18675539_18675973 4.35 NA 0.00 9.68 NA 0.00 3.03 5.13 2.56 NA 0.00 0.00 NA 9.52 10.53 3.03 NA 0.00 0.00 3.17 0.00 5.00 17.24 5.56 7.69 4.35 35.71 13.33 0.00 0.00 9.09 14.29 9.09 5.56 0.00 NA NA 0.00 4.76 3.45 8.70 6.67 6.25 0.00 9.09 0.00 0.00 0.00 2.94 11.11 4.76 NA 0.00 5.88 6.25 11.76 3.85 3.03 K alternative_donor Khc,EI_chr2R_12157759_12157824 chr2R - chr2R_12157759_12158843 chr2R_12157759_12157824 chr2R_12157659_12157758;chr2R_12158844_12159487 1.67 1.77 1.96 2.91 0.92 1.00 1.71 1.85 1.97 1.11 2.11 2.90 2.08 1.08 0.85 1.55 0.95 2.15 1.80 1.81 0.93 4.03 1.13 1.79 1.15 0.76 2.16 4.00 2.80 1.41 3.54 2.08 1.67 2.30 1.18 0.91 2.09 0.87 1.28 1.91 2.00 1.58 1.19 1.28 1.72 0.89 1.98 1.95 1.61 1.74 1.56 2.41 1.67 1.32 1.43 1.00 1.27 1.54 K intron_retention Dscam,I_chr2R_3244812_3249222,FI_chr2R_3249373_3251385,FI_chr2R_3251554_3255892 chr2R - chr2R_3249373_3250836 chr2R_3249372_3249373;chr2R_3250836_3250837 chr2R_3249273_3249372;chr2R_3250837_3250956 47.83 NA NA 47.83 NA NA NA 45.45 NA NA NA NA NA NA NA NA NA NA 69.23 NA NA 73.33 NA NA NA NA NA NA NA 14.29 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG32529 chrX + chrX_19781526_19793044 chrX_19781525_19781526;chrX_19793044_19793045 chrX_19781512_19781525;chrX_19793045_19793075 58.47 NA 71.43 56.67 NA 50.00 68.00 64.71 53.33 NA NA 61.29 55.00 63.16 75.00 67.86 72.73 NA 36.84 55.56 60.00 38.46 53.85 NA NA 72.73 76.92 NA 42.86 33.33 65.00 NA 37.50 45.16 58.33 28.57 NA NA NA 61.11 NA 58.62 88.89 NA NA 53.85 NA 39.29 66.67 NA 64.71 63.64 NA NA 55.56 NA NA 38.89 K intron_retention CG8412,I_chr3R_5583152_5583200 chr3R + chr3R_5582727_5582786 chr3R_5582726_5582727;chr3R_5582786_5582787 chr3R_5582260_5582726;chr3R_5582787_5582915 0.00 0.00 0.00 5.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.70 0.00 0.00 0.00 1.39 0.00 2.08 0.00 0.00 0.00 4.17 0.00 0.00 2.13 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette Stim chrX - chrX_15831788_15832790 chrX_15831788_15832264;chrX_15832369_15832790 chrX_15832265_15832368 chrX_15831624_15831787;chrX_15832791_15833231 3.81 5.97 2.70 1.67 2.86 1.92 1.52 1.68 2.41 3.23 9.09 1.08 0.00 5.56 2.70 5.56 1.67 4.62 1.41 3.81 6.98 7.32 5.45 4.41 5.41 1.41 2.56 2.33 3.23 10.81 15.62 5.26 5.13 3.26 5.71 0.00 6.45 1.61 4.11 5.66 3.23 2.24 3.92 3.85 4.17 8.33 6.52 9.09 3.88 2.04 7.14 3.85 0.00 3.70 2.63 6.52 2.44 2.94 K intron_retention Atx2,CE_chr3R_11234606_11238462 chr3R + chr3R_11234912_11237842 chr3R_11234911_11234912;chr3R_11237842_11237843 chr3R_11234821_11234911;chr3R_11237843_11238243 0.00 0.00 0.00 6.25 0.00 3.12 5.00 0.00 3.00 0.00 0.00 1.59 0.00 0.00 2.38 0.00 3.45 9.09 9.68 1.30 0.00 9.68 3.64 0.00 0.00 0.00 3.08 2.47 5.56 2.08 12.50 NA 0.00 1.67 3.23 0.00 0.00 0.00 1.15 0.00 0.00 2.35 0.00 0.00 3.45 0.00 0.00 0.00 0.00 0.00 4.62 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Dsp1,I_chrX_16231287_16231413 chrX + chrX_16227752_16228333 chrX_16227751_16227752;chrX_16228333_16228334 chrX_16227698_16227751;chrX_16228334_16228446 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.86 100.00 95.45 98.28 97.50 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K multi_cassette CG6854,E_chr3L_15091621_15103920,chr3L_15091617_15091865.0,chr3L_15093344_15094204.0,chr3L_15094261_15095048.0,RI_chr3L_15102059_15102345 chr3L + chr3L_15091617_15102643 chr3L_15091617_15101715;chr3L_15102059_15102437;chr3L_15102588_15102643 chr3L_15101716_15102058;chr3L_15102438_15102587 chr3L_15091548_15091616;chr3L_15102644_15103437 100.00 100.00 100.00 87.50 100.00 100.00 100.00 87.50 100.00 87.50 100.00 100.00 80.00 100.00 100.00 100.00 100.00 100.00 100.00 91.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 88.89 90.00 90.91 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 90.00 100.00 100.00 100.00 100.00 100.00 83.33 88.89 88.89 87.50 100.00 K intron_retention Arp14D,RE_chrX_16445264_16446372 chrX - chrX_16443182_16443253 chrX_16443181_16443182;chrX_16443253_16443254 chrX_16442302_16443181;chrX_16443254_16443445 99.28 100.00 98.48 99.21 100.00 96.61 99.03 100.00 97.58 100.00 94.59 99.15 100.00 100.00 98.65 100.00 98.33 98.55 98.73 100.00 97.87 97.73 97.44 97.62 100.00 98.44 100.00 100.00 100.00 100.00 98.80 100.00 100.00 100.00 100.00 100.00 97.30 95.83 100.00 98.97 98.86 99.28 100.00 100.00 98.51 100.00 92.31 100.00 99.28 100.00 97.44 100.00 100.00 100.00 98.82 100.00 98.04 98.37 K intron_retention AGO1,I_chr2R_9844856_9845327 chr2R - chr2R_9838423_9839118 chr2R_9838422_9838423;chr2R_9839118_9839119 chr2R_9837637_9838422;chr2R_9839119_9839193 0.00 0.00 0.00 3.92 0.00 3.12 0.00 0.00 0.00 0.00 0.00 1.11 0.00 0.00 0.00 0.00 2.27 0.00 0.00 2.35 0.00 0.75 0.00 0.00 0.00 0.00 0.00 1.41 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.94 0.00 0.00 0.00 0.00 0.00 0.00 2.60 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 K cassette CG32000,I_chr4_154340_157504,I_chr4_154551_155461,I_chr4_157794_157864 chr4 + chr4_157794_158016 chr4_157794_157848;chr4_157959_158016 chr4_157849_157958 chr4_157699_157793;chr4_158017_158243 96.55 97.44 93.62 93.46 97.14 97.62 96.77 98.01 94.81 92.86 97.14 99.09 98.28 97.10 98.15 95.86 95.08 95.83 95.79 96.67 96.30 100.00 94.29 92.00 86.21 82.54 97.37 100.00 83.33 96.55 97.37 90.91 100.00 94.89 97.06 96.30 94.74 93.33 95.83 97.62 92.31 96.59 96.88 97.44 88.89 93.33 100.00 94.29 97.78 100.00 97.56 96.55 88.89 100.00 95.59 92.31 100.00 100.00 K intron_retention UbcD2,noncoding_2473,CG6724 chr2L - chr2L_10767013_10767656 chr2L_10767012_10767013;chr2L_10767656_10767657 chr2L_10766391_10767012;chr2L_10767657_10767740 1.04 0.00 0.00 1.28 0.00 0.00 1.72 3.14 2.02 0.00 0.98 2.23 0.00 0.00 1.77 1.59 2.78 0.00 2.15 1.04 1.09 1.41 0.00 3.12 0.00 1.94 3.57 2.78 2.08 0.00 1.22 0.00 0.00 1.35 0.00 0.00 1.65 2.11 0.00 2.53 0.00 1.03 1.03 0.00 0.00 0.00 0.00 2.29 1.09 2.82 2.44 2.50 0.00 0.00 3.51 0.00 0.00 2.00 K intron_retention CG16791 chr3R - chr3R_17149250_17149337 chr3R_17149249_17149250;chr3R_17149337_17149338 chr3R_17149161_17149249;chr3R_17149338_17149475 0.00 0.00 0.00 1.54 0.00 0.00 0.00 0.00 1.43 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 9.09 4.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Zn72D,RF_chr3L_16100887_16102721,I_chr3L_16105199_16105253 chr3L - chr3L_16102155_16102721 chr3L_16102154_16102155;chr3L_16102721_16102722 chr3L_16102090_16102154;chr3L_16102722_16102821 20.00 20.00 20.00 20.83 NA 26.67 28.57 28.57 24.14 NA 22.22 21.88 NA 40.00 30.00 29.41 NA NA NA 15.15 25.00 0.00 15.62 20.00 23.08 NA 16.67 23.53 26.09 26.92 11.86 19.05 6.25 29.73 15.00 15.00 26.09 35.29 28.57 15.15 10.71 23.08 25.00 9.09 12.50 18.75 15.00 12.50 34.48 NA 18.52 NA 21.05 NA 19.05 13.33 0.00 17.14 K multi_cassette trol,I_chrX_2387249_2389980,I_chrX_2389272_2395659,I_chrX_2391522_2395659 chrX - chrX_2387249_2395659 chrX_2387249_2392054;chrX_2392149_2392515;chrX_2392665_2395659 chrX_2392055_2392148;chrX_2392516_2392664 chrX_2387149_2387248;chrX_2395660_2395759 0.00 0.00 0.00 0.00 0.00 1.54 0.00 0.00 0.59 0.00 0.00 1.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.27 0.00 0.00 0.00 0.00 0.00 6.67 0.00 0.00 0.00 0.00 1.01 0.76 0.00 0.00 0.00 0.00 0.00 0.99 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 K intron_retention Mkp3 chr3L - chr3L_19063200_19078420 chr3L_19063199_19063200;chr3L_19078420_19078421 chr3L_19063082_19063199;chr3L_19078421_19079522 3.97 2.70 4.44 5.13 7.69 4.17 4.76 1.43 6.45 2.86 2.56 7.14 8.33 4.65 4.44 10.42 0.00 5.00 6.52 4.58 7.69 3.37 4.65 5.84 5.38 4.17 3.26 3.23 4.26 4.72 0.00 1.59 0.00 7.14 4.48 3.75 3.97 2.36 2.54 2.27 3.19 5.21 5.26 2.65 5.06 1.92 1.80 0.00 9.38 2.56 2.50 3.61 2.20 5.06 1.72 2.44 1.52 2.11 K intron_retention CG1746,I_chr3R_27042457_27043461,RNaseP:RNA,RI_chr3R_27044771_27045268 chr3R - chr3R_27042457_27043461 chr3R_27042456_27042457;chr3R_27043461_27043462 chr3R_27042432_27042456;chr3R_27043462_27043561 100.00 99.22 100.00 100.00 99.00 100.00 99.62 99.72 100.00 97.83 100.00 99.54 100.00 100.00 100.00 99.76 99.35 100.00 100.00 99.44 100.00 91.57 100.00 100.00 100.00 100.00 100.00 98.33 94.87 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.61 100.00 98.41 99.19 100.00 99.63 100.00 100.00 100.00 99.24 99.00 100.00 100.00 99.04 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor CG2225,Ef2b,I_chr2L_21681559_21681721,I_chr2L_21681559_21682037,I_chr2L_21681559_21737600,I_chr2L_21681561_21682041,I_chr2L_21681805_21682038 chr2L - chr2L_21681559_21682038 chr2L_21681805_21682038 chr2L_21682039_21682137;chr2L_21681461_21681558 0.01 0.00 0.03 0.01 0.00 0.00 0.03 0.02 0.01 0.00 0.00 0.03 0.00 0.03 0.00 0.02 0.00 0.00 0.00 0.00 0.00 0.04 0.03 0.02 0.06 0.03 0.05 0.07 0.05 0.02 0.03 0.00 0.03 0.00 0.00 0.02 0.02 0.00 0.02 0.04 0.17 0.01 0.00 0.00 0.00 0.04 0.00 0.00 0.01 0.03 0.03 0.00 0.03 0.00 0.00 0.00 0.02 0.00 K alternative_donor drk,RI_chr2R_9389255_9389317,I_chr2R_9389597_9389751,I_chr2R_9389597_9389907,I_chr2R_9389597_9389940,I_chr2R_9389597_9390151,I_chr2R_9389597_9390271,I_chr2R_9389714_9390195 chr2R - chr2R_9389597_9390195;chr2R_9389597_9390151;chr2R_9389597_9389907;chr2R_9389597_9389940;chr2R_9389597_9390293;chr2R_9389597_9389751;chr2R_9389597_9390264;chr2R_9389597_9389757 chr2R_9389597_9389753 chr2R_9389497_9389596;chr2R_9390294_9390295 5.26 5.26 2.44 6.78 4.17 3.33 1.85 3.23 4.82 6.67 3.12 6.67 3.33 3.70 2.86 7.69 3.85 2.86 5.13 4.90 3.23 4.35 5.71 8.33 8.70 8.11 9.52 6.67 6.25 0.00 2.50 6.67 12.50 4.92 5.56 3.85 4.76 7.69 4.35 2.63 11.11 9.59 5.26 5.56 7.14 5.56 5.26 8.00 6.06 6.25 4.76 4.17 4.76 0.00 7.69 11.76 3.12 8.33 K intron_retention CG2118,I_chr3R_27617744_27617821,I_chr3R_27619193_27619598 chr3R - chr3R_27617807_27617865 chr3R_27617806_27617807;chr3R_27617865_27617866 chr3R_27617515_27617806;chr3R_27617866_27617921 0.00 NA 0.00 9.52 0.00 0.00 5.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 8.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 15.38 0.00 0.00 4.35 0.00 NA 0.00 0.00 0.00 0.00 NA 4.26 0.00 0.00 0.00 7.41 NA 0.00 4.65 0.00 4.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention AGO2 chr3L + chr3L_15552104_15552199 chr3L_15552103_15552104;chr3L_15552199_15552200 chr3L_15551494_15552103;chr3L_15552200_15552361 0.00 0.31 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.38 0.86 1.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.41 0.00 0.00 0.53 0.00 0.00 0.19 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor CG17683,I_chr2R_18774_18869 chr2R + chr2R_18774_18826;chr2R_18774_18869 chr2R_18774_18851 chr2R_18768_18773;chr2R_18870_18969 10.55 20.00 25.00 10.00 14.29 16.67 15.00 8.00 4.55 0.00 0.00 5.56 14.29 0.00 9.09 18.75 9.09 0.00 9.09 18.75 20.00 9.09 18.18 33.33 0.00 25.00 8.33 NA 0.00 0.00 15.79 0.00 10.00 5.88 18.18 45.45 0.00 16.67 16.67 16.67 21.43 11.76 8.33 0.00 0.00 18.18 16.67 11.11 6.25 12.50 22.22 12.50 0.00 16.67 6.67 11.11 9.09 7.69 K jcn_only_AA CG8080,RI_chr2R_4978542_4978911,REI_chr2R_4978545_4978911,REI_chr2R_4979159_4979234,I_chr2R_4979276_4979936 chr2R - chr2R_4978557_4978911;chr2R_4978542_4978911 chr2R_4978545_4978911 chr2R_4978912_4979011;chr2R_4978445_4978541 19.20 6.06 21.74 21.74 29.17 22.73 33.33 16.22 15.25 19.35 NA 7.14 10.00 20.00 17.65 13.04 10.00 21.43 26.09 31.82 NA NA 26.47 20.59 33.33 12.90 29.17 NA 13.04 14.71 18.75 9.68 14.63 22.45 NA 3.70 21.74 25.00 9.76 24.24 16.00 22.41 11.54 14.63 14.81 21.67 30.77 19.70 16.92 43.59 17.02 14.29 18.42 19.05 24.32 22.50 23.53 18.18 K intron_retention CG5958 chr2L - chr2L_7430856_7431078 chr2L_7430855_7430856;chr2L_7431078_7431079 chr2L_7430529_7430855;chr2L_7431079_7431540 0.00 0.00 0.00 0.85 1.90 0.00 2.07 1.08 1.49 0.00 0.00 0.00 2.34 0.00 0.00 1.50 0.00 0.00 0.00 0.37 0.69 0.00 0.77 1.23 0.00 0.00 0.00 1.26 0.00 0.00 0.00 0.00 0.00 0.00 0.91 0.00 0.00 0.00 0.00 0.67 0.00 0.45 0.00 0.00 0.00 0.00 1.14 0.00 1.50 0.54 0.53 0.00 0.53 0.00 1.56 1.19 0.71 1.76 K intron_retention Ac78C,F_chr3L_21141024_21153737 chr3L - chr3L_21130895_21130953 chr3L_21130894_21130895;chr3L_21130953_21130954 chr3L_21130666_21130894;chr3L_21130954_21131357 0.00 0.00 0.00 1.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.92 0.00 0.00 0.00 0.00 0.00 0.00 1.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.85 0.00 0.00 0.00 1.47 0.00 0.00 0.00 0.00 1.37 0.00 0.00 0.00 0.00 3.85 0.00 0.00 K jcn_only_AA EI_chr3R_4647896_4648190,CG8379 chr3R + chr3R_4650612_4650676 chr3R_4650612_4650673 chr3R_4650410_4650611;chr3R_4650677_4651130 57.58 58.93 52.78 53.33 69.23 60.53 44.83 64.47 54.39 62.07 52.50 60.38 46.34 69.57 57.58 43.75 NA 57.14 52.63 56.93 64.29 58.82 56.48 57.61 60.38 67.74 51.39 55.71 61.40 68.25 64.52 54.76 47.27 61.02 64.41 50.00 61.70 47.37 54.44 60.24 57.58 49.40 60.61 60.26 61.54 56.45 50.00 59.09 55.66 61.82 54.05 66.15 54.00 68.29 65.12 48.00 51.22 53.12 K jcn_only_AD e(y)3,I_chrX_19530503_19530884,I_chrX_19530503_19531405 chrX - chrX_19530503_19531650;chrX_19530503_19531405;chrX_19530503_19532222 chrX_19530503_19530884 chrX_19530403_19530502;chrX_19532223_19532322 9.33 15.56 8.33 5.56 13.73 3.39 10.42 7.14 8.74 3.57 7.14 3.26 10.20 4.17 5.45 3.45 13.46 10.00 6.25 4.95 5.88 8.20 5.56 9.38 10.34 10.53 8.47 16.67 4.08 9.62 9.43 4.17 12.96 12.79 6.00 10.00 10.00 0.00 9.86 10.00 15.00 6.19 16.67 7.69 21.74 18.60 7.14 9.72 9.28 4.00 11.27 10.91 7.41 NA 19.70 13.04 0.00 18.42 K intron_retention bora chr3L + chr3L_18616165_18616222 chr3L_18616164_18616165;chr3L_18616222_18616223 chr3L_18615694_18616164;chr3L_18616223_18617892 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AD Rab5,I_chr2L_2361586_2364444,RI_chr2L_2361586_2364627,I_chr2L_2361586_2364794 chr2L - chr2L_2361586_2364640;chr2L_2361586_2364480;chr2L_2361586_2364836;chr2L_2361586_2365060;chr2L_2361586_2364302;chr2L_2361586_2364594;chr2L_2361586_2364312 chr2L_2361586_2364889 chr2L_2361486_2361585;chr2L_2365061_2365065 47.54 45.33 48.97 47.54 57.06 49.01 51.11 52.59 50.56 47.96 59.43 51.21 47.37 52.69 49.10 51.88 50.54 46.89 53.57 44.77 55.44 30.70 49.44 47.22 50.00 49.75 43.75 24.72 23.18 19.44 47.83 24.26 14.66 50.56 31.30 15.44 58.55 58.00 56.99 24.66 15.66 46.87 49.32 27.11 27.31 21.88 32.14 18.70 49.73 54.81 41.98 52.14 26.73 35.29 51.60 39.74 46.86 16.42 K intron_retention Hph chr3R + chr3R_1090925_1092474 chr3R_1090924_1090925;chr3R_1092474_1092475 chr3R_1090787_1090924;chr3R_1092475_1092754 71.43 NA 66.67 45.83 NA 87.50 73.33 64.71 64.00 NA NA 91.67 NA NA 63.64 82.35 77.78 66.67 81.82 70.59 NA NA 87.50 60.00 NA NA NA NA NA NA 71.43 NA NA 73.33 NA NA NA NA NA 77.78 54.55 80.00 NA NA 77.78 NA 54.55 63.64 84.21 NA 60.00 NA NA NA NA NA NA NA K intron_retention CG32343,I_chr3L_326540_326703,RI_chr3L_326725_326866 chr3L - chr3L_325825_325879 chr3L_325824_325825;chr3L_325879_325880 chr3L_325755_325824;chr3L_325880_325941 0.00 12.50 0.00 0.00 0.00 0.00 6.90 0.00 0.00 0.00 0.00 4.55 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.79 0.00 0.00 0.00 0.00 4.76 9.09 0.00 0.00 5.71 0.00 0.00 0.00 0.00 2.70 3.70 0.00 0.00 4.76 0.00 0.00 8.16 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette Sdc,I_chr2R_17282542_17285569,RI_chr2R_17286086_17286391,I_chr2R_17286089_17286391,I_chr2R_17286819_17367595,I_chr2R_17324594_17367595 chr2R - chr2R_17282551_17286679;chr2R_17282551_17286391 chr2R_17282551_17285569;chr2R_17286086_17286679,chr2R_17286086_17286391 chr2R_17285570_17286085 chr2R_17282383_17282550;chr2R_17286680_17286818 83.42 88.29 76.58 93.79 74.47 74.26 74.19 82.67 85.29 74.36 69.51 78.54 48.72 84.44 86.36 91.82 84.71 75.32 78.35 86.02 83.54 83.96 83.43 83.61 82.22 74.23 78.91 68.09 83.62 89.84 85.86 86.57 84.04 81.33 91.95 77.55 83.42 88.28 77.96 62.89 79.10 81.99 86.25 94.04 78.99 87.16 78.00 86.83 85.96 79.25 82.58 81.71 91.06 85.33 76.47 81.71 90.60 92.50 K intron_retention CG11593 chr3L - chr3L_4040032_4040095 chr3L_4040031_4040032;chr3L_4040095_4040096 chr3L_4038814_4040031;chr3L_4040096_4040482 0.00 0.00 6.67 3.33 NA NA 0.00 0.00 0.00 NA NA 0.00 NA NA 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 8.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 K intron_retention CG31431 chr3R + chr3R_17696656_17697703 chr3R_17696655_17696656;chr3R_17697703_17697704 chr3R_17696406_17696655;chr3R_17697704_17697862 90.59 91.11 84.00 91.35 88.46 91.07 84.13 94.81 83.54 100.00 92.42 87.93 98.36 85.48 88.75 93.07 89.83 88.00 89.47 94.05 98.18 86.36 84.09 85.11 87.50 91.78 90.57 96.30 76.92 86.67 96.47 90.00 91.49 92.08 87.10 96.55 92.86 81.25 85.71 85.96 93.44 88.08 90.91 90.91 95.45 91.46 95.12 94.29 90.91 82.35 87.30 83.72 96.55 96.15 90.59 90.48 88.10 91.67 K intron_retention Shc chr3L + chr3L_9420425_9420486 chr3L_9420424_9420425;chr3L_9420486_9420487 chr3L_9420175_9420424;chr3L_9420487_9421779 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.65 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.41 0.00 0.00 0.00 0.00 2.34 3.57 7.50 0.00 1.32 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.28 0.00 2.13 0.00 0.00 0.00 0.93 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA CG17082,I_chr2R_644671_645137,I_chr2R_645254_645312 chr2R + chr2R_645254_645312;chr2R_645254_645306 chr2R_645254_645316 chr2R_645185_645253;chr2R_645317_645382 3.23 10.71 0.00 2.61 4.55 2.38 1.11 3.45 3.92 NA 2.56 6.17 3.57 15.38 1.85 4.60 3.77 0.00 5.66 4.41 7.89 NA 0.00 2.27 0.00 2.00 0.00 NA 0.00 3.33 5.56 10.71 0.00 3.16 2.38 3.70 3.70 7.14 0.00 2.90 2.56 2.02 2.08 16.67 4.76 1.82 6.12 3.23 2.86 1.61 2.33 10.34 NA 0.00 7.50 4.69 3.92 4.00 K intron_retention Jhebp29,RI_chr2R_20857941_20857992,RI_chr2R_20857941_20858127 chr2R + chr2R_20857941_20857992 chr2R_20857940_20857941;chr2R_20857992_20857993 chr2R_20857841_20857940;chr2R_20857993_20858071 98.75 100.00 98.55 98.92 100.00 98.36 98.75 99.07 98.32 96.43 100.00 98.92 100.00 100.00 98.51 96.51 97.92 100.00 98.33 99.19 98.18 88.89 100.00 98.72 100.00 100.00 100.00 96.97 96.67 100.00 97.10 97.67 100.00 98.80 100.00 100.00 100.00 97.83 98.55 97.37 98.28 99.11 100.00 96.77 98.28 98.57 100.00 97.50 100.00 98.36 100.00 97.50 96.30 98.39 100.00 96.49 99.03 100.00 K alternative_donor alpha-Man-I,I_chrX_10218352_10219759,I_chrX_10218390_10219759 chrX - chrX_10218352_10219846;chrX_10218352_10219816;chrX_10218352_10219918;chrX_10218352_10219759;chrX_10218352_10219665;chrX_10218352_10219708 chrX_10218352_10219823 chrX_10218290_10218351;chrX_10219919_10219979 22.88 14.29 16.67 30.77 16.67 33.33 30.00 23.53 42.11 50.00 20.00 25.00 NA 33.33 25.00 19.05 16.67 16.67 25.00 35.71 16.67 33.33 50.00 28.57 28.57 14.29 12.50 NA NA 22.22 14.29 NA 28.57 8.33 NA 16.67 50.00 42.86 NA 25.00 16.67 15.38 25.00 16.67 NA 20.00 NA 22.22 40.00 33.33 20.00 25.00 20.00 NA 11.11 50.00 20.00 16.67 K intron_retention coro,I_chr2R_2752880_2760038,I_chr2R_2754447_2754986,I_chr2R_2754447_2755071 chr2R - chr2R_2754447_2760059 chr2R_2754446_2754447;chr2R_2760059_2760060 chr2R_2754347_2754446;chr2R_2760060_2760138 66.67 66.67 60.00 50.00 69.23 45.45 73.33 59.09 65.71 63.64 66.67 60.71 NA 86.67 70.00 75.00 66.67 71.43 76.92 70.27 63.64 71.43 53.57 68.18 58.33 53.33 71.43 50.00 43.75 73.33 70.59 70.00 50.00 66.67 63.64 60.00 57.14 53.33 60.87 71.05 NA 59.38 72.73 50.00 47.06 85.71 82.35 77.78 65.38 69.23 70.83 58.82 66.67 80.00 71.43 70.59 60.00 60.00 K intron_retention Pitslre,I_chr3L_20764965_20766192,I_chr3L_20764965_20766212,I_chr3L_20766064_20766192,I_chr3L_20766064_20766215,RI_chr3L_20766064_20766893,I_chr3L_20766311_20766664,I_chr3L_20766311_20766893,I_chr3L_20766773_20766893 chr3L + chr3L_20766064_20766893 chr3L_20766063_20766064;chr3L_20766893_20766894 chr3L_20766035_20766063;chr3L_20766894_20766993 76.39 NA NA NA NA NA NA 83.33 93.75 NA NA 93.33 NA 88.89 NA 90.00 NA NA NA 82.35 NA 96.15 70.83 64.29 NA NA 81.25 75.00 72.73 63.64 47.06 NA 78.57 87.50 NA 66.67 52.94 53.85 66.67 80.95 NA 86.67 NA 73.33 NA 75.00 60.00 87.50 100.00 60.00 78.95 63.64 NA NA 77.78 75.00 NA NA K intron_retention tral,I_chr3L_12512171_12512251 chr3L + chr3L_12510160_12510527 chr3L_12510159_12510160;chr3L_12510527_12510528 chr3L_12509677_12510159;chr3L_12510528_12511057 1.37 1.24 0.00 2.05 3.30 0.00 1.60 1.97 0.65 1.87 1.85 0.78 2.15 2.33 1.99 2.70 2.41 3.30 1.09 0.69 0.00 2.86 0.78 1.04 1.79 3.70 1.20 1.38 1.23 1.49 1.37 2.73 1.37 1.10 0.70 10.00 1.64 0.00 0.72 1.23 0.00 1.95 0.00 0.00 1.95 1.83 1.56 1.40 0.89 1.22 1.10 4.76 1.28 1.57 0.00 0.69 0.00 1.42 K intron_retention CG2765,RI_chr2R_20849027_20852094,I_chr2R_20849271_20849626,I_chr2R_20849271_20850005,E_chr2R_20849271_20850693,E_chr2R_20849271_20851166,E_chr2R_20849271_20852090,E_chr2R_20851190_20852094 chr2R - chr2R_20849271_20852094 chr2R_20849270_20849271;chr2R_20852094_20852095 chr2R_20849171_20849270;chr2R_20852095_20852190 10.04 9.68 18.59 4.82 10.00 16.82 7.28 5.77 10.15 7.59 6.14 11.67 10.56 13.88 9.78 11.99 11.76 8.91 12.55 10.36 10.04 14.75 11.71 7.42 16.25 16.11 12.54 9.77 8.18 8.97 14.41 5.30 12.76 12.40 22.14 10.07 5.94 8.76 6.30 13.55 8.82 13.42 12.07 7.79 2.25 5.91 4.57 13.21 10.09 7.06 13.31 14.18 9.46 6.09 12.45 4.97 4.69 3.97 K intron_retention Aats-cys chr2R + chr2R_12030920_12030986 chr2R_12030919_12030920;chr2R_12030986_12030987 chr2R_12030648_12030919;chr2R_12030987_12031476 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.32 0.00 0.00 0.00 0.00 0.00 0.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Rab30,I_chr2L_7032178_7032236 chr2L - chr2L_7032178_7032321 chr2L_7032177_7032178;chr2L_7032321_7032322 chr2L_7032078_7032177;chr2L_7032322_7032336 16.03 NA NA 16.67 NA NA 20.00 7.14 18.75 NA NA 12.50 NA NA NA NA NA NA NA 15.38 NA NA 25.00 NA NA NA NA NA 20.00 NA NA NA NA 14.29 NA NA NA NA NA 12.50 23.08 21.43 NA NA NA 5.88 NA 12.50 20.00 NA 13.33 NA NA NA NA NA NA NA K intron_retention wts chr3R - chr3R_26617863_26617930 chr3R_26617862_26617863;chr3R_26617930_26617931 chr3R_26617742_26617862;chr3R_26617931_26620211 0.00 0.00 0.00 2.70 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.92 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.00 0.00 0.00 3.17 2.94 3.17 0.00 0.00 0.00 0.00 0.00 0.00 1.82 2.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.22 1.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD tud,I_chr2R_17086183_17086333 chr2R + chr2R_17072524_17072579 chr2R_17072527_17072579 chr2R_17072580_17073413;chr2R_17072023_17072523 98.68 100.00 96.65 98.46 98.83 99.37 97.26 98.37 98.42 98.98 98.68 98.49 99.37 98.88 99.04 98.22 97.69 97.55 99.34 98.03 99.40 99.25 96.99 98.80 98.77 98.09 98.03 96.35 99.46 98.45 99.47 95.12 100.00 98.05 99.32 99.52 100.00 99.16 98.36 98.82 100.00 96.72 98.55 97.59 100.00 98.73 97.92 99.51 99.69 97.83 99.52 100.00 98.25 98.04 98.39 98.04 97.50 100.00 K intron_retention lola,I_chr2R_6419625_6419686,I_chr2R_6420999_6421080,E_chr2R_6421101_6421237,I_chr2R_6421474_6423519,I_chr2R_6421904_6422354 chr2R - chr2R_6421017_6421080 chr2R_6421016_6421017;chr2R_6421080_6421081 chr2R_6421001_6421016;chr2R_6421081_6421100 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.67 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.19 0.68 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA oho23B,I_chr2L_2856176_2856244,I_chr2L_2856573_2856630,RI_chr2L_2856673_2856772 chr2L + chr2L_2856306_2856391 chr2L_2856306_2856376 chr2L_2856279_2856305;chr2L_2856392_2856568 99.99 100.00 100.00 99.99 99.98 99.97 100.00 100.00 100.00 99.98 100.00 99.99 100.00 100.00 99.99 99.97 99.98 99.99 99.98 99.99 100.00 99.96 99.99 99.99 99.96 100.00 99.98 84.86 100.00 99.99 99.99 100.00 99.99 100.00 99.98 100.00 99.98 99.99 99.99 99.99 99.99 99.99 99.98 99.99 99.98 99.99 99.99 100.00 99.99 99.99 99.98 99.96 100.00 99.99 99.99 99.99 100.00 99.99 K jcn_only_AD RI_chrX_1796525_1796585,mip130,CG3573,I_chrX_1820956_1821011,CG11596 chrX + chrX_1820952_1821011 chrX_1820956_1821011 chrX_1821012_1821111;chrX_1820856_1820951 1.83 1.98 2.00 0.00 2.78 1.53 2.86 1.21 2.11 2.08 1.12 1.83 0.00 0.00 3.80 0.79 1.09 0.72 2.40 2.42 3.92 0.31 0.79 2.38 2.50 3.57 1.55 4.46 3.04 1.95 1.99 1.89 2.19 2.76 0.90 3.03 1.44 1.65 2.64 1.73 1.62 1.68 1.85 3.03 1.12 2.36 1.07 2.81 0.79 4.57 3.32 1.27 0.00 1.68 1.44 0.87 1.64 1.41 K alternative_donor F_chr2L_5045484_5046146,CG14040,His3_3A chr2L + chr2L_5052994_5053238 chr2L_5053169_5053238 chr2L_5053239_5053356;chr2L_5052846_5052993 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.56 100.00 100.00 K mutually_exclusive pan chr4 + chr4_115242_118447,chr4_118602_120031 chr4_115242_115462,chr4_115629_120031 chr4_118448_118601 chr4_115463_115628 chr4_115049_115241;chr4_120032_120101 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AD REI_chr3L_3042451_3043440,Jafrac2,I_chr3L_3042851_3043044,I_chr3L_3043202_3043271 chr3L + chr3L_3043202_3043271 chr3L_3043206_3043271 chr3L_3043272_3043339;chr3L_3043138_3043201 100.00 99.50 100.00 99.30 100.00 100.00 100.00 100.00 100.00 98.88 100.00 100.00 100.00 100.00 99.01 100.00 98.81 99.07 100.00 100.00 100.00 100.00 100.00 100.00 98.99 100.00 100.00 99.18 98.68 100.00 97.75 99.12 100.00 100.00 100.00 100.00 100.00 100.00 98.86 100.00 97.33 99.23 100.00 100.00 100.00 99.40 99.01 100.00 100.00 99.54 99.38 99.13 100.00 98.96 100.00 99.11 99.46 100.00 K jcn_only_AA CG1265,I_chr3L_4255296_4255550 chr3L + chr3L_4255296_4255353;chr3L_4255296_4255609;chr3L_4255296_4255457 chr3L_4255296_4255550 chr3L_4255196_4255295;chr3L_4255610_4255650 4.13 4.76 4.71 5.88 3.64 1.61 10.00 1.89 4.90 8.51 5.77 4.13 14.00 7.55 10.77 8.00 1.72 4.11 6.15 3.74 3.17 3.75 2.27 3.64 1.85 13.11 2.25 2.94 5.00 1.96 6.94 0.00 8.57 5.56 9.09 0.00 6.36 4.76 4.55 4.12 0.00 2.84 0.00 2.02 0.00 4.59 2.41 4.17 8.47 2.50 4.65 4.17 1.72 1.37 9.09 0.00 4.27 1.52 K intron_retention CG31150,Hmt-1 chr3R - chr3R_11674567_11674621 chr3R_11674566_11674567;chr3R_11674621_11674622 chr3R_11674440_11674566;chr3R_11674622_11674737 0.60 0.97 0.00 1.54 0.00 0.00 0.00 0.31 0.91 0.93 0.00 0.55 0.00 0.00 1.22 1.03 0.61 0.00 0.43 0.90 1.06 4.17 0.66 0.00 0.00 2.52 0.85 0.00 1.43 1.49 0.88 0.45 0.00 1.15 0.75 2.88 0.45 0.68 0.00 0.67 3.74 1.01 0.00 0.60 0.00 0.31 0.00 1.02 0.00 0.72 0.74 0.00 0.00 0.66 0.86 0.00 0.00 0.00 K intron_retention CG4589,I_chr2R_20402394_20402462,I_chr2R_20402394_20402706 chr2R - chr2R_20402394_20402753 chr2R_20402393_20402394;chr2R_20402753_20402754 chr2R_20402294_20402393;chr2R_20402754_20402806 2.27 NA 0.00 6.67 NA 0.00 10.00 1.82 9.76 NA 0.00 2.50 5.00 0.00 4.17 2.27 6.67 NA 0.00 0.00 0.00 20.00 NA NA NA 11.11 NA NA 12.50 NA 0.00 NA 13.64 3.85 NA NA NA NA NA 6.67 NA 7.50 0.00 NA 0.00 6.67 NA 0.00 0.00 NA NA NA NA NA 0.00 NA NA 0.00 K intron_retention CG12112,CG12111 chrX - chrX_8453397_8453458 chrX_8453396_8453397;chrX_8453458_8453459 chrX_8452954_8453396;chrX_8453459_8453612 0.00 0.00 1.54 4.58 0.00 0.00 0.49 0.00 0.72 0.00 0.00 0.00 0.00 1.54 1.79 0.94 1.20 0.00 3.12 0.00 0.00 0.81 0.00 0.00 3.28 2.04 2.04 1.32 4.27 0.00 0.00 1.37 0.00 1.02 0.00 1.89 0.00 0.00 0.00 0.53 0.91 0.83 0.00 0.00 1.81 0.87 0.00 0.34 0.82 1.39 0.00 0.00 0.00 0.00 0.64 0.00 0.00 0.58 K alternative_donor eIF-1A,I_chr3R_14106104_14107415,I_chr3R_14106955_14107415 chr3R + chr3R_14106104_14107415;chr3R_14106955_14107415 chr3R_14100864_14107415 chr3R_14107416_14107515;chr3R_14100759_14100863 100.00 100.00 99.78 99.44 100.00 100.00 99.68 99.89 99.78 100.00 99.75 99.77 99.77 99.75 99.81 99.65 100.00 100.00 99.80 99.78 100.00 100.00 99.77 100.00 100.00 99.78 99.78 99.26 100.00 100.00 100.00 100.00 100.00 99.72 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.77 100.00 100.00 100.00 100.00 100.00 100.00 99.75 100.00 100.00 100.00 100.00 100.00 99.83 100.00 100.00 100.00 N jcn_only_AD CG16971,CG33229,I_chr3L_225856_225909,RI_chr3L_225919_226004,I_chr3L_229245_230186 chr3L + chr3L_224184_224972;chr3L_224779_224972 chr3L_224886_224972 chr3L_224973_225140;chr3L_224174_224183 0.00 5.09 0.00 0.00 0.00 0.00 2.77 0.00 1.74 2.57 3.26 1.55 0.00 2.53 0.00 3.19 0.00 0.00 1.65 1.06 0.00 4.48 0.00 0.00 7.69 7.46 21.43 13.75 6.45 0.00 0.00 0.00 2.29 1.32 0.00 0.00 3.34 0.00 0.00 4.76 7.46 2.19 2.53 0.00 0.00 0.00 0.00 2.16 1.78 0.00 7.69 0.00 0.00 NA 0.00 0.00 0.00 2.62 K jcn_only_AD CG31716,I_chr2L_10397648_10398034 chr2L + chr2L_10399689_10399767;chr2L_10399713_10399767 chr2L_10399677_10399767 chr2L_10399768_10400679;chr2L_10399595_10399676 17.50 17.31 13.04 19.63 22.33 16.98 13.61 12.82 17.04 14.29 18.33 19.03 10.85 14.71 29.23 20.45 13.40 13.51 11.51 17.09 20.37 11.43 18.57 17.69 14.44 11.50 21.55 18.18 10.23 14.91 20.25 15.66 31.16 19.67 15.73 27.72 16.05 25.27 20.38 19.68 22.73 19.67 17.89 17.36 16.67 18.05 NA 15.92 19.27 17.89 17.73 27.85 17.65 16.42 15.50 18.95 9.89 15.84 K intron_retention CG42348,I_chr3L_20149990_20151579 chr3L - chr3L_20144991_20146263 chr3L_20144990_20144991;chr3L_20146263_20146264 chr3L_20144003_20144990;chr3L_20146264_20146435 70.00 77.42 55.56 72.22 73.53 62.96 78.57 73.91 81.97 52.17 77.27 82.50 90.00 77.78 69.23 66.67 60.00 66.67 83.33 63.41 69.57 84.31 41.77 58.82 73.91 87.50 60.78 71.43 65.38 72.41 66.67 70.00 68.89 70.49 53.33 70.37 61.84 70.00 73.08 70.67 65.91 79.31 60.87 71.88 74.67 57.35 54.76 70.00 71.62 78.26 59.68 62.07 32.61 62.16 71.88 75.00 44.29 54.17 K intron_retention CG32407 chr3L + chr3L_5915834_5915906 chr3L_5915833_5915834;chr3L_5915906_5915907 chr3L_5915580_5915833;chr3L_5915907_5916392 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.47 NA 0.00 4.17 0.00 0.00 0.00 5.56 0.00 0.00 4.76 0.00 0.00 0.00 0.00 5.71 0.00 0.00 0.00 0.00 NA 0.00 0.00 3.12 0.00 0.00 0.00 0.00 2.86 NA 6.90 4.76 0.00 3.39 3.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.17 0.00 0.00 0.00 K intron_retention aux chr3R + chr3R_50731_50787 chr3R_50730_50731;chr3R_50787_50788 chr3R_50393_50730;chr3R_50788_51161 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.04 0.00 0.00 2.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.80 0.00 0.00 0.00 0.00 0.00 0.00 7.14 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.85 0.00 0.00 0.00 0.00 0.00 0.00 3.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette sgg,I_chrX_2565856_2566099,I_chrX_2566157_2566946 chrX + chrX_2564291_2565340 chrX_2564291_2565153;chrX_2565265_2565340 chrX_2565154_2565264 chrX_2564207_2564290;chrX_2565341_2565578 100.00 100.00 100.00 100.00 97.37 100.00 100.00 100.00 100.00 100.00 100.00 98.67 98.51 100.00 97.87 100.00 94.64 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 92.31 98.04 100.00 96.15 100.00 99.11 100.00 100.00 98.04 100.00 96.97 100.00 100.00 98.90 100.00 98.59 100.00 98.11 100.00 98.15 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.22 100.00 K intron_retention CG4662 chr3R + chr3R_15675876_15675930 chr3R_15675875_15675876;chr3R_15675930_15675931 chr3R_15675734_15675875;chr3R_15675931_15676041 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.88 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 9.38 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.72 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG5380 chr3R - chr3R_18192426_18192483 chr3R_18192425_18192426;chr3R_18192483_18192484 chr3R_18191802_18192425;chr3R_18192484_18192869 0.00 NA NA 0.00 NA NA 8.00 8.33 0.00 NA NA 0.00 NA NA NA 0.00 NA NA NA 0.00 NA 0.00 0.00 0.00 NA NA 0.00 NA 0.00 NA NA 0.00 0.00 4.35 NA NA NA NA 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 NA 6.25 9.09 4.35 NA 0.00 NA NA 0.00 0.00 0.00 K intron_retention NTPase chr2L - chr2L_2882512_2882691 chr2L_2882511_2882512;chr2L_2882691_2882692 chr2L_2881382_2882511;chr2L_2882692_2882833 2.33 1.91 2.69 5.64 2.76 2.17 3.36 2.83 1.40 3.75 0.00 1.81 3.67 3.91 1.97 1.20 2.21 3.47 2.61 2.08 1.40 4.07 2.56 1.69 2.99 2.70 4.17 7.17 6.86 2.92 1.36 1.74 1.72 1.93 2.59 2.79 1.72 2.62 1.71 2.20 3.85 1.33 0.84 3.59 1.83 3.37 2.11 2.17 2.03 1.76 3.98 1.45 2.33 3.50 2.99 0.64 3.45 0.00 K intron_retention CG9947,eIF-2alpha chrX - chrX_16333320_16333456 chrX_16333319_16333320;chrX_16333456_16333457 chrX_16333264_16333319;chrX_16333457_16333547 29.41 35.71 46.15 NA NA 36.36 35.71 15.38 34.78 NA NA 32.14 31.25 46.15 NA 17.39 40.00 NA 21.43 23.53 NA 12.50 30.77 31.58 NA NA 35.71 21.43 NA 10.00 28.57 NA 25.00 38.89 NA NA 23.08 25.00 29.41 20.00 NA 26.09 NA 17.86 8.70 25.00 33.33 NA 50.00 23.08 40.00 NA NA NA NA 43.75 NA NA K alternative_donor Spase25,I_chrX_11379530_11379593 chrX + chrX_11379465_11379593 chrX_11379530_11379593 chrX_11379594_11379693;chrX_11379430_11379464 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.16 0.64 0.00 0.00 0.00 0.00 0.33 0.00 0.00 0.00 0.23 0.00 0.61 0.00 0.78 1.15 0.00 0.00 0.00 0.56 0.00 0.44 0.36 0.51 0.35 0.87 0.00 1.03 0.00 0.00 0.34 0.45 0.32 0.00 0.00 0.34 0.00 0.00 0.24 0.31 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention RpS12,I_chr3L_13016626_13017469,snoRNA:Me28S-A774a chr3L + chr3L_13016967_13017469 chr3L_13016966_13016967;chr3L_13017469_13017470 chr3L_13016832_13016966;chr3L_13017470_13017569 0.00 0.00 0.00 0.02 0.00 0.04 0.05 0.00 0.00 0.00 0.06 0.00 0.04 0.00 0.00 0.00 0.07 0.00 0.00 0.03 0.00 0.00 0.01 0.00 0.03 0.00 0.09 0.07 0.00 0.00 0.00 0.00 0.03 0.05 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.02 K intron_retention Rab35 chrX - chrX_20051870_20052002 chrX_20051869_20051870;chrX_20052002_20052003 chrX_20051145_20051869;chrX_20052003_20052302 0.00 0.00 0.00 2.96 0.00 0.00 0.00 0.52 0.38 0.00 0.00 1.17 2.35 0.00 1.43 0.00 0.00 0.85 0.00 0.83 0.00 1.07 0.00 0.00 0.00 0.00 0.65 4.48 0.00 0.00 0.00 0.00 0.00 0.61 0.00 0.00 1.32 0.00 0.00 1.31 0.00 0.71 0.00 0.00 1.20 0.00 1.40 1.06 0.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.45 0.00 K intron_retention SdhC,CG6672 chr3R - chr3R_7035463_7035519 chr3R_7035462_7035463;chr3R_7035519_7035520 chr3R_7034726_7035462;chr3R_7035520_7035588 0.00 0.00 0.00 1.87 0.00 0.00 2.15 0.00 0.00 0.00 0.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.33 0.00 0.00 0.00 6.67 4.65 0.00 2.11 11.11 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.55 0.00 2.13 0.00 1.72 0.00 0.00 4.76 0.00 0.00 NA 0.00 2.27 0.00 0.00 K intron_retention CG10254 chr3R - chr3R_19518083_19518139 chr3R_19518082_19518083;chr3R_19518139_19518140 chr3R_19517793_19518082;chr3R_19518140_19518534 50.00 53.85 33.33 80.00 46.67 NA 35.29 65.00 45.00 NA NA 50.00 NA 41.67 53.33 69.23 60.00 50.00 35.71 26.09 NA NA 58.82 61.54 41.67 50.00 69.23 NA NA NA 53.85 NA 38.46 84.62 40.00 70.00 37.50 NA 50.00 35.00 NA 40.74 NA 50.00 NA NA NA NA 46.15 NA 38.46 NA NA NA 57.14 NA NA 54.55 K jcn_only_AD CG7484,RI_chr3L_17647825_17647881,RI_chr3L_17647827_17648317 chr3L + chr3L_17647825_17647881 chr3L_17647827_17647881 chr3L_17647882_17647981;chr3L_17647729_17647824 100.00 100.00 98.57 100.00 98.82 100.00 100.00 100.00 99.61 97.73 100.00 100.00 100.00 100.00 100.00 100.00 99.01 100.00 100.00 98.18 98.46 100.00 98.21 99.11 100.00 98.78 98.82 100.00 98.48 100.00 100.00 100.00 100.00 96.23 98.33 100.00 98.95 98.86 99.24 99.10 100.00 99.40 98.44 100.00 97.67 98.20 99.03 100.00 100.00 100.00 99.42 98.92 100.00 100.00 100.00 99.35 99.37 98.11 K alternative_donor CG13923,CG12022 chr3L + chr3L_1803324_1803432 chr3L_1803328_1803432 chr3L_1803433_1803567;chr3L_1803322_1803323 100.00 100.00 NA 100.00 NA 100.00 91.67 100.00 94.74 NA NA 93.33 NA 100.00 88.89 NA NA NA 100.00 91.67 NA NA 92.86 100.00 100.00 100.00 100.00 100.00 100.00 100.00 92.86 88.89 100.00 100.00 100.00 90.91 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 94.44 NA 100.00 100.00 94.44 100.00 100.00 100.00 100.00 100.00 93.33 100.00 95.00 K intron_retention CG11158 chrX + chrX_13577222_13577278 chrX_13577221_13577222;chrX_13577278_13577279 chrX_13576958_13577221;chrX_13577279_13577374 29.29 18.75 25.00 53.85 35.71 40.00 33.33 28.57 16.67 30.77 25.00 31.82 NA 50.00 25.00 25.00 25.00 25.00 36.36 33.33 NA 27.27 33.33 17.39 NA NA 38.46 30.00 30.43 NA 51.85 NA 19.05 26.32 NA NA 16.67 25.93 32.00 43.48 NA 23.08 NA 11.11 22.22 25.00 17.65 NA 38.46 33.33 54.55 NA 50.00 NA 42.86 22.73 26.67 40.00 K jcn_only_AD alt,I_chr3R_13503901_13504925,RI_chr3R_13503901_13505368,I_chr3R_13503901_13507824 chr3R - chr3R_13503901_13508178;chr3R_13503901_13508123;chr3R_13503901_13508180 chr3R_13503901_13507816 chr3R_13503801_13503900;chr3R_13508181_13508234 1.92 2.08 1.14 1.73 1.45 1.37 4.40 2.20 1.62 NA 0.00 1.49 1.75 1.32 1.06 6.14 1.52 0.00 7.06 4.23 0.00 0.00 0.00 3.85 0.00 0.96 0.00 8.70 NA 15.38 7.02 NA 20.69 4.26 NA NA 0.00 0.00 7.69 5.13 NA 3.45 1.35 9.09 3.85 NA NA NA 4.69 3.33 4.35 4.17 15.00 NA 1.06 NA 0.00 29.03 N alternative_acceptor CG8108,EI_chr3L_9859462_9859590 chr3L + chr3L_9859462_9860377;chr3L_9859462_9860413 chr3L_9859462_9859590 chr3L_9859414_9859461;chr3L_9860414_9860844 18.75 13.54 22.58 37.33 18.03 16.95 38.96 28.09 19.67 19.57 16.13 17.56 28.00 21.67 14.77 43.33 21.67 11.76 25.00 25.66 17.74 18.92 17.14 14.74 18.06 22.22 22.92 22.81 19.35 20.90 53.49 18.42 14.86 26.37 17.14 18.75 12.32 12.12 8.28 23.66 16.13 20.90 18.97 27.27 11.76 18.18 17.20 20.41 22.61 17.14 17.32 20.37 8.33 8.64 20.83 10.59 9.26 14.29 K jcn_only_AA Pur-alpha,I_chr4_581447_585166 chr4 + chr4_578927_580723 chr4_578927_580720 chr4_578907_578926;chr4_580724_580926 96.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 96.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA N alternative_donor CG17760 chr2R + chr2R_8513482_8514257;chr2R_8513731_8514257 chr2R_8513642_8514257 chr2R_8514258_8514421;chr2R_8513465_8513481 85.71 90.91 83.33 75.00 NA 77.78 72.00 87.80 90.14 NA 100.00 88.89 75.00 90.00 100.00 85.45 87.50 75.00 82.35 90.00 85.71 100.00 82.35 87.50 80.00 83.33 80.00 NA NA 85.71 83.33 NA 80.00 72.97 91.67 90.00 100.00 75.00 NA 83.33 100.00 84.62 94.12 100.00 NA 84.62 100.00 66.67 82.93 81.82 86.67 90.00 NA NA 92.86 88.89 100.00 80.00 K intron_retention CG6293,Bruce chr3R - chr3R_6136241_6137183 chr3R_6136240_6136241;chr3R_6137183_6137184 chr3R_6135621_6136240;chr3R_6137184_6137328 0.00 0.00 0.00 0.25 0.00 0.00 0.00 0.23 0.00 0.00 0.00 0.21 0.00 0.00 0.00 0.13 0.00 0.00 0.00 0.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.33 0.22 0.00 0.00 0.25 0.00 0.00 0.00 0.00 0.00 0.00 0.28 0.00 0.23 0.00 0.00 0.00 0.00 0.00 0.27 0.43 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Taf4,I_chr3L_16107821_16107893 chr3L + chr3L_16107821_16107893 chr3L_16107820_16107821;chr3L_16107893_16107894 chr3L_16107721_16107820;chr3L_16107894_16107943 100.00 NA 100.00 NA NA NA 100.00 NA 100.00 95.00 100.00 94.87 NA NA NA NA NA NA NA 100.00 92.31 100.00 100.00 100.00 100.00 100.00 90.00 91.67 100.00 100.00 NA 100.00 96.55 100.00 88.89 100.00 100.00 100.00 93.33 100.00 90.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 NA 100.00 100.00 100.00 NA NA 100.00 NA 100.00 K intron_retention mthl4 chr2R - chr2R_13333425_13333481 chr2R_13333424_13333425;chr2R_13333481_13333482 chr2R_13333256_13333424;chr2R_13333482_13333736 0.00 0.00 0.00 7.50 0.00 0.00 0.00 3.28 2.11 NA 0.00 4.17 0.00 0.00 0.00 4.08 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA NA NA NA NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 3.85 0.00 6.94 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 4.00 0.00 0.93 0.00 K intron_retention Rbf chrX - chrX_693047_693348 chrX_693046_693047;chrX_693348_693349 chrX_692311_693046;chrX_693349_693680 0.00 0.00 0.00 3.23 4.00 0.00 5.26 0.00 0.00 0.00 NA 2.27 0.00 0.00 0.00 0.00 0.00 10.53 0.00 0.00 NA 9.30 3.17 4.35 0.00 0.00 2.08 NA 0.00 0.00 10.53 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.76 NA 2.13 0.00 3.85 0.00 7.41 0.00 NA 0.00 2.04 2.00 3.85 0.00 0.00 0.00 0.00 0.00 0.00 K cassette Flo,I_chr2R_11456012_11456623 chr2R - chr2R_11456012_11456623 chr2R_11456012_11456255;chr2R_11456332_11456623 chr2R_11456256_11456331 chr2R_11455912_11456011;chr2R_11456624_11456723 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.59 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K multi_cassette CG14995,I_chr3L_4095875_4097205,I_chr3L_4096047_4096903 chr3L - chr3L_4096068_4097506 chr3L_4096068_4096903;chr3L_4096979_4097205;chr3L_4097335_4097506 chr3L_4096904_4096978;chr3L_4097206_4097334 chr3L_4095972_4096067;chr3L_4097507_4097804 100.00 100.00 NA NA NA NA NA NA 100.00 NA NA 88.89 NA NA NA NA NA NA NA 100.00 NA 83.33 NA NA NA NA 100.00 NA 83.33 NA 75.00 83.33 83.33 NA 100.00 100.00 100.00 100.00 80.00 100.00 NA NA NA 100.00 100.00 NA 80.00 NA 80.00 100.00 85.71 NA NA 100.00 NA 100.00 NA 100.00 K alternative_donor CG11486,RE_chr3L_3084894_3085203 chr3L + chr3L_3071298_3073080;chr3L_3071308_3073080 chr3L_3071190_3073080 chr3L_3073081_3073149;chr3L_3071183_3071189 79.66 NA 80.00 81.82 NA NA 75.00 73.33 NA NA NA 75.00 87.50 NA 72.73 79.31 NA NA NA 86.67 NA NA NA NA NA NA NA NA NA NA 63.64 NA NA 88.24 NA NA NA NA NA 62.50 NA 80.00 NA NA NA NA NA NA 86.21 NA NA NA NA NA NA NA NA NA K intron_retention RpL34b,CG9356 chr3R - chr3R_5226601_5226663 chr3R_5226600_5226601;chr3R_5226663_5226664 chr3R_5225976_5226600;chr3R_5226664_5226744 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.03 0.09 0.00 0.03 0.00 0.00 0.06 0.03 0.05 0.00 0.00 0.07 0.09 0.00 0.00 0.04 0.03 0.06 0.09 0.25 0.03 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.01 0.00 0.04 0.04 0.08 0.00 0.00 0.00 0.05 0.09 0.00 0.05 0.13 0.09 0.02 0.00 0.00 0.03 0.06 0.00 0.00 0.05 K alternative_donor CG4433,I_chr3R_15845478_15846094 chr3R - chr3R_15845478_15846069;chr3R_15845478_15846006 chr3R_15845478_15846094 chr3R_15845378_15845477;chr3R_15846095_15846194 0.00 0.00 0.00 1.45 0.00 0.00 0.00 0.00 0.00 1.28 0.00 1.14 0.00 0.00 1.69 2.50 0.00 0.00 0.00 2.59 2.22 0.00 0.00 0.00 0.00 0.00 1.30 1.61 0.00 0.00 1.75 0.00 1.82 0.00 0.00 2.27 0.79 1.22 0.91 0.00 0.00 1.03 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.85 0.00 2.04 1.96 0.00 0.00 0.00 1.64 0.00 K alternative_acceptor klett chrX - chrX_21499737_21501093 chrX_21500597_21501093 chrX_21501094_21501123;chrX_21499389_21499736 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.83 100.00 100.00 100.00 100.00 97.67 98.11 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.14 100.00 100.00 100.00 100.00 100.00 98.77 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Gprk2 chr3R + chr3R_27280487_27280928 chr3R_27280486_27280487;chr3R_27280928_27280929 chr3R_27280297_27280486;chr3R_27280929_27281177 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA NA NA 0.00 0.00 0.00 0.00 6.90 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA NA 0.00 0.00 0.00 2.56 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA K alternative_donor RI_chr3L_707623_707678,CkIIalpha-i3,CG13896,RI_chr3L_711692_711744 chr3L - chr3L_711688_711746 chr3L_711688_711744 chr3L_711592_711687;chr3L_711747_711763 100.00 NA NA NA NA NA 88.89 100.00 91.67 NA NA NA 88.89 NA NA NA NA 100.00 90.00 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA NA NA NA NA NA NA K intron_retention CG10153,RI_chr2R_10644944_10645110 chr2R - chr2R_10645056_10645110 chr2R_10645055_10645056;chr2R_10645110_10645111 chr2R_10645004_10645055;chr2R_10645111_10645175 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 3.57 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 1.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG5794,I_chr3R_20475643_20475715 chr3R - chr3R_20475643_20475715 chr3R_20475642_20475643;chr3R_20475715_20475716 chr3R_20475543_20475642;chr3R_20475716_20475736 64.29 NA NA 91.67 NA NA 66.67 64.29 62.50 NA NA 56.25 NA NA NA 75.00 77.78 NA NA 54.55 NA 48.00 66.67 60.00 NA NA 63.64 87.50 75.00 76.92 53.85 NA 100.00 69.23 NA 84.62 61.11 NA NA 62.50 NA 43.75 54.55 63.64 NA NA NA 65.00 50.00 NA NA NA NA NA 66.67 NA NA NA N jcn_only_AA Trc8 chr3R - chr3R_25326236_25326440;chr3R_25326221_25326440 chr3R_25325222_25326440 chr3R_25326441_25326615 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 5.30 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA fal,I_chr3L_19289660_19290145 chr3L + chr3L_19290313_19290378 chr3L_19290313_19290376 chr3L_19290146_19290312;chr3L_19290379_19290548 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.42 100.00 100.00 99.08 98.18 100.00 100.00 98.55 100.00 100.00 98.08 100.00 98.25 100.00 100.00 98.77 98.31 98.08 96.55 100.00 97.87 100.00 98.55 100.00 100.00 100.00 100.00 100.00 97.85 100.00 96.55 100.00 100.00 99.22 100.00 100.00 100.00 100.00 97.44 98.33 100.00 100.00 98.72 100.00 100.00 100.00 98.90 100.00 98.46 100.00 K alternative_donor RpL28,RI_chr3L_3221710_3221877,I_chr3L_3221982_3222744,snoRNA:Or-CD11c,snoRNA:Or-CD11b,snoRNA:Or-CD11a,I_chr3L_3222575_3222787 chr3L - chr3L_3221982_3222787;chr3L_3221982_3222152;chr3L_3221982_3222574;chr3L_3221982_3222926;chr3L_3221982_3222365 chr3L_3221982_3222847 chr3L_3221882_3221981;chr3L_3222927_3222958 1.64 3.23 0.63 0.28 0.97 0.44 2.05 0.53 2.44 3.30 1.17 2.11 1.64 1.96 0.39 2.24 0.99 0.93 0.44 0.85 0.66 4.38 4.41 7.94 7.89 0.56 9.52 4.35 3.42 0.86 0.97 0.23 0.22 0.39 5.56 3.53 10.20 9.76 4.17 0.90 1.03 0.42 0.00 2.56 0.31 1.03 6.00 0.29 0.51 7.69 7.14 2.27 1.76 7.89 0.65 7.14 5.88 0.21 K intron_retention glo,REI_chr3R_7644679_7644932,RI_chr3R_7644683_7644880,I_chr3R_7647556_7647628 chr3R - chr3R_7642267_7642333 chr3R_7642266_7642267;chr3R_7642333_7642334 chr3R_7641563_7642266;chr3R_7642334_7642479 0.00 0.00 2.25 0.00 1.59 0.00 3.57 0.00 0.00 0.00 0.00 0.00 0.00 2.70 1.06 1.14 0.00 NA 0.00 0.00 0.00 0.00 0.00 1.85 0.00 0.00 4.46 2.44 0.00 0.00 1.64 0.00 0.62 0.00 0.00 3.49 0.00 0.00 0.00 0.00 0.00 1.08 0.00 0.00 1.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.09 0.94 0.00 0.00 0.00 K intron_retention Galpha49B,I_chr2R_8501587_8501648,I_chr2R_8504706_8504960,I_chr2R_8506056_8506112 chr2R + chr2R_8500357_8503411 chr2R_8500356_8500357;chr2R_8503411_8503412 chr2R_8500333_8500356;chr2R_8503412_8503586 26.19 12.50 38.10 22.22 30.43 23.81 25.00 27.78 25.68 NA 34.62 50.00 29.17 36.84 36.00 31.03 54.55 52.63 35.00 26.19 39.13 NA 21.88 30.00 35.00 33.33 12.50 15.79 40.00 20.00 43.48 NA 23.08 28.26 NA 36.36 17.65 25.00 22.22 12.50 NA 31.43 36.84 13.51 NA 0.00 NA 13.33 24.32 17.65 20.00 35.71 NA NA 25.81 23.53 14.29 NA K intron_retention R_chr2R_8737740_8756454,noncoding_6418 chr2R + chr2R_8756513_8756728 chr2R_8756512_8756513;chr2R_8756728_8756729 chr2R_8756463_8756512;chr2R_8756729_8756815 98.00 100.00 98.31 100.00 100.00 98.18 98.13 99.10 99.22 98.00 97.37 99.02 100.00 98.33 98.41 100.00 98.04 97.44 98.55 97.09 97.78 100.00 92.54 98.68 97.73 100.00 98.36 92.31 98.11 100.00 98.44 97.37 100.00 95.74 97.83 97.83 96.55 94.23 98.28 97.78 97.87 97.09 100.00 92.31 97.78 96.30 95.00 97.44 96.33 92.00 95.95 97.92 97.73 97.92 98.67 94.44 98.75 98.21 K alternative_last_exon CG4351,CG12714 chrX - chrX_12995575_13005666 chrX_13005447_13005666 chrX_12994918_12995574 chrX_13005393_13005446 chrX_13005667_13006288 0.00 0.00 0.00 0.00 0.00 0.00 5.56 0.00 2.22 0.00 0.00 3.03 0.00 0.00 0.00 0.00 7.14 0.00 0.00 0.00 0.00 0.00 3.03 3.57 0.00 0.00 3.70 0.00 0.00 0.00 0.00 8.33 0.00 0.00 0.00 0.00 0.00 4.76 0.00 0.00 0.00 2.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 7.69 0.00 0.00 0.00 0.00 K jcn_only_AD CG6597 chr3L + chr3L_20295938_20296166;chr3L_20295603_20296166 chr3L_20295972_20296166 chr3L_20296167_20296215;chr3L_20295573_20295602 0.00 NA NA 0.00 0.00 NA 0.00 0.00 1.75 NA NA 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 2.22 4.76 8.33 0.00 0.00 NA 0.00 NA NA NA NA 0.00 NA 0.00 0.00 NA NA 0.00 NA NA 0.00 NA 3.03 0.00 0.00 0.00 NA NA 0.00 2.08 NA NA NA NA NA 0.00 NA NA 0.00 K intron_retention Rap2l chr2R + chr2R_19952634_19952705 chr2R_19952633_19952634;chr2R_19952705_19952706 chr2R_19952516_19952633;chr2R_19952706_19952928 2.96 0.00 5.06 4.07 0.00 4.84 1.80 3.28 6.14 0.00 0.00 1.48 0.00 2.90 2.63 2.50 4.92 1.39 1.96 3.02 2.22 0.00 1.69 3.51 5.06 2.60 4.71 8.89 27.69 1.49 2.94 3.23 3.08 2.96 5.63 1.47 9.52 0.00 3.96 3.10 2.04 1.57 6.25 9.23 4.48 3.95 3.25 3.75 2.52 4.30 2.83 3.28 1.02 1.75 4.76 3.57 1.92 0.88 K intron_retention I_chr2L_8029734_8029787,Cka,CG7429 chr2L + chr2L_8036299_8036381 chr2L_8036298_8036299;chr2L_8036381_8036382 chr2L_8035821_8036298;chr2L_8036382_8036576 7.95 8.79 5.47 12.82 4.72 11.93 3.95 7.74 6.33 6.67 6.03 8.93 8.70 9.30 10.20 10.00 6.52 6.52 9.57 6.15 6.90 8.74 5.21 11.82 10.96 8.74 17.65 10.45 6.25 5.92 8.13 5.38 2.99 7.36 6.14 3.07 8.75 8.57 9.93 5.32 5.69 7.95 8.08 4.72 7.41 8.20 7.41 7.83 12.44 8.57 10.00 11.86 8.54 3.49 10.94 6.76 12.50 7.25 K jcn_only_AD alc chr2R - chr2R_5023211_5023269 chr2R_5023211_5023265 chr2R_5023142_5023210;chr2R_5023270_5023364 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.39 0.00 0.00 0.52 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.63 0.00 0.00 0.00 0.00 0.00 0.00 0.31 0.00 0.00 0.00 0.00 0.00 0.00 0.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.91 0.00 0.00 0.00 0.00 0.00 0.00 0.39 0.00 K intron_retention Axn,I_chr3R_25849563_25849626 chr3R + chr3R_25859466_25859526 chr3R_25859465_25859466;chr3R_25859526_25859527 chr3R_25859321_25859465;chr3R_25859527_25859847 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 6.67 0.00 0.00 1.72 0.00 0.00 0.00 0.00 5.56 NA 0.00 0.00 3.85 7.69 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N cassette CG42574,I_chr3R_618802_618939,I_chr3R_621543_625413,I_chr3R_621546_625413 chr3R - chr3R_620787_625413;chr3R_620787_622210 chr3R_620787_621458;chr3R_621546_625413,chr3R_621546_622210 chr3R_621459_621545 chr3R_618940_620786;chr3R_625414_625513 29.03 33.33 17.78 52.94 23.53 17.65 22.47 30.30 30.69 27.08 21.21 57.53 7.14 33.33 36.11 35.90 29.03 32.00 20.00 53.19 22.86 32.14 30.16 41.07 35.85 19.61 26.47 29.66 22.09 26.03 33.90 22.22 20.39 32.43 27.12 42.67 29.91 27.12 26.74 33.77 16.67 29.55 27.27 24.53 42.11 32.00 25.00 28.17 36.84 28.57 26.03 20.00 41.67 33.33 26.83 35.00 33.33 27.78 K intron_retention Hsp60 chrX + chrX_11005812_11005829 chrX_11005811_11005812;chrX_11005829_11005830 chrX_11005508_11005811;chrX_11005830_11006341 100.00 99.83 100.00 100.00 99.61 100.00 100.00 100.00 100.00 99.74 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.83 100.00 100.00 99.85 99.55 100.00 100.00 99.79 99.85 100.00 99.71 100.00 99.73 99.76 100.00 99.69 100.00 99.59 99.86 100.00 100.00 100.00 99.82 100.00 100.00 99.84 100.00 99.82 100.00 99.77 99.71 99.81 99.67 100.00 99.85 100.00 99.85 99.85 99.64 K intron_retention Vps33B,RI_chr3R_21301568_21301702,I_chr3R_21310025_21310086 chr3R + chr3R_21299451_21299507 chr3R_21299450_21299451;chr3R_21299507_21299508 chr3R_21299350_21299450;chr3R_21299508_21299826 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 NA 0.00 5.13 0.00 0.00 0.00 0.00 NA 0.00 5.56 0.00 0.00 6.67 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA NA NA 0.00 0.00 NA 0.00 K jcn_only_AA RpS16,RI_chr2R_18493796_18494013,I_chr2R_18494146_18494441,snoRNA:Me28S-G2173 chr2R + chr2R_18494146_18494441 chr2R_18494146_18494438 chr2R_18494046_18494145;chr2R_18494442_18494541 99.99 99.99 99.99 99.99 99.99 100.00 100.00 100.00 100.00 100.00 100.00 99.99 100.00 100.00 100.00 99.99 100.00 100.00 99.98 99.99 99.98 99.97 100.00 100.00 100.00 99.98 99.98 99.95 100.00 100.00 100.00 99.98 100.00 99.99 100.00 100.00 99.99 99.99 99.99 99.96 100.00 99.97 99.98 99.99 100.00 100.00 99.99 100.00 100.00 99.99 100.00 100.00 99.99 99.98 100.00 99.98 99.99 99.98 K intron_retention I_chr3R_11826508_11826910,GATAe chr3R + chr3R_11842288_11842430 chr3R_11842287_11842288;chr3R_11842430_11842431 chr3R_11841950_11842287;chr3R_11842431_11843364 88.89 81.25 NA 70.00 NA NA 91.67 92.31 95.83 NA NA 90.00 100.00 100.00 NA 100.00 NA 88.89 90.91 82.35 NA 76.92 87.50 NA NA 88.89 NA NA NA NA NA NA NA 91.67 NA NA NA NA 88.89 NA NA 94.74 NA 88.89 NA NA NA NA 86.67 NA 90.91 88.89 NA NA 88.89 NA NA NA K intron_retention CG14253 chr3R + chr3R_22810359_22810426 chr3R_22810358_22810359;chr3R_22810426_22810427 chr3R_22810217_22810358;chr3R_22810427_22811124 0.00 0.00 0.00 0.25 0.00 0.00 0.13 0.41 0.00 0.00 0.00 0.13 0.00 0.00 0.17 0.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.22 2.04 0.45 0.00 0.00 0.00 0.00 0.00 0.43 1.27 0.19 0.00 0.00 0.22 1.66 0.00 0.00 0.00 1.21 0.56 0.28 0.42 0.00 0.59 0.37 0.00 0.00 0.00 0.00 0.00 0.35 2.28 K intron_retention tsu chr2R + chr2R_4998462_4998550 chr2R_4998461_4998462;chr2R_4998550_4998551 chr2R_4998109_4998461;chr2R_4998551_4999122 0.33 0.00 0.72 0.60 0.00 0.44 0.00 0.00 0.00 0.00 0.00 0.47 0.00 0.00 0.68 0.68 0.00 0.39 0.98 0.57 0.00 0.00 0.91 0.00 0.81 0.00 4.67 3.25 1.33 0.00 0.40 0.00 NA 0.00 1.01 0.00 1.05 0.71 0.00 0.21 0.00 0.27 0.66 0.00 0.17 0.74 0.00 0.65 0.73 0.61 0.48 2.27 0.58 0.43 0.00 0.44 0.00 0.17 K intron_retention MRP,F_chr2L_12727117_12736035 chr2L + chr2L_12731067_12737958 chr2L_12731066_12731067;chr2L_12737958_12737959 chr2L_12730998_12731066;chr2L_12737959_12738176 71.43 69.23 66.67 85.71 NA NA 86.67 76.19 90.91 NA NA 35.71 90.00 NA 75.00 93.33 NA NA NA 70.00 64.71 100.00 85.19 76.92 100.00 NA 68.75 88.89 60.00 70.00 NA NA 90.91 68.42 NA 73.91 63.64 NA 66.67 76.19 NA 71.43 NA 71.43 NA 60.00 NA 71.43 59.09 NA 62.50 81.82 46.67 63.64 77.78 NA NA 41.67 K intron_retention Ac76E,I_chr3L_19966672_19966735,chr3L_19968880_19969189.0 chr3L + chr3L_19968576_19969190 chr3L_19968575_19968576;chr3L_19969190_19969191 chr3L_19968471_19968575;chr3L_19969191_19969416 16.67 NA NA 16.67 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG33111,I_chr3R_19633752_19633821,eIF4G2 chr3R - chr3R_19633752_19643948 chr3R_19633751_19633752;chr3R_19643948_19643949 chr3R_19633652_19633751;chr3R_19643949_19644333 0.00 NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG6838,I_chr3L_22709306_22709668 chr3L - chr3L_22709303_22709397 chr3L_22709302_22709303;chr3L_22709397_22709398 chr3L_22709206_22709302;chr3L_22709398_22709514 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.43 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.45 0.00 0.00 0.00 0.00 1.15 0.00 0.00 0.00 0.83 0.00 0.00 0.70 0.00 0.00 0.00 0.00 0.00 1.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.57 0.00 0.00 0.00 0.00 K alternative_acceptor Eno,I_chr2L_1726650_1727645,I_chr2L_1726656_1727485,EI_chr2L_1727403_1727645,I_chr2L_1728229_1728302 chr2L - chr2L_1726656_1727645;chr2L_1726650_1727645;chr2L_1727559_1727645 chr2L_1727403_1727645 chr2L_1727646_1727735;chr2L_1726556_1726649 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.58 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.51 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.28 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA CdGAPr chr2L - chr2L_19777015_19777081 chr2L_19777021_19777081 chr2L_19777082_19778946;chr2L_19776320_19777014 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.68 97.78 100.00 100.00 100.00 100.00 100.00 99.01 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K jcn_only_AD Df31,RE_chr2L_21628206_21629662,I_chr2L_21628206_21629666,I_chr2L_21628210_21628515,I_chr2L_21628210_21628944,I_chr2L_21628210_21629216,EI_chr2L_21628210_21629715,REI_chr2L_21628210_21629884,I_chr2L_21628224_21629666,I_chr2L_21628734_21629666 chr2L - chr2L_21628210_21629216;chr2L_21628210_21629666;chr2L_21628210_21628515;chr2L_21628210_21628944;chr2L_21628210_21629884 chr2L_21628210_21629715 chr2L_21628124_21628209;chr2L_21629885_21629918 0.02 0.00 0.00 0.18 0.08 0.00 0.11 0.05 0.00 0.08 0.07 0.04 0.00 0.00 0.00 0.05 0.07 0.00 0.06 0.02 0.00 0.31 0.05 0.13 0.00 0.32 0.27 0.21 0.12 0.24 0.08 0.08 0.18 0.00 0.00 0.10 0.06 0.00 0.00 0.00 0.12 0.00 0.08 0.00 0.00 0.00 0.13 0.00 0.00 0.00 0.00 0.15 0.06 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG5594,CG2812 chr2R + chr2R_19796155_19797200 chr2R_19796169_19797200 chr2R_19797201_19797332;chr2R_19796020_19796154 3.78 2.41 6.54 4.66 4.50 4.62 5.39 9.13 3.77 6.35 5.75 3.91 3.05 3.36 3.09 3.28 1.77 5.19 3.62 4.80 6.45 2.27 4.50 4.05 4.59 1.77 2.22 1.25 2.63 2.08 3.45 6.00 5.49 5.18 4.17 3.60 3.78 0.74 2.11 5.24 3.95 4.52 2.86 2.86 1.65 5.30 1.77 2.77 4.85 2.20 3.54 1.85 3.95 5.88 4.35 1.85 6.98 0.57 K intron_retention CG2694,I_chrX_2608271_2608320,I_chrX_2609471_2609546,RI_chrX_2622297_2622430,RI_chrX_2622435_2622577 chrX + chrX_2608244_2608320 chrX_2608243_2608244;chrX_2608320_2608321 chrX_2608171_2608243;chrX_2608321_2608420 60.00 NA NA NA NA NA NA NA 62.50 NA NA 81.82 NA NA NA 53.85 NA NA 54.55 52.94 NA NA 42.86 NA NA NA NA NA NA NA 76.47 NA NA 70.00 NA NA 72.73 NA 66.67 60.00 NA 50.00 NA NA NA NA NA 58.33 53.85 NA 88.89 NA NA NA NA NA NA 60.00 K intron_retention CG7639 chr2R - chr2R_10876379_10876439 chr2R_10876378_10876379;chr2R_10876439_10876440 chr2R_10876267_10876378;chr2R_10876440_10876983 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 15.38 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 K alternative_donor CG11486,RE_chr3L_3084894_3085203 chr3L + chr3L_3071298_3073080;chr3L_3071190_3073080 chr3L_3071308_3073080 chr3L_3073081_3073149;chr3L_3071183_3071189 17.43 NA 20.00 18.18 NA NA 16.67 13.33 NA NA NA 25.00 12.50 NA 18.18 13.79 NA NA NA 6.67 NA NA NA NA NA NA NA NA NA NA 27.27 NA NA 11.76 NA NA NA NA NA 37.50 NA 20.00 NA NA NA NA NA NA 6.90 NA NA NA NA NA NA NA NA NA K intron_retention CG17660 chr2L - chr2L_1708678_1708820 chr2L_1708677_1708678;chr2L_1708820_1708821 chr2L_1708640_1708677;chr2L_1708821_1708909 1.04 2.50 1.56 0.00 1.85 3.03 2.60 0.00 1.52 2.70 3.57 1.83 0.00 5.26 2.90 0.00 0.00 0.00 0.00 2.61 0.00 1.94 0.00 0.00 0.00 0.00 1.04 1.61 3.33 0.00 2.90 3.85 1.37 2.22 0.00 1.47 2.34 0.00 1.41 0.95 3.92 0.91 0.00 0.00 0.00 1.19 0.00 0.00 0.00 0.00 1.90 0.00 2.35 0.00 0.00 2.82 3.57 0.00 K intron_retention mbl,I_chr2R_13163569_13203579 chr2R + chr2R_13239811_13246810 chr2R_13239810_13239811;chr2R_13246810_13246811 chr2R_13239634_13239810;chr2R_13246811_13247050 0.00 0.00 7.69 3.85 NA 0.00 0.00 10.87 0.00 0.00 NA 5.17 NA 0.00 5.41 0.00 0.00 0.00 4.35 3.03 0.00 14.29 6.67 NA NA 0.00 0.00 NA 0.00 0.00 4.44 NA 0.00 5.56 NA 5.00 3.70 NA 0.00 8.33 NA 2.13 0.00 0.00 NA 0.00 NA 0.00 4.65 NA NA NA NA NA 2.94 NA NA 0.00 K alternative_donor RpL8,I_chr3L_2587513_2587750,I_chr3L_2587600_2587750,RI_chr3L_2587690_2587750,I_chr3L_2589746_2592161 chr3L + chr3L_2587514_2587750;chr3L_2587690_2587750 chr3L_2587600_2587750 chr3L_2587751_2587850;chr3L_2587500_2587513 0.00 0.04 0.00 0.00 0.00 0.00 0.00 0.02 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.03 0.00 0.00 0.00 0.00 0.03 0.04 0.00 0.00 0.00 0.00 0.00 0.00 0.07 0.00 0.00 0.00 0.02 0.02 0.00 0.00 0.00 0.04 0.00 0.00 0.00 0.00 0.00 0.04 0.06 0.04 0.04 0.10 0.00 0.04 0.05 0.00 K intron_retention CG10337 chr2L - chr2L_19546426_19546646 chr2L_19546425_19546426;chr2L_19546646_19546647 chr2L_19546203_19546425;chr2L_19546647_19547031 0.00 0.00 0.00 0.00 0.00 0.00 9.68 0.00 0.00 0.00 0.00 1.56 0.00 0.00 0.00 6.06 0.00 0.00 0.00 1.43 0.00 6.67 0.00 0.00 0.00 NA 0.00 7.46 0.00 0.00 5.56 0.00 NA 2.63 0.00 8.00 0.00 0.00 0.00 6.25 0.00 3.77 0.00 0.00 NA 0.00 0.00 0.00 0.00 7.32 0.00 0.00 0.00 3.85 0.00 0.00 9.09 NA K jcn_only_AA ifc,I_chr2L_5986893_5987347,RI_chr2L_5987175_5987347,noncoding_1271 chr2L + chr2L_5986893_5987615 chr2L_5986893_5987347 chr2L_5986793_5986892;chr2L_5987616_5987779 0.57 1.09 0.27 0.00 0.37 0.00 0.22 0.59 0.72 0.00 1.56 1.09 1.74 0.33 0.97 0.68 0.82 0.00 0.62 0.53 0.35 0.34 0.67 0.67 2.02 0.00 1.32 2.54 0.00 0.00 1.00 3.68 1.04 0.19 0.45 0.00 0.31 1.07 1.11 0.28 2.11 0.33 0.44 1.32 1.10 0.00 0.00 1.52 0.57 1.07 0.30 0.99 0.00 0.00 0.53 1.57 0.71 0.00 K jcn_only_AA Nmnat chr3R + chr3R_20772018_20772675;chr3R_20772018_20772605 chr3R_20772018_20772197 chr3R_20771916_20772017;chr3R_20772676_20772744 9.52 NA NA NA NA NA 4.55 0.00 12.50 40.91 NA 25.00 NA NA NA NA NA NA NA 4.00 NA 0.00 12.12 NA NA NA 0.00 NA 0.00 NA 4.55 10.00 NA 0.00 NA 0.00 8.70 NA NA 15.38 9.52 17.39 NA 19.35 13.04 5.13 NA 6.45 4.00 9.09 20.00 NA 14.81 13.64 NA 9.52 14.71 14.29 K alternative_donor dorsal,RI_chr2L_17438018_17439189,I_chr2L_17442335_17442399,FI_chr2L_17449369_17450215,RI_chr2L_17450002_17450219 chr2L - chr2L_17442335_17442403 chr2L_17442335_17442399 chr2L_17442235_17442334;chr2L_17442404_17442499 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.32 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.33 1.23 0.00 0.00 0.00 0.00 0.00 1.20 0.00 0.00 0.00 0.00 0.98 0.00 0.74 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.65 0.00 0.00 1.02 0.00 0.00 0.00 0.00 1.37 0.00 0.00 K intron_retention Oda,I_chr2R_8055426_8055498,RI_chr2R_8057550_8061595 chr2R - chr2R_8055433_8055498 chr2R_8055432_8055433;chr2R_8055498_8055499 chr2R_8053976_8055432;chr2R_8055499_8055598 0.00 0.00 0.00 0.00 0.58 1.56 0.81 0.56 0.00 0.00 0.00 0.00 0.00 1.83 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.06 0.00 0.00 2.53 0.16 0.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.40 0.00 0.00 0.00 0.00 0.00 0.00 0.25 0.00 0.00 0.00 0.00 0.00 1.41 0.00 0.00 0.00 K cassette mys,I_chrX_7958795_7961094 chrX + chrX_7958795_7961094;chrX_7959566_7961094 chrX_7958795_7960130,chrX_7959566_7960130;chrX_7960216_7961094 chrX_7960131_7960215 chrX_7958695_7958794;chrX_7961095_7961194 16.80 20.83 16.67 9.88 23.57 14.72 9.05 13.20 18.24 10.75 8.02 7.30 31.91 24.00 19.21 8.26 34.58 14.44 21.07 25.72 10.68 10.55 13.26 14.00 15.79 33.33 15.79 21.57 8.24 22.95 22.15 18.64 22.47 16.24 18.34 16.80 17.17 13.37 18.38 20.83 20.00 16.06 15.46 15.03 19.67 22.41 17.74 25.00 11.71 6.67 14.81 20.26 6.34 17.17 19.49 17.56 6.94 7.55 K alternative_donor CG31120,I_chr3R_20743232_20743287 chr3R - chr3R_20743232_20743430 chr3R_20743232_20743287 chr3R_20743132_20743231;chr3R_20743431_20743491 0.00 NA NA 0.00 NA NA NA NA 0.00 NA NA 0.00 NA NA NA 0.00 NA NA NA 4.76 NA NA NA NA NA NA NA NA NA NA 9.09 0.00 NA NA NA NA NA NA NA 6.67 NA 0.00 NA NA NA 0.00 NA NA 0.00 NA NA NA NA NA NA NA NA 0.00 K multi_cassette Nos,I_chr2L_10826086_10826539 chr2L - chr2L_10804897_10812286 chr2L_10804897_10805618;chr2L_10805744_10805984;chr2L_10807128_10807290;chr2L_10807625_10812286 chr2L_10805619_10805743;chr2L_10805985_10807127;chr2L_10807291_10807624 chr2L_10804830_10804896;chr2L_10812287_10812302 100.00 NA NA NA NA NA NA 50.00 50.00 100.00 NA NA NA NA NA 100.00 NA NA NA 100.00 NA 60.00 100.00 100.00 50.00 NA 50.00 NA 66.67 100.00 NA 75.00 100.00 NA 100.00 100.00 50.00 100.00 100.00 NA 100.00 100.00 NA 100.00 50.00 100.00 100.00 75.00 NA NA 100.00 100.00 NA 50.00 NA 100.00 100.00 100.00 K jcn_only_AD MED26,RE_chr4_803564_803799,RI_chr4_803872_803924,I_chr4_807836_808089 chr4 - chr4_803872_803927 chr4_803872_803924 chr4_803800_803871;chr4_803928_804024 1.54 NA NA 1.79 NA NA 0.00 3.51 0.00 NA NA 0.00 8.70 0.00 0.00 1.59 NA NA 4.17 6.12 NA NA 8.33 NA NA 4.35 NA NA NA NA 7.89 NA NA 2.00 NA NA NA NA NA 0.00 NA 0.00 0.00 4.00 NA NA NA NA 1.49 NA 0.00 NA NA NA 0.00 NA NA NA K alternative_acceptor CG6459,RI_chr2R_13565425_13565874 chr2R - chr2R_13559312_13559369 chr2R_13559326_13559369 chr2R_13559370_13559714;chr2R_13558812_13559311 0.00 0.00 0.00 0.37 0.00 0.00 0.40 0.74 0.31 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.35 1.53 0.00 0.00 0.00 0.00 0.39 0.43 0.00 0.00 0.00 0.00 0.31 0.00 0.00 0.00 0.00 0.55 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.47 0.00 0.00 K intron_retention EF_chr2L_12038171_12038292,CG6766 chr2L - chr2L_12040380_12040437 chr2L_12040379_12040380;chr2L_12040437_12040438 chr2L_12040265_12040379;chr2L_12040438_12040698 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.97 NA 0.00 0.00 0.00 0.00 0.00 1.20 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.89 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG42303 chr3L + chr3L_2653658_2653717 chr3L_2653657_2653658;chr3L_2653717_2653718 chr3L_2652134_2653657;chr3L_2653718_2653906 0.00 0.00 NA 31.58 NA NA 0.00 0.00 0.00 NA NA 0.00 NA NA NA 0.00 NA NA NA 0.00 NA 6.67 0.00 NA NA NA NA 0.00 17.65 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 4.65 0.00 0.00 0.00 NA 0.00 0.00 NA NA 0.00 0.00 K alternative_donor CG1640,RI_chrX_13265127_13267895,I_chrX_13265553_13267895,I_chrX_13265618_13267895,RI_chrX_13266680_13267895,RI_chrX_13267529_13267895,I_chrX_13271541_13271890 chrX + chrX_13265401_13267895;chrX_13265248_13267895;chrX_13265094_13267895;chrX_13265295_13267895 chrX_13265560_13267895 chrX_13267896_13267973;chrX_13265065_13265093 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 8.11 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor Cip4,I_chr3L_4363128_4363769,I_chr3L_4363386_4363987 chr3L - chr3L_4324451_4324921 chr3L_4324451_4324861 chr3L_4324284_4324450;chr3L_4324922_4324996 65.45 57.14 57.14 61.25 61.36 69.57 67.89 66.67 65.25 91.30 56.52 59.13 83.33 70.73 53.70 64.29 69.44 88.89 67.31 65.45 70.97 71.43 60.82 62.50 47.06 60.34 62.69 58.82 86.67 66.67 65.45 62.96 60.47 63.51 75.76 65.85 71.43 73.33 59.49 43.75 74.36 62.50 55.26 61.54 83.87 66.00 70.83 73.85 63.79 61.11 63.64 72.09 73.91 62.50 55.74 78.12 70.31 80.30 K intron_retention out chrX - chrX_19207472_19207557 chrX_19207471_19207472;chrX_19207557_19207558 chrX_19207345_19207471;chrX_19207558_19207566 0.00 NA NA NA NA NA 0.00 0.00 0.00 0.00 NA 0.00 NA NA NA NA NA NA NA NA NA 0.00 6.67 0.00 NA NA 3.70 0.00 NA 0.00 NA NA 3.03 0.00 NA NA 0.00 0.00 0.00 6.82 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 NA NA 0.00 NA NA NA K intron_retention CG2065 chr2R + chr2R_3552015_3552079 chr2R_3552014_3552015;chr2R_3552079_3552080 chr2R_3551858_3552014;chr2R_3552080_3552339 0.00 0.00 0.00 3.61 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.12 0.00 0.00 0.00 1.03 3.45 0.00 0.00 0.00 0.00 0.00 4.17 0.00 0.00 0.00 0.00 0.00 0.00 1.37 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.32 0.00 0.00 0.00 0.00 0.00 3.64 3.66 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG1968 chr2R + chr2R_5174443_5174500 chr2R_5174442_5174443;chr2R_5174500_5174501 chr2R_5174304_5174442;chr2R_5174501_5175132 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 NA 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 12.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 K cassette CG14657 chr3R - chr3R_645633_646054 chr3R_645633_645832;chr3R_645989_646054 chr3R_645833_645988 chr3R_645516_645632;chr3R_646055_647174 18.75 18.52 11.11 12.20 16.67 29.41 36.67 27.27 27.12 25.00 16.67 14.58 89.47 23.08 24.24 18.18 33.33 16.13 37.50 23.08 23.53 37.50 10.00 21.21 8.00 9.38 18.18 20.00 18.18 15.00 24.14 NA 7.69 31.25 17.86 0.00 12.50 14.71 13.79 19.35 12.50 22.64 35.00 16.13 NA 14.81 22.22 25.00 26.83 18.75 25.00 22.73 4.55 17.39 21.62 17.65 19.05 8.33 K intron_retention HDAC4,F_chrX_13159070_13159174,I_chrX_13170581_13179235,I_chrX_13178996_13179235 chrX - chrX_13162296_13163860 chrX_13162295_13162296;chrX_13163860_13163861 chrX_13161355_13162295;chrX_13163861_13163991 7.14 NA NA 7.14 NA NA NA NA NA NA NA NA 7.14 NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention RI_chrX_8468338_8469380,I_chrX_8468338_8477573,CG12065,I_chrX_8469524_8477579,CE_chrX_8469528_8477573 chrX + chrX_8468441_8469383 chrX_8468440_8468441;chrX_8469383_8469384 chrX_8468351_8468440;chrX_8469384_8469480 10.81 7.69 21.43 3.39 4.26 13.16 16.95 6.25 10.48 11.54 0.00 15.28 5.26 8.89 17.07 9.57 12.20 13.79 8.33 8.24 10.81 6.50 11.27 12.50 20.51 26.19 20.51 21.43 25.00 5.26 9.26 13.79 10.00 10.14 10.87 11.90 9.76 10.00 8.00 28.57 22.58 7.32 9.52 13.79 10.71 13.56 2.94 20.45 9.52 7.84 11.48 11.11 17.86 8.33 10.42 14.58 6.15 12.68 K jcn_only_AD CG3829,I_chr2R_20874677_20875710,I_chr2R_20874711_20875717,I_chr2R_20875172_20875710,I_chr2R_20875497_20875710 chr2R + chr2R_20875497_20875710;chr2R_20875172_20875710;chr2R_20875350_20875710 chr2R_20874711_20875710 chr2R_20875711_20875810;chr2R_20874611_20874710 24.00 NA 21.15 17.65 36.00 15.62 23.08 16.67 22.06 NA 24.00 31.25 20.69 9.09 17.65 12.12 22.58 26.83 16.67 26.14 14.29 47.06 NA NA NA 25.64 NA NA 45.45 NA 50.00 NA NA 20.59 NA NA NA NA NA 48.15 NA 27.08 32.00 NA NA 72.73 NA 72.73 21.28 NA NA NA NA NA 28.57 NA NA 50.00 K intron_retention CG5188 chr2L + chr2L_10428931_10428985 chr2L_10428930_10428931;chr2L_10428985_10428986 chr2L_10428776_10428930;chr2L_10428986_10429659 0.00 NA NA 0.00 0.00 NA 4.00 0.00 0.00 NA NA 0.00 NA NA 0.00 NA NA NA 0.00 0.00 NA 0.00 0.00 0.00 NA NA NA NA NA 0.00 0.00 0.00 0.00 NA NA NA 0.00 NA NA 0.00 20.00 0.00 NA 0.00 NA 0.00 0.00 14.81 0.00 NA NA 0.00 0.00 NA 0.00 NA 0.00 0.00 K intron_retention Pp4-19C,I_chrX_20293932_20294672,RI_chrX_20293980_20294069,REI_chrX_20294004_20294672 chrX - chrX_20293980_20294069 chrX_20293979_20293980;chrX_20294069_20294070 chrX_20293904_20293979;chrX_20294070_20294083 87.50 NA 90.00 100.00 NA NA 87.50 92.31 90.00 NA NA 90.91 NA NA NA NA NA 63.64 87.50 92.86 NA 83.33 92.31 80.00 NA NA NA 87.50 72.73 87.50 NA NA 100.00 100.00 NA NA NA 90.00 NA 81.25 NA 71.43 NA 62.50 80.00 87.50 NA 90.91 71.43 87.50 NA NA NA NA NA NA NA 100.00 K jcn_only_AD E_chr4_592469_594231,Ephrin,I_chr4_595055_597604,RI_chr4_596272_596341 chr4 + chr4_592737_594238;chr4_592490_594238;chr4_592593_594238;chr4_592469_594238;chr4_592410_594238;chr4_592798_594238 chr4_592646_594238 chr4_594239_594331;chr4_592404_592409 0.00 0.00 4.35 1.39 0.00 0.00 1.05 0.00 1.16 NA NA 0.00 0.00 0.00 2.94 0.00 0.00 NA 0.00 1.61 0.00 NA 3.70 NA 0.00 0.00 3.03 NA NA NA 0.00 NA NA 5.06 0.00 0.00 NA NA NA 3.33 NA 1.61 0.00 0.00 NA NA NA NA 1.20 NA 2.70 0.00 NA NA 0.00 NA NA NA K alternative_acceptor CG9086,CEI_chrX_16859981_16861527,I_chrX_16861895_16862053 chrX - chrX_16861753_16862542 chrX_16861895_16862542 chrX_16862543_16862684;chrX_16861528_16861752 87.34 89.66 87.50 58.93 81.82 74.07 91.84 87.50 87.34 89.47 92.86 85.71 79.41 87.88 80.49 84.91 80.00 80.65 85.37 83.02 86.21 100.00 77.50 89.66 94.74 88.24 88.00 61.54 91.67 78.79 83.72 88.89 89.66 85.71 95.65 96.55 87.10 87.50 96.00 88.46 92.31 92.06 83.33 95.83 91.67 95.00 71.43 90.24 84.93 71.43 75.68 83.33 93.75 57.14 88.10 76.92 50.00 85.71 K intron_retention AT25722,CG3356 chr2R + chr2R_20086740_20086799 chr2R_20086739_20086740;chr2R_20086799_20086800 chr2R_20086019_20086739;chr2R_20086800_20087211 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.19 1.92 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AD CG32016,I_chr4_972719_972763,I_chr4_974853_975546,I_chr4_978690_978939 chr4 - chr4_975490_975549 chr4_975490_975546 chr4_975436_975489;chr4_975550_975646 93.42 92.11 97.78 89.06 90.00 88.89 96.10 90.74 91.67 NA 96.77 94.79 91.53 94.12 94.12 86.41 86.67 100.00 95.65 92.50 93.10 NA 95.35 96.67 100.00 95.56 89.36 NA 100.00 NA 85.00 96.43 100.00 90.72 89.74 92.86 NA 96.00 88.89 96.61 NA 87.80 89.47 95.00 NA 90.00 95.65 93.75 88.24 94.12 95.74 88.89 91.67 95.00 95.52 96.55 87.50 92.86 K jcn_only_AD CG8184,I_chrX_15620707_15620769 chrX + chrX_15617113_15617265;chrX_15617191_15617265 chrX_15617158_15617265 chrX_15617266_15618411;chrX_15615597_15617112 79.40 73.91 71.43 NA 69.57 75.86 85.00 85.71 82.46 87.50 NA 91.30 NA 78.57 78.79 71.88 NA 71.43 82.61 86.84 84.62 72.34 80.77 78.79 NA NA 74.36 80.49 81.13 85.71 71.43 NA 84.17 74.51 80.00 NA 77.94 68.97 78.26 83.78 NA 78.69 85.00 86.15 89.36 84.21 76.00 85.71 82.50 NA 76.92 88.00 74.19 NA 73.08 NA NA 72.00 K intron_retention CG7120,I_chr3L_8393044_8393116 chr3L + chr3L_8393790_8393848 chr3L_8393789_8393790;chr3L_8393848_8393849 chr3L_8393227_8393789;chr3L_8393849_8395118 9.52 NA NA NA NA NA NA 0.00 9.52 NA NA NA NA NA NA NA NA NA NA 0.00 NA 45.45 NA NA NA NA 27.27 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K jcn_only_AA CG13902,I_chr3L_840962_841041 chr3L - chr3L_840962_841041;chr3L_840991_841041 chr3L_840970_841041 chr3L_841042_841141;chr3L_840862_840961 5.43 5.41 0.00 3.64 NA 4.76 2.94 5.56 3.85 11.11 5.88 4.35 6.45 6.67 7.69 2.44 0.00 2.63 0.00 3.23 8.33 13.64 2.94 8.82 0.00 2.78 3.03 10.00 2.08 8.16 11.11 4.17 5.45 1.92 4.55 11.63 7.32 4.00 5.41 7.58 5.66 5.06 10.00 9.30 4.35 7.25 0.00 5.63 9.38 14.71 6.98 3.45 18.18 17.86 4.08 5.71 10.34 4.23 K intron_retention CG8709,I_chr2R_4027128_4027182,I_chr2R_4027682_4027747,RI_chr2R_4029534_4029599,I_chr2R_4030580_4030746,I_chr2R_4035901_4043493 chr2R - chr2R_4028119_4028185 chr2R_4028118_4028119;chr2R_4028185_4028186 chr2R_4028019_4028118;chr2R_4028186_4028252 0.00 0.00 2.33 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG3415 chrX + chrX_16165130_16165473 chrX_16165129_16165130;chrX_16165473_16165474 chrX_16164853_16165129;chrX_16165474_16166261 0.00 0.00 0.00 1.96 0.00 0.00 0.00 1.10 0.00 0.00 0.00 0.00 0.00 0.00 1.20 0.86 0.00 1.43 0.00 0.57 0.00 0.00 0.00 0.00 1.49 0.00 2.38 2.60 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.90 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.48 0.00 0.00 0.00 0.00 0.00 1.41 0.00 0.00 0.00 K alternative_acceptor mbc,I_chr3R_19615584_19615649,I_chr3R_19625220_19625288 chr3R + chr3R_19625220_19625288 chr3R_19625220_19625285 chr3R_19625120_19625219;chr3R_19625289_19625372 97.78 94.12 96.15 98.44 88.89 96.00 97.92 97.96 98.48 100.00 96.55 98.21 96.43 96.67 100.00 97.22 97.37 100.00 97.14 98.39 97.14 95.24 96.15 96.36 96.88 95.65 97.92 100.00 100.00 100.00 96.55 100.00 95.24 97.73 100.00 96.43 100.00 95.83 100.00 97.92 95.83 94.03 95.83 97.37 100.00 100.00 100.00 100.00 98.00 96.97 96.15 100.00 100.00 100.00 100.00 97.78 100.00 90.91 K intron_retention CG11753 chr3R + chr3R_4479008_4479077 chr3R_4479007_4479008;chr3R_4479077_4479078 chr3R_4478941_4479007;chr3R_4479078_4479145 6.10 6.84 8.33 24.29 5.83 4.11 10.74 9.09 6.09 6.90 11.49 5.62 10.67 6.90 2.35 7.06 3.12 6.10 8.14 6.55 8.99 4.60 7.25 5.65 8.93 15.56 10.00 8.06 20.00 2.68 5.88 4.88 3.12 8.77 4.29 8.97 4.62 5.51 4.97 6.15 9.46 8.09 10.00 4.14 7.89 4.80 4.24 2.50 6.14 5.19 7.76 3.95 4.11 3.39 5.49 5.06 4.85 4.48 K jcn_only_AA tra2,psnoRNA:tra2-a,REFI_chr2R_10491644_10491701 chr2R - chr2R_10490382_10490665 chr2R_10490411_10490665 chr2R_10490666_10490794;chr2R_10490009_10490381 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.56 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA CG9776,CG9772 chr3R - chr3R_162125_162190 chr3R_162131_162190 chr3R_162191_163064;chr3R_161731_162124 99.20 98.28 96.55 98.41 96.67 100.00 96.63 98.63 98.00 100.00 100.00 98.81 98.18 100.00 100.00 100.00 100.00 100.00 100.00 99.34 100.00 98.99 100.00 98.95 100.00 95.45 98.59 97.87 97.40 100.00 100.00 100.00 100.00 97.50 100.00 100.00 98.53 100.00 100.00 99.20 98.86 98.89 100.00 98.77 100.00 98.75 98.51 99.08 100.00 100.00 98.86 100.00 96.43 96.00 100.00 100.00 98.91 96.46 K multi_cassette Rad23,I_chr4_328801_328879,RI_chr4_328916_330164 chr4 + chr4_328916_330164 chr4_328916_329056;chr4_329201_329274;chr4_329706_330164 chr4_329057_329200;chr4_329275_329705 chr4_328880_328915;chr4_330165_330259 96.88 100.00 100.00 39.13 100.00 94.12 96.88 100.00 97.73 100.00 100.00 85.71 85.71 94.12 100.00 96.97 100.00 100.00 100.00 96.88 100.00 100.00 96.30 94.74 91.67 78.95 100.00 92.31 100.00 100.00 95.24 100.00 95.24 96.55 92.86 93.33 100.00 100.00 92.86 96.15 91.67 96.97 94.12 95.65 90.00 94.12 100.00 92.31 96.77 100.00 100.00 100.00 92.86 92.86 100.00 100.00 95.24 100.00 K intron_retention CG11586 chr3L - chr3L_4262205_4262263 chr3L_4262204_4262205;chr3L_4262263_4262264 chr3L_4261291_4262204;chr3L_4262264_4262500 0.00 0.00 0.00 3.45 6.90 6.67 3.33 2.44 0.00 0.00 0.00 2.13 0.00 0.00 0.00 8.00 0.00 0.00 0.00 1.43 0.00 0.00 4.08 0.00 0.00 0.00 2.27 6.25 0.00 0.00 9.52 0.00 0.00 0.00 5.00 0.00 0.00 0.00 0.00 5.63 4.35 0.00 4.76 3.70 0.00 0.00 2.56 2.38 0.00 0.00 0.00 0.00 0.00 0.00 6.06 5.56 0.00 0.00 K intron_retention AP-1gamma,I_chrX_9003790_9007675 chrX + chrX_9003728_9004650 chrX_9003727_9003728;chrX_9004650_9004651 chrX_9003721_9003727;chrX_9004651_9005038 100.00 100.00 88.89 100.00 NA 100.00 91.67 100.00 100.00 NA NA 93.75 100.00 100.00 100.00 100.00 NA NA 90.00 94.44 NA NA 90.00 NA 100.00 100.00 90.00 NA 88.89 100.00 100.00 NA 100.00 91.67 100.00 92.31 NA NA NA NA 90.91 92.31 NA NA NA NA NA NA 100.00 NA 100.00 NA NA NA 100.00 NA NA NA K jcn_only_AD Cht2,I_chr3L_1754361_1754605,I_chr3L_1754361_1754860 chr3L - chr3L_1754361_1755586;chr3L_1754361_1754605 chr3L_1754361_1754860 chr3L_1754261_1754360;chr3L_1755587_1755934 29.59 NA 29.17 6.06 43.48 42.86 NA 19.23 27.27 NA 21.74 21.74 NA 32.00 22.22 47.83 NA 17.39 30.00 31.03 NA NA NA NA NA 30.00 NA NA NA NA 33.33 NA NA 37.50 NA NA NA NA NA NA NA 24.39 NA NA NA NA NA NA 25.00 NA NA NA NA NA 37.50 NA NA NA K intron_retention RpL15 chr3LHet + chr3LHet_2397841_2398127 chr3LHet_2397840_2397841;chr3LHet_2398127_2398128 chr3LHet_2397802_2397840;chr3LHet_2398128_2398454 99.68 100.00 99.21 99.23 100.00 100.00 99.52 98.84 99.80 98.78 99.40 99.68 99.60 99.47 97.62 99.64 98.86 98.17 98.39 100.00 99.40 100.00 100.00 100.00 100.00 98.62 100.00 100.00 98.94 100.00 99.66 98.94 98.14 98.55 100.00 100.00 100.00 100.00 99.09 100.00 98.85 99.69 100.00 98.21 97.25 99.03 100.00 100.00 99.68 100.00 100.00 100.00 96.97 100.00 99.39 100.00 100.00 99.32 K intron_retention Wwox,I_chr2L_8000434_8000497,Spn28D chr2L - chr2L_8000033_8000107 chr2L_8000032_8000033;chr2L_8000107_8000108 chr2L_7999777_8000032;chr2L_8000108_8000236 3.45 3.45 0.00 25.00 0.00 0.00 0.00 5.88 8.70 3.85 6.67 4.00 NA 0.00 0.00 16.67 0.00 6.25 0.00 8.51 0.00 19.35 3.12 3.28 0.00 5.00 17.14 17.39 24.44 0.00 0.00 0.00 5.00 3.45 0.00 0.00 6.94 4.44 2.08 2.00 3.23 5.00 NA 5.71 5.56 10.26 4.00 3.70 13.79 4.69 1.79 0.00 0.00 5.88 0.00 0.00 2.70 0.00 K intron_retention cora,I_chr2R_15125277_15130573,I_chr2R_15129291_15129988 chr2R + chr2R_15130365_15130573 chr2R_15130364_15130365;chr2R_15130573_15130574 chr2R_15130209_15130364;chr2R_15130574_15130673 0.39 0.46 1.08 0.69 0.35 0.62 0.72 0.65 0.48 0.00 0.82 0.46 0.32 0.57 0.47 0.43 1.35 0.00 0.55 0.59 0.83 0.00 0.62 0.20 0.39 0.00 0.21 0.42 0.00 0.00 0.50 0.00 0.00 0.37 0.00 0.29 0.50 0.55 0.40 0.70 0.00 0.59 0.00 0.00 0.60 0.22 0.39 0.00 0.90 0.13 0.48 0.00 0.00 0.68 0.00 0.20 0.25 0.00 K intron_retention Trap1 chr2R - chr2R_2521454_2521515 chr2R_2521453_2521454;chr2R_2521515_2521516 chr2R_2521152_2521453;chr2R_2521516_2521564 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.64 0.00 0.00 0.00 1.96 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.50 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N cassette Inos,I_chr2R_3344353_3345211 chr2R - chr2R_3343582_3346113 chr2R_3343582_3343653;chr2R_3344353_3346113 chr2R_3343654_3344352 chr2R_3343339_3343581;chr2R_3346114_3346215 100.00 100.00 100.00 99.28 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.65 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K mutually_exclusive ens,I_chr3L_4130719_4131120 chr3L - chr3L_4127163_4129650,chr3L_4129789_4131120;chr3L_4127163_4130388,chr3L_4130644_4131120 chr3L_4127163_4128613,chr3L_4128974_4131120 chr3L_4129651_4129788;chr3L_4130389_4130643 chr3L_4128614_4128973 chr3L_4126989_4127162;chr3L_4131121_4131220 1.59 1.61 2.08 0.00 2.13 2.04 0.00 0.00 0.89 2.38 0.00 1.16 0.00 0.00 1.92 3.23 0.00 2.70 0.00 0.00 0.00 0.92 1.02 2.78 0.00 0.00 1.39 3.70 6.56 1.54 1.59 2.86 2.44 1.27 3.51 1.37 0.87 2.44 3.49 0.89 12.20 1.80 2.44 1.20 5.17 3.70 4.65 1.16 1.18 0.00 1.14 1.67 2.38 3.33 0.00 1.85 3.57 2.22 K jcn_only_AA CG8029,I_chr2R_5095165_5095256 chr2R + chr2R_5095165_5095256 chr2R_5095165_5095252 chr2R_5095083_5095164;chr2R_5095257_5095264 100.00 100.00 100.00 100.00 98.73 100.00 100.00 100.00 100.00 99.01 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.80 100.00 100.00 100.00 100.00 100.00 99.52 100.00 100.00 99.00 100.00 100.00 100.00 100.00 100.00 100.00 99.35 99.18 100.00 100.00 100.00 100.00 98.73 99.60 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.97 99.35 100.00 100.00 100.00 N jcn_only_AA stc chr2L + chr2L_15114214_15114299;chr2L_15114214_15114311 chr2L_15114214_15114448 chr2L_15114049_15114213;chr2L_15114449_15115753 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 16.09 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG12090,I_chr3L_1525393_1526659 chr3L - chr3L_1526732_1527189 chr3L_1526731_1526732;chr3L_1527189_1527190 chr3L_1526660_1526731;chr3L_1527190_1527240 88.67 92.86 94.44 88.24 90.00 100.00 88.89 100.00 93.33 NA 80.95 37.93 100.00 93.33 100.00 88.00 100.00 92.86 88.89 75.61 64.71 72.73 88.46 77.78 92.31 NA 92.86 NA 84.62 71.43 92.86 NA 100.00 90.00 85.71 77.78 73.33 91.67 94.12 86.21 87.50 87.88 100.00 93.33 80.00 85.71 94.74 76.47 94.44 75.00 84.21 NA 69.23 71.43 100.00 90.00 76.92 76.92 K alternative_donor Anxb11,I_chrX_16314152_16314405,I_chrX_16314152_16315813 chrX - chrX_16314152_16316028;chrX_16314152_16316199 chrX_16314152_16316276 chrX_16314083_16314151;chrX_16316277_16316298 11.76 12.50 11.11 13.33 55.56 0.00 11.76 10.00 11.76 NA 10.00 3.85 8.33 0.00 10.00 5.88 0.00 33.33 0.00 10.00 12.50 21.43 12.50 12.50 0.00 14.29 0.00 NA 12.50 0.00 11.11 20.00 16.67 14.29 0.00 12.50 0.00 NA 14.29 0.00 NA 6.67 14.29 15.38 0.00 12.50 20.00 14.29 4.35 0.00 9.09 0.00 20.00 NA 23.08 20.00 16.67 27.27 K alternative_acceptor RN-tre chr2R - chr2R_9877474_9878070 chr2R_9877492_9878070 chr2R_9878071_9878197;chr2R_9877190_9877473 98.63 100.00 97.44 100.00 94.44 100.00 86.67 98.11 97.96 96.30 94.44 98.28 100.00 97.37 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.67 97.87 100.00 100.00 93.10 100.00 100.00 97.26 97.50 98.63 100.00 98.36 98.15 97.73 97.56 100.00 100.00 97.37 100.00 98.08 100.00 100.00 100.00 98.25 98.90 96.30 98.03 97.40 100.00 97.87 100.00 100.00 100.00 91.49 97.56 100.00 96.47 K alternative_donor RpL18A,I_chr2R_13434492_13434554,I_chr2R_13434492_13434576 chr2R - chr2R_13434492_13434576;chr2R_13434492_13434554 chr2R_13434492_13434913 chr2R_13434392_13434491;chr2R_13434914_13434994 99.91 100.00 99.93 99.84 99.94 99.96 99.72 99.94 99.94 100.00 100.00 99.93 99.88 99.94 99.94 99.91 99.93 100.00 100.00 99.97 100.00 99.68 98.97 99.77 99.52 100.00 98.77 99.77 99.15 99.84 99.91 99.89 99.94 99.97 100.00 100.00 99.87 100.00 99.83 99.94 99.85 99.98 99.95 99.90 99.90 99.86 99.78 99.87 99.86 99.25 98.21 100.00 99.90 99.15 100.00 99.85 99.62 99.88 K intron_retention bai chr3R + chr3R_20865679_20865743 chr3R_20865678_20865679;chr3R_20865743_20865744 chr3R_20865608_20865678;chr3R_20865744_20865870 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 7.30 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG6045,I_chr3R_11373181_11373245 chr3R - chr3R_11373181_11373246 chr3R_11373180_11373181;chr3R_11373246_11373247 chr3R_11373081_11373180;chr3R_11373247_11373345 19.44 15.00 19.05 11.63 30.00 20.83 18.52 17.39 21.43 NA 40.00 25.00 28.57 21.43 24.14 19.51 13.64 10.53 19.44 11.11 20.00 21.43 20.00 NA NA 52.38 NA NA NA NA 23.53 NA 23.33 19.44 20.00 NA NA NA NA 13.04 NA 12.50 23.08 17.65 NA NA NA 18.75 16.36 NA 12.50 NA NA NA 18.75 NA NA 15.38 K jcn_only_AD MB8.chr3R.pasa.66,CG1105,I_chr3R_2892020_2892122,RI_chr3R_2892020_2892252 chr3R - chr3R_2892020_2892252;chr3R_2892020_2892645 chr3R_2892020_2892122 chr3R_2891920_2892019;chr3R_2892646_2892745 0.00 2.17 0.00 0.00 0.00 2.13 1.54 0.00 0.00 0.00 0.00 0.00 2.78 0.00 0.00 2.08 0.00 0.00 0.00 0.00 0.00 0.00 1.37 0.00 0.00 0.00 1.96 0.00 2.13 4.44 0.00 4.88 2.78 1.25 2.17 0.00 1.61 0.00 1.92 4.17 0.00 1.05 0.00 3.92 5.00 3.17 0.00 0.00 3.49 0.00 1.25 0.00 3.23 5.88 0.00 0.00 1.54 0.00 K intron_retention CE_chrX_19156179_19164138,CG8010,CG32536 chrX - chrX_19162632_19162709 chrX_19162631_19162632;chrX_19162709_19162710 chrX_19162538_19162631;chrX_19162710_19162926 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.72 0.00 4.35 0.00 1.23 0.00 0.00 1.23 4.76 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.12 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.45 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention I_chrX_7993650_7995126,Gclc chrX - chrX_8009614_8009706 chrX_8009613_8009614;chrX_8009706_8009707 chrX_8009450_8009613;chrX_8009707_8009743 53.24 NA NA NA NA NA NA NA 52.63 NA NA 38.46 NA NA NA NA NA NA NA 54.55 NA NA NA NA NA NA NA NA 77.78 NA NA NA NA NA NA NA NA NA NA NA NA 53.85 NA NA NA NA NA NA 45.45 NA NA NA NA NA NA NA NA NA K jcn_only_AD CG3107 chr2R + chr2R_978147_979376 chr2R_978248_979376 chr2R_979377_979733;chr2R_978101_978146 13.04 NA NA 18.18 NA 13.04 4.00 22.86 15.38 NA NA 12.82 NA NA NA 12.50 NA NA NA 33.33 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 15.00 NA NA NA NA NA NA 7.89 NA NA NA NA NA 8.70 NA NA NA K alternative_donor CG8709,I_chr2R_4027128_4027182,RI_chr2R_4029534_4029599,I_chr2R_4030580_4030636,I_chr2R_4030580_4030746,I_chr2R_4035901_4043493 chr2R - chr2R_4030580_4033256;chr2R_4030580_4033259 chr2R_4030580_4030636 chr2R_4030480_4030579;chr2R_4033260_4033265 6.12 4.55 4.88 3.53 7.41 4.76 6.98 7.50 7.41 5.88 6.06 7.87 8.00 7.89 8.57 8.47 4.65 10.00 4.62 7.59 6.45 12.50 4.11 5.08 3.92 6.38 6.45 7.69 10.53 4.65 7.50 4.76 5.71 6.41 6.06 5.13 6.25 3.57 6.12 6.12 4.76 6.32 7.32 6.52 5.56 6.25 6.67 8.82 7.25 3.45 5.80 6.06 3.70 5.26 7.41 3.45 5.56 5.71 K intron_retention CG42595,I_chr2RHet_3155517_3174709,RI_chr2RHet_3175044_3179353,RI_chr2RHet_3179300_3179586,I_chr2RHet_3179481_3179586 chr2RHet - chr2RHet_3179300_3179353 chr2RHet_3179299_3179300;chr2RHet_3179353_3179354 chr2RHet_3179200_3179299;chr2RHet_3179354_3179453 45.80 52.94 NA 31.43 NA 41.67 43.18 43.48 49.06 NA NA 47.37 30.00 57.14 NA 53.57 NA NA 38.89 47.83 NA NA 69.23 41.67 NA NA 81.82 NA NA 45.45 44.00 NA NA 34.48 NA NA NA NA NA 50.00 NA 50.00 37.50 41.18 NA NA NA 30.77 55.56 NA NA 46.15 NA NA 58.33 NA NA NA K intron_retention ETHR chr3R + chr3R_17085356_17085428 chr3R_17085355_17085356;chr3R_17085428_17085429 chr3R_17085193_17085355;chr3R_17085429_17085591 17.65 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 33.33 NA NA NA NA NA 17.65 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA K intron_retention l(1)G0148 chrX + chrX_6549806_6551639 chrX_6549805_6549806;chrX_6551639_6551640 chrX_6549586_6549805;chrX_6551640_6553756 0.00 0.00 0.00 0.00 0.00 0.00 6.25 0.00 0.00 0.00 0.00 0.00 0.00 4.55 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 NA 0.00 0.00 NA 0.00 K jcn_only_AA Pect,I_chr2L_13207997_13208109,E_chr2L_13208285_13210076 chr2L + chr2L_13208778_13209435;chr2L_13208778_13209501;chr2L_13208778_13209471 chr2L_13208778_13209492 chr2L_13208665_13208777;chr2L_13209502_13209599 5.50 4.44 4.99 2.40 7.50 5.40 1.74 3.70 4.65 3.70 2.46 6.21 38.89 7.74 5.50 4.43 6.56 5.50 4.12 7.17 3.76 13.75 6.44 7.60 6.37 3.09 5.04 12.75 4.22 9.09 4.57 6.29 8.66 3.99 9.76 2.46 7.12 5.76 4.72 3.93 6.22 5.55 4.71 5.82 4.95 8.06 4.95 7.94 2.93 6.33 6.78 5.68 1.45 7.92 7.54 7.07 3.38 3.50 K intron_retention CG12030 chr3L + chr3L_649052_649125 chr3L_649051_649052;chr3L_649125_649126 chr3L_648517_649051;chr3L_649126_649419 100.00 100.00 96.00 100.00 100.00 95.83 97.62 97.44 100.00 90.91 100.00 100.00 100.00 100.00 94.12 100.00 100.00 96.30 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 93.75 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG30001 chr2R - chr2R_5709396_5709451 chr2R_5709395_5709396;chr2R_5709451_5709452 chr2R_5709251_5709395;chr2R_5709452_5709603 14.29 NA NA 4.00 NA NA 27.27 NA 6.25 NA NA 11.76 NA 6.67 NA 35.71 NA NA NA 17.24 NA NA NA 14.29 NA NA NA NA NA NA 14.29 NA NA 22.22 NA NA 6.67 NA 33.33 NA NA 13.33 NA NA NA 18.75 36.36 NA 23.53 26.32 13.33 NA NA NA NA NA 0.00 10.53 K intron_retention CG34126,I_chr2L_4984636_4984712 chr2L + chr2L_4990630_4990691 chr2L_4990629_4990630;chr2L_4990691_4990692 chr2L_4990506_4990629;chr2L_4990692_4990839 1.81 1.24 1.33 2.93 0.00 0.95 3.05 1.65 2.25 5.56 0.00 2.14 0.00 1.56 2.16 2.40 1.57 1.59 0.75 2.35 0.00 3.93 1.96 2.20 6.32 5.92 4.04 8.74 9.27 2.53 1.32 2.68 2.55 2.02 2.33 3.81 1.61 0.65 1.30 1.81 11.83 0.78 0.00 1.33 2.36 1.22 0.00 3.81 1.20 0.00 1.66 3.10 1.37 1.23 0.00 2.92 0.00 3.57 K intron_retention srp,I_chr3R_11825782_11827473,I_chr3R_11826508_11826910 chr3R + chr3R_11825782_11826910 chr3R_11825781_11825782;chr3R_11826910_11826911 chr3R_11825682_11825781;chr3R_11826911_11827010 3.85 4.11 3.61 11.54 0.00 3.95 3.77 7.84 6.25 3.85 4.92 4.72 6.00 3.45 4.49 11.43 4.65 0.00 7.55 1.74 1.28 2.92 7.20 4.46 5.26 0.00 3.57 7.41 6.25 4.03 6.15 1.37 3.39 3.77 2.70 6.93 4.10 2.82 2.26 5.22 6.45 2.45 5.00 4.55 0.91 2.11 0.00 3.85 3.08 2.17 2.30 7.27 0.00 3.39 5.41 0.00 0.00 2.12 K alternative_acceptor Hel25E chr2L - chr2L_5541970_5542182 chr2L_5541977_5542182 chr2L_5542183_5542310;chr2L_5541723_5541969 98.00 98.51 98.11 98.71 100.00 98.15 98.00 97.08 97.74 100.00 100.00 99.28 98.28 98.65 98.59 98.82 95.38 98.18 97.18 97.22 95.83 98.63 98.59 95.45 95.24 98.25 98.21 97.14 100.00 100.00 98.61 96.00 100.00 95.80 98.00 97.87 96.97 96.43 100.00 100.00 100.00 99.05 94.83 95.65 96.43 96.92 97.30 100.00 97.69 97.22 97.47 97.87 100.00 98.00 96.88 96.36 98.15 97.92 K intron_retention I_chr2R_10048593_10048655,Tango7 chr2R - chr2R_10051876_10051991 chr2R_10051875_10051876;chr2R_10051991_10051992 chr2R_10051696_10051875;chr2R_10051992_10052150 0.00 0.00 0.34 0.62 1.14 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.47 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.25 1.35 0.00 0.48 0.00 0.00 0.00 0.50 0.00 0.00 0.00 0.62 0.33 0.52 0.00 0.42 0.00 0.00 0.00 0.33 0.50 0.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention mRpL28,CG3792,CG34126,I_chr2L_4984636_4984712 chr2L + chr2L_4974158_4974276 chr2L_4974157_4974158;chr2L_4974276_4974277 chr2L_4974010_4974157;chr2L_4974277_4975100 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.68 0.00 0.00 0.00 1.25 0.00 0.00 0.00 0.00 0.00 1.92 0.88 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.08 0.00 1.67 0.00 0.00 0.00 0.00 0.00 2.13 0.00 0.00 1.36 3.08 0.00 0.00 0.00 2.11 0.00 2.07 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG42270,I_chrX_17615384_17615455,I_chrX_17639729_17640603 chrX + chrX_17644520_17644586 chrX_17644519_17644520;chrX_17644586_17644587 chrX_17641001_17644519;chrX_17644587_17644881 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.25 0.00 0.00 0.00 0.00 0.00 2.21 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.54 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_acceptor Eb1,RI_chr2R_2640290_2642206,I_chr2R_2640494_2642206,I_chr2R_2642491_2642549 chr2R + chr2R_2640290_2640353 chr2R_2640290_2640347 chr2R_2640190_2640289;chr2R_2640354_2640493 99.39 98.35 99.37 99.57 100.00 99.21 99.46 99.16 99.64 98.48 100.00 99.20 100.00 100.00 100.00 99.22 99.07 99.31 100.00 99.05 99.19 99.23 99.21 100.00 100.00 99.34 100.00 98.55 98.73 100.00 99.56 100.00 99.17 100.00 100.00 99.14 99.42 99.24 99.44 99.39 100.00 99.66 100.00 99.44 100.00 99.32 99.38 98.80 99.34 99.22 100.00 99.15 98.92 99.21 99.46 100.00 99.47 98.89 K alternative_acceptor RI_chrX_1796525_1796585,mip130,I_chrX_1820956_1821011,CG11596 chrX + chrX_1822614_1823084 chrX_1822614_1823033 chrX_1822367_1822613;chrX_1823085_1823203 91.49 87.88 100.00 96.97 96.77 88.24 96.77 98.00 97.14 94.44 96.43 93.10 100.00 96.77 97.44 95.12 100.00 88.89 96.55 97.33 86.67 86.21 87.04 87.50 95.65 100.00 97.06 91.30 88.89 88.89 91.49 86.36 88.46 96.00 100.00 87.50 86.05 87.88 92.11 82.69 81.82 93.33 96.88 89.47 90.91 85.71 91.43 84.85 92.45 89.47 84.00 96.55 72.73 94.29 97.83 88.24 90.48 75.00 K jcn_only_AA tra2,I_chr2R_10491279_10491488,REFI_chr2R_10491644_10491701 chr2R - chr2R_10491007_10491488 chr2R_10491431_10491488 chr2R_10491489_10491563;chr2R_10490853_10491006 10.19 9.09 22.22 4.29 3.85 7.14 21.05 19.35 15.00 2.17 22.22 19.59 NA 20.00 16.13 24.44 4.35 7.69 16.13 8.91 21.21 12.70 7.59 18.97 10.00 9.09 6.00 7.14 6.25 9.46 12.50 16.67 5.70 NA 8.47 5.56 5.75 1.69 5.68 9.63 12.77 14.56 13.64 10.64 11.00 14.02 14.08 10.19 9.80 10.29 13.85 22.50 6.90 4.05 28.12 7.58 10.77 6.85 K intron_retention cmet chr2L - chr2L_11262181_11262243 chr2L_11262180_11262181;chr2L_11262243_11262244 chr2L_11262063_11262180;chr2L_11262244_11262420 0.00 0.00 0.00 5.77 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention noncoding_20850,CG11093,RF_chr4_983355_984342 chr4 - chr4_983355_983859 chr4_983354_983355;chr4_983859_983860 chr4_983255_983354;chr4_983860_983907 29.81 30.00 31.82 39.66 33.33 26.32 33.33 35.29 23.88 NA 77.78 45.45 27.59 48.15 24.14 36.76 46.67 20.00 26.32 28.12 NA 16.67 18.18 15.79 NA 31.25 14.29 NA NA 40.00 30.00 15.00 15.79 29.63 25.00 NA NA 25.00 NA 48.00 36.84 42.55 28.57 26.67 26.32 32.00 25.00 33.33 34.29 37.50 14.29 33.33 22.73 NA 31.25 36.36 15.56 29.41 K jcn_only_AD katanin-60 chr3R - chr3R_1056937_1057778 chr3R_1056937_1057627 chr3R_1056715_1056936;chr3R_1057779_1057940 0.00 0.00 0.00 2.70 4.55 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 0.00 1.69 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 7.14 2.70 0.00 NA 0.00 0.00 0.00 3.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.57 3.57 K intron_retention sli,RI_chr2R_11794739_11809143 chr2R - chr2R_11761183_11761827 chr2R_11761182_11761183;chr2R_11761827_11761828 chr2R_11761040_11761182;chr2R_11761828_11761954 3.08 2.78 3.51 2.74 2.17 0.00 0.00 4.84 3.08 3.42 0.00 3.08 6.38 5.71 0.00 0.00 6.06 2.04 0.00 3.36 5.26 6.67 0.88 3.49 3.12 5.71 0.00 6.12 2.82 5.00 5.56 0.00 3.19 2.56 0.00 3.85 2.99 3.70 3.68 3.39 0.00 3.31 0.00 3.49 2.44 5.56 2.70 5.26 1.19 9.62 0.00 6.00 1.80 0.00 4.44 0.00 0.00 2.60 K intron_retention Ank,RI_chr4_142397_142478,RI_chr4_144049_144406,I_chr4_150069_150423 chr4 - chr4_142426_142478 chr4_142425_142426;chr4_142478_142479 chr4_142310_142425;chr4_142479_142578 0.00 1.18 0.00 0.00 0.00 0.00 2.47 1.49 0.00 0.00 0.00 0.00 0.00 2.27 0.00 1.37 2.04 1.37 1.09 2.16 0.00 0.00 0.00 0.00 0.00 0.00 2.47 NA 0.00 0.00 2.11 NA 0.00 0.74 0.00 0.00 1.64 0.00 0.00 1.45 NA 2.61 2.99 0.00 NA 0.00 0.00 0.00 0.62 0.00 1.54 2.17 0.00 NA 0.96 0.00 0.00 0.00 K intron_retention CG2909 chrX + chrX_10222106_10222444 chrX_10222105_10222106;chrX_10222444_10222445 chrX_10221099_10222105;chrX_10222445_10223021 0.00 0.00 0.00 4.17 0.00 0.00 1.89 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 NA 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention dco,RI_chr3R_26883651_26886096,I_chr3R_26884350_26886671,I_chr3R_26884350_26886791,RI_chr3R_26884365_26886096,I_chr3R_26884365_26886798 chr3R - chr3R_26886187_26886798 chr3R_26886186_26886187;chr3R_26886798_26886799 chr3R_26886097_26886186;chr3R_26886799_26886891 9.68 9.86 10.53 14.29 12.73 7.50 11.40 14.29 8.04 4.44 2.82 13.46 12.33 11.59 10.45 11.11 9.68 8.22 10.00 6.53 8.57 8.42 6.67 11.59 8.89 10.94 14.06 12.00 15.38 5.51 6.90 9.52 8.15 11.76 12.07 9.46 6.60 10.00 15.09 9.76 13.56 11.54 12.73 8.85 9.21 7.08 5.49 7.24 13.56 9.43 13.51 10.53 8.33 5.26 6.74 4.60 7.78 3.21 K alternative_acceptor CG11163,I_chr2R_1666219_1669711 chr2R - chr2R_1666133_1670219 chr2R_1666219_1670219 chr2R_1670220_1670281;chr2R_1666119_1666132 100.00 95.00 100.00 100.00 92.86 100.00 97.50 100.00 97.92 100.00 100.00 97.62 100.00 96.15 95.24 97.92 100.00 100.00 100.00 97.78 100.00 100.00 94.74 100.00 100.00 92.86 100.00 NA 100.00 95.00 100.00 100.00 100.00 92.59 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.35 100.00 100.00 100.00 97.62 93.33 97.87 96.61 100.00 95.83 100.00 100.00 100.00 100.00 100.00 94.44 98.04 K intron_retention CG4957,CG31873 chr2L + chr2L_10269320_10269375 chr2L_10269319_10269320;chr2L_10269375_10269376 chr2L_10268881_10269319;chr2L_10269376_10269550 0.00 NA NA 0.00 NA NA 4.55 0.00 0.00 NA NA 0.00 NA 0.00 NA 0.00 0.00 NA 0.00 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 0.00 NA NA NA NA NA 0.00 NA NA NA NA NA 0.00 NA NA NA K alternative_donor CG4699 chr3R + chr3R_11624200_11624445;chr3R_11624190_11624445;chr3R_11624127_11624445 chr3R_11624133_11624445 chr3R_11624446_11624758;chr3R_11623809_11624126 9.09 2.50 5.00 17.19 24.39 18.18 3.64 12.07 16.25 3.85 11.11 9.86 2.78 10.81 13.21 13.16 10.81 10.71 8.89 8.05 5.88 9.09 1.79 9.68 8.33 17.07 5.45 1.79 9.09 10.59 13.64 15.52 20.77 14.75 6.78 7.02 8.70 10.64 5.97 1.59 2.86 8.33 7.50 9.43 4.26 9.09 2.70 19.87 12.77 10.00 4.08 6.25 2.33 15.62 9.62 5.41 11.76 26.45 K intron_retention CG1316 chr3L + chr3L_4286002_4286171 chr3L_4286001_4286002;chr3L_4286171_4286172 chr3L_4285847_4286001;chr3L_4286172_4286865 93.75 100.00 100.00 NA NA NA NA 100.00 100.00 NA NA 92.31 NA NA 100.00 100.00 NA 100.00 NA 88.24 NA NA 90.00 NA NA NA NA NA 62.96 100.00 100.00 90.00 90.00 93.75 NA NA NA NA 88.89 92.86 NA 90.91 100.00 NA 90.91 93.33 100.00 100.00 91.67 NA 87.50 NA NA NA 90.91 NA 100.00 94.44 K cassette klar,I_chr3L_462559_472609,RI_chr3L_517594_539898 chr3L - chr3L_451772_454108 chr3L_451772_452837;chr3L_453489_454108 chr3L_452838_453488 chr3L_451127_451771;chr3L_454109_454405 97.40 96.41 99.01 90.62 98.41 98.45 98.25 96.22 98.41 98.15 96.72 94.54 96.20 98.28 98.75 99.09 99.60 96.89 96.62 96.36 97.40 83.33 97.57 96.45 96.76 97.82 96.00 97.21 96.62 97.48 96.60 97.90 98.14 97.60 95.54 93.35 97.06 97.66 96.57 99.01 99.23 97.26 97.78 96.86 98.56 97.63 99.02 97.84 98.68 97.02 96.34 99.55 97.40 97.16 98.60 96.46 97.19 98.81 K jcn_only_AA CG5745,I_chr3R_16928870_16929143 chr3R + chr3R_16928641_16929149 chr3R_16928641_16929143 chr3R_16928445_16928640;chr3R_16929150_16929243 100.00 100.00 100.00 100.00 100.00 100.00 97.96 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.96 96.15 100.00 100.00 100.00 100.00 100.00 97.67 100.00 100.00 97.78 NA 100.00 100.00 100.00 100.00 93.55 100.00 97.06 100.00 100.00 100.00 98.28 100.00 100.00 100.00 NA 100.00 100.00 100.00 100.00 100.00 K cassette Ctr1A,I_chrX_6558480_6559032 chrX + chrX_6559720_6560882 chrX_6559720_6560272;chrX_6560303_6560882 chrX_6560273_6560302 chrX_6559472_6559719;chrX_6560883_6561458 5.00 3.12 1.79 12.24 3.85 5.77 6.35 1.19 8.33 4.76 4.08 8.43 9.38 6.82 5.88 3.64 4.65 4.88 5.41 6.11 2.27 7.89 4.41 7.23 12.82 8.00 5.88 28.21 5.88 6.12 3.92 8.33 4.05 4.71 2.27 8.33 4.58 5.63 3.91 6.00 5.88 2.22 3.45 9.52 3.23 9.38 2.13 8.00 4.11 3.49 4.35 6.67 1.59 5.00 5.56 4.62 1.98 4.46 K jcn_only_AA CG5510 chr3R - chr3R_19994963_19995036 chr3R_19994969_19995036 chr3R_19995037_19995105;chr3R_19994900_19994962 100.00 100.00 99.60 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.76 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.29 100.00 100.00 100.00 100.00 99.55 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.51 100.00 99.47 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.43 100.00 K intron_retention CG6928 chr3L + chr3L_12000501_12000715 chr3L_12000500_12000501;chr3L_12000715_12000716 chr3L_12000321_12000500;chr3L_12000716_12001156 6.12 0.00 5.56 0.00 NA NA 0.00 13.04 7.14 NA NA 7.69 NA 15.38 NA 11.76 NA NA 0.00 4.76 NA NA 0.00 20.00 NA 0.00 0.00 15.38 NA NA NA NA NA NA NA NA NA 13.33 NA 0.00 NA 5.56 NA 9.52 NA 11.11 NA NA 0.00 13.33 15.00 NA NA 6.67 NA NA 4.76 NA K alternative_acceptor Keap1 chr3R - chr3R_12902225_12902298 chr3R_12902247_12902298 chr3R_12902299_12902615;chr3R_12901967_12902224 23.77 33.33 16.67 16.67 NA 12.50 23.53 12.50 24.00 15.91 NA 23.33 NA 25.00 13.04 17.65 23.08 20.00 NA 18.92 27.27 21.92 27.50 21.43 29.17 13.33 21.43 21.05 28.57 26.67 31.58 30.43 33.33 13.64 24.00 32.14 30.00 31.82 31.71 24.14 26.67 18.52 7.69 29.63 17.95 25.00 16.67 22.73 26.09 19.05 29.41 28.57 25.00 NA 16.67 30.77 20.00 24.32 K intron_retention CG18659,E_chr2R_5011363_5019110,I_chr2R_5016147_5016997 chr2R - chr2R_5015816_5015875 chr2R_5015815_5015816;chr2R_5015875_5015876 chr2R_5015762_5015815;chr2R_5015876_5016146 33.33 32.08 45.45 17.86 28.26 30.43 35.59 39.29 26.47 50.00 35.90 27.85 38.89 21.62 40.00 32.61 34.00 31.71 37.50 35.11 39.02 38.03 28.75 27.40 52.27 56.41 44.74 34.00 53.12 32.61 38.30 33.33 23.33 31.67 40.00 34.69 20.88 26.09 24.44 32.32 63.33 32.89 28.57 30.65 33.33 38.30 38.64 52.00 36.99 19.64 28.41 33.33 29.63 28.57 36.96 26.67 20.00 51.72 K jcn_only_AD eRF1,CG5618,I_chr3L_20346714_20347106,I_chr3L_20346738_20347058,I_chr3L_20348230_20348404 chr3L + chr3L_20341925_20342041;chr3L_20341636_20342041;chr3L_20341509_20342041;chr3L_20341486_20342041;chr3L_20341522_20342041;chr3L_20341751_20342041;chr3L_20341530_20342041;chr3L_20341629_20342041;chr3L_20341598_20342041;chr3L_20341759_20342041 chr3L_20341865_20342041 chr3L_20342042_20342306;chr3L_20341482_20341485 0.00 0.00 0.00 0.00 0.00 0.00 1.23 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.54 0.00 0.00 0.79 0.00 0.00 2.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.55 0.00 0.00 NA 0.00 0.00 2.78 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 K intron_retention Ca-P60A,RI_chr2R_19820338_19820541,I_chr2R_19820338_19821424,CEI_chr2R_19820338_19821830,I_chr2R_19820338_19823289 chr2R - chr2R_19820338_19820817 chr2R_19820337_19820338;chr2R_19820817_19820818 chr2R_19820238_19820337;chr2R_19820818_19820969 98.72 100.00 98.72 97.25 96.88 100.00 100.00 99.17 99.36 97.62 100.00 99.20 98.61 100.00 100.00 100.00 97.67 97.78 100.00 97.33 100.00 96.55 99.04 98.78 98.04 100.00 99.00 95.74 98.36 100.00 100.00 97.06 99.15 100.00 100.00 98.04 97.30 97.67 98.81 97.65 97.78 99.24 98.04 100.00 97.22 98.08 97.67 98.72 99.09 97.78 100.00 100.00 96.88 94.74 97.47 96.88 97.73 98.39 K intron_retention Cp110,I_chrX_21890195_21895316,I_chrX_21900456_21904601 chrX + chrX_21886363_21887237 chrX_21886362_21886363;chrX_21887237_21887238 chrX_21884923_21886362;chrX_21887238_21887471 23.08 NA 25.00 NA NA 6.67 NA NA 20.00 NA NA 30.00 NA 16.67 NA 23.53 NA 15.38 16.67 19.05 NA 50.00 NA 23.08 NA NA 30.77 NA NA NA 38.46 41.67 16.67 NA 21.43 30.77 NA 25.00 35.71 33.33 26.67 30.00 30.77 NA 18.75 12.50 NA 12.50 7.41 10.00 33.33 NA NA NA 20.00 14.29 30.77 16.67 K alternative_acceptor lt,I_chr2L_22817840_22817968,RI_chr2L_22820498_22823377,I_chr2L_22831575_22832085,I_chr2L_22832038_22832092,RI_chr2L_22832567_22832623 chr2L + chr2L_22817840_22817968;chr2L_22817840_22817891 chr2L_22817840_22817943 chr2L_22817740_22817839;chr2L_22817969_22817982 2.56 4.26 1.85 2.27 5.71 7.32 3.30 3.88 2.34 5.00 2.78 2.06 1.75 1.67 1.96 1.12 7.55 2.50 5.08 5.69 3.70 3.77 1.79 2.33 2.33 2.33 2.00 4.17 3.85 5.26 4.17 0.00 0.00 0.94 2.56 6.25 6.52 2.63 2.33 1.59 0.00 4.63 2.00 0.00 5.56 2.70 2.94 2.38 0.92 2.86 0.00 2.50 3.70 5.26 1.49 2.78 6.25 0.00 K alternative_acceptor Ark,I_chr2R_12909344_12909416,RI_chr2R_12912984_12913058 chr2R + chr2R_12912984_12913058 chr2R_12912984_12913038 chr2R_12912884_12912983;chr2R_12913059_12913158 100.00 95.83 94.74 100.00 100.00 100.00 97.96 97.73 97.62 100.00 100.00 97.78 100.00 100.00 100.00 100.00 95.24 100.00 100.00 97.37 100.00 97.44 96.88 100.00 92.31 100.00 100.00 92.31 100.00 92.86 95.12 100.00 100.00 97.78 100.00 93.75 100.00 92.31 100.00 100.00 100.00 96.30 100.00 96.00 100.00 100.00 96.00 100.00 97.50 96.30 95.65 94.44 100.00 93.33 97.06 93.33 100.00 95.45 K intron_retention Liprin-alpha chr2L + chr2L_6727323_6727862 chr2L_6727322_6727323;chr2L_6727862_6727863 chr2L_6727194_6727322;chr2L_6727863_6728780 16.67 18.75 16.67 22.22 15.38 12.00 5.71 21.88 19.30 15.79 20.00 22.41 20.00 15.15 18.92 11.90 13.64 30.43 23.08 14.55 8.70 12.82 19.57 25.00 23.81 14.29 25.93 8.33 11.76 15.15 14.71 25.00 16.67 18.18 25.00 20.00 25.93 25.93 21.43 20.34 4.55 15.69 12.50 10.71 15.00 12.50 26.92 5.88 24.59 15.79 20.51 29.17 13.33 NA 10.00 22.22 11.11 11.54 N jcn_only_AD CG8229,CG33199 chr2R - chr2R_4836447_4838210;chr2R_4836447_4837350 chr2R_4836447_4836515 chr2R_4835619_4836446;chr2R_4838211_4838296 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 10.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 8.94 K alternative_acceptor CG6439,RI_chr3R_17844601_17844713 chr3R - chr3R_17844550_17844713 chr3R_17844601_17844713 chr3R_17844714_17844813;chr3R_17844502_17844549 0.00 0.00 0.00 1.92 0.00 2.13 3.39 1.89 0.93 0.00 0.00 1.09 0.00 0.00 0.00 0.00 2.86 0.00 0.00 1.42 0.00 4.76 0.00 1.59 0.00 0.00 0.00 0.00 1.67 1.85 2.13 0.00 0.00 1.37 0.00 0.00 0.00 1.72 0.00 0.00 1.54 0.00 0.00 0.00 1.06 0.00 0.00 1.57 0.00 0.00 0.00 3.03 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor I_chr2R_17169674_17170491,CG10069,I_chr2R_17169897_17170495,I_chr2R_17170432_17170491,I_chr2R_17171765_17171886 chr2R + chr2R_17170432_17170491;chr2R_17170336_17170491;chr2R_17169885_17170491;chr2R_17170070_17170491 chr2R_17169897_17170491 chr2R_17170492_17170591;chr2R_17169869_17169884 80.77 75.00 81.82 78.57 86.36 81.25 54.05 61.36 76.47 90.00 80.00 84.62 74.07 76.92 76.67 73.81 76.92 73.91 80.95 81.25 78.26 77.36 80.56 85.71 83.33 75.00 78.79 80.00 84.62 82.76 77.78 83.33 82.50 74.07 79.17 72.73 86.67 87.10 84.44 83.10 75.86 82.14 69.57 80.77 79.17 82.76 86.96 85.00 76.36 76.19 83.33 89.66 81.82 90.91 73.53 83.33 82.61 82.05 K jcn_only_AD CG12162,I_chr3R_1293876_1293924,I_chr3R_1294319_1294410 chr3R + chr3R_1294319_1294410 chr3R_1294352_1294410 chr3R_1294411_1294510;chr3R_1294219_1294318 100.00 98.44 100.00 100.00 100.00 100.00 100.00 98.48 100.00 100.00 100.00 100.00 100.00 100.00 100.00 96.77 100.00 100.00 100.00 97.89 100.00 100.00 98.41 98.61 100.00 100.00 100.00 100.00 100.00 100.00 97.73 98.63 100.00 100.00 100.00 94.87 100.00 98.21 98.95 98.48 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 97.01 100.00 100.00 97.14 100.00 100.00 100.00 100.00 100.00 97.06 K intron_retention san,RI_chr2R_7248338_7248430 chr2R + chr2R_7248338_7248463 chr2R_7248337_7248338;chr2R_7248463_7248464 chr2R_7248238_7248337;chr2R_7248464_7248530 0.00 0.00 0.00 0.00 1.82 0.00 3.23 0.00 0.00 0.00 0.00 0.62 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 3.77 0.00 1.89 6.60 10.34 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.36 4.17 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.93 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention Lk6 chr3R - chr3R_7581969_7582034 chr3R_7581968_7581969;chr3R_7582034_7582035 chr3R_7581457_7581968;chr3R_7582035_7582214 0.74 0.40 0.32 0.56 1.15 0.82 0.66 0.61 0.81 0.69 0.39 0.63 0.62 0.56 0.63 0.73 0.56 1.18 0.61 0.71 0.66 6.04 1.15 1.54 1.17 0.63 1.09 1.87 8.76 0.50 1.82 1.26 1.34 0.91 1.83 0.76 1.19 1.17 0.91 1.33 1.77 0.70 0.66 1.37 0.00 1.57 0.74 1.39 0.46 1.64 1.17 1.84 0.00 0.40 0.44 0.60 0.45 0.42 K intron_retention akirin,I_chr3L_7363173_7364806,I_chr3L_7363177_7364806,I_chr3L_7363177_7364831,I_chr3L_7363211_7364831,I_chr3L_7363731_7364806,I_chr3L_7364126_7364806,RI_chr3L_7364737_7364806 chr3L + chr3L_7363169_7364831 chr3L_7363168_7363169;chr3L_7364831_7364832 chr3L_7363111_7363168;chr3L_7364832_7364906 88.98 89.09 95.00 97.19 90.00 94.12 95.14 93.10 90.15 83.93 95.45 90.66 88.24 84.62 92.24 84.08 91.35 90.00 90.00 92.31 91.43 82.14 84.27 87.39 89.55 94.44 90.55 84.78 93.75 74.23 85.34 77.50 48.81 92.15 88.31 93.33 87.18 87.06 85.71 82.35 91.53 90.65 92.39 93.29 91.23 86.00 88.89 85.00 86.57 75.00 88.98 88.24 86.30 88.37 92.91 86.36 85.86 83.56 K intron_retention CG34394,I_chr2L_3365674_3365965 chr2L - chr2L_3363196_3363306 chr2L_3363195_3363196;chr2L_3363306_3363307 chr2L_3362999_3363195;chr2L_3363307_3363437 0.00 11.76 8.33 13.33 4.35 0.00 0.00 5.88 6.67 3.45 0.00 0.00 0.00 8.33 5.56 1.41 NA 9.38 0.00 6.94 0.00 5.22 0.00 0.00 0.00 6.67 0.00 0.00 12.50 0.00 0.00 0.00 6.45 2.38 0.00 6.25 0.00 0.00 4.17 11.36 0.00 11.63 0.00 3.45 0.00 0.00 0.00 2.56 7.58 0.00 0.00 0.00 NA 0.00 2.63 0.00 0.00 0.00 K intron_retention CG4199,I_chrX_1962457_1964222 chrX - chrX_1965614_1965671 chrX_1965613_1965614;chrX_1965671_1965672 chrX_1965393_1965613;chrX_1965672_1965832 48.00 NA NA 75.00 NA NA 50.00 52.63 40.00 NA NA 68.75 NA NA 55.56 NA NA 50.00 38.46 48.00 NA 73.24 53.33 35.71 NA 58.33 58.82 40.00 41.18 NA 53.85 42.86 41.38 52.17 53.85 82.35 NA NA NA 44.44 48.00 26.92 NA NA 46.67 33.33 NA 46.15 40.91 NA 60.00 60.00 NA NA NA NA 47.06 43.48 K intron_retention Cdc27,MED4 chr3L - chr3L_7241535_7241603 chr3L_7241534_7241535;chr3L_7241603_7241604 chr3L_7238644_7241534;chr3L_7241604_7241679 0.00 0.00 0.00 0.00 0.00 0.00 9.30 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.56 0.00 0.00 0.00 3.77 0.00 0.00 0.00 0.00 7.69 13.64 6.82 16.67 15.38 0.00 0.00 0.00 0.00 0.00 0.00 2.94 0.00 2.04 0.00 0.00 12.50 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K intron_retention CG10732,I_chr3L_13438999_13439071 chr3L + chr3L_13438740_13438838 chr3L_13438739_13438740;chr3L_13438838_13438839 chr3L_13437468_13438739;chr3L_13438839_13438998 92.98 93.33 87.50 97.14 89.47 95.00 93.33 86.67 97.87 88.00 93.75 92.31 85.71 94.74 94.74 87.50 93.33 94.74 94.44 94.00 88.89 97.87 96.08 97.50 97.44 100.00 94.87 84.21 92.59 90.24 86.36 100.00 90.00 88.57 96.55 97.56 91.38 90.70 93.44 92.98 96.97 90.70 94.74 86.05 83.72 94.87 92.00 94.44 89.19 97.62 91.67 84.00 86.21 92.31 85.71 84.62 87.50 92.98 K jcn_only_AD sxc,I_chr2R_1203985_1205289,I_chr2R_1208121_1213310,I_chr2R_1213177_1213308 chr2R + chr2R_1194785_1194918 chr2R_1194858_1194918 chr2R_1194919_1195157;chr2R_1194775_1194784 86.11 NA NA 95.83 NA NA 93.22 91.30 77.78 NA NA NA 86.11 NA NA 69.23 NA NA 81.82 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 73.91 NA NA NA NA NA NA NA NA NA NA NA NA NA NA 86.67 NA NA NA NA NA NA NA NA NA N multi_cassette CG1161,RI_chr3R_1181273_1181459,I_chr3R_1182079_1182146 chr3R + chr3R_1181273_1182146 chr3R_1181273_1181515;chr3R_1181665_1181724;chr3R_1181851_1181899;chr3R_1181959_1182146 chr3R_1181516_1181664;chr3R_1181725_1181850;chr3R_1181900_1181958 chr3R_1181173_1181272;chr3R_1182147_1182246 100.00 100.00 100.00 100.00 100.00 100.00 86.44 100.00 91.94 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 94.20 100.00 89.86 84.75 86.67 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 67.11 100.00 100.00 100.00 100.00 100.00 100.00 89.47 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 85.71 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor CG14614,REI_chrX_21856047_21856229,RI_chrX_21856896_21857109 chrX - chrX_21856896_21857109;chrX_21857041_21857109 chrX_21856924_21857109 chrX_21857110_21857209;chrX_21856796_21856895 20.94 18.18 30.77 16.33 16.67 16.13 29.41 19.64 17.05 6.67 17.95 8.45 25.71 18.42 30.43 12.50 24.24 28.95 17.14 14.71 27.03 31.03 25.49 10.26 16.67 21.95 NA 22.22 20.83 29.41 28.89 20.00 10.53 8.00 13.64 32.14 25.53 36.11 26.67 12.90 NA 15.28 23.33 33.33 27.78 30.43 13.79 20.00 17.24 22.73 30.00 30.77 14.29 23.53 17.07 26.09 21.05 NA K jcn_only_AA CG13384 chr2L + chr2L_8384896_8385002 chr2L_8384896_8384996 chr2L_8384754_8384895;chr2L_8385003_8385091 97.71 98.97 97.27 98.25 97.99 95.56 97.12 98.60 98.62 97.75 98.03 97.31 95.71 97.12 98.31 98.45 97.43 97.51 98.12 97.38 97.92 97.61 97.58 99.12 98.11 98.30 95.96 93.12 98.75 97.40 96.96 96.62 99.54 96.76 95.78 97.88 98.03 95.85 97.71 98.25 96.35 96.93 98.72 97.20 96.88 97.73 97.31 96.04 98.30 98.90 97.78 95.60 99.15 98.14 96.88 98.18 94.86 98.10 K intron_retention CG9945,CG16742 chr2R + chr2R_16507741_16507942 chr2R_16507740_16507741;chr2R_16507942_16507943 chr2R_16507585_16507740;chr2R_16507943_16508049 0.00 0.00 NA 3.03 NA NA 0.00 0.00 0.00 NA NA 0.00 0.00 NA NA 2.70 NA NA NA 0.00 NA 4.00 0.00 0.00 0.00 NA 0.00 9.09 0.00 0.00 0.00 0.00 0.00 3.57 0.00 0.00 0.00 0.00 NA 2.94 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.06 NA 0.00 0.00 0.00 0.00 0.00 0.00 N intron_retention Rpn5 chr3R + chr3R_1615349_1615402 chr3R_1615348_1615349;chr3R_1615402_1615403 chr3R_1615211_1615348;chr3R_1615403_1615415 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 62.50 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention svr,RI_chrX_421417_421591 chrX + chrX_396473_396517 chrX_396472_396473;chrX_396517_396518 chrX_396320_396472;chrX_396518_396799 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.92 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention Pdk chr2R + chr2R_5319684_5319739 chr2R_5319683_5319684;chr2R_5319739_5319740 chr2R_5319476_5319683;chr2R_5319740_5319930 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 6.25 19.05 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor RpS3A,I_chr4_87364_87465,I_chr4_87533_87717,I_chr4_87549_87717,I_chr4_87549_87769 chr4 - chr4_87533_87673;chr4_87533_87717;chr4_87533_87757 chr4_87533_87769 chr4_87466_87532;chr4_87770_87817 0.05 0.05 0.03 0.06 0.14 0.03 0.05 0.07 0.07 0.00 0.04 0.03 0.03 0.00 0.03 0.08 NA 0.04 0.05 0.07 0.03 0.05 0.07 0.06 0.06 0.03 0.00 0.06 0.00 0.18 0.03 0.16 0.04 0.05 0.07 NA NA 0.12 0.05 0.04 0.00 0.01 0.04 NA 0.14 0.09 0.09 0.09 0.01 0.13 0.00 NA 0.05 0.00 0.07 0.00 0.08 0.16 K intron_retention CG30345,I_chr2R_5037343_5037395 chr2R + chr2R_5038077_5038139 chr2R_5038076_5038077;chr2R_5038139_5038140 chr2R_5037941_5038076;chr2R_5038140_5038466 0.00 NA NA 5.56 NA NA NA NA 0.00 NA NA NA NA NA NA NA NA NA NA 0.00 NA 0.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 0.00 NA NA NA NA NA NA NA 0.00 NA K jcn_only_AA I_chr2L_114992_156735,RI_chr2L_114992_155545,RI_chr2L_114992_155566,I_chr2L_114992_155637,I_chr2L_114992_156175,RI_chr2L_155430_155637,CG11455,CG3436 chr2L + chr2L_155430_155566;chr2L_155430_155637 chr2L_155430_155493 chr2L_155424_155429;chr2L_155638_155645 0.00 0.00 0.00 0.00 0.00 0.00 1.61 0.00 0.74 0.00 0.00 0.00 0.00 1.43 0.00 0.00 0.00 1.69 0.00 0.78 0.00 NA 1.92 1.85 0.00 2.63 0.00 0.00 0.00 0.00 1.33 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.23 K intron_retention CG9948 chr3L + chr3L_6949263_6949332 chr3L_6949262_6949263;chr3L_6949332_6949333 chr3L_6949194_6949262;chr3L_6949333_6949497 93.33 91.67 90.00 96.55 90.00 94.44 90.00 95.12 91.43 100.00 93.33 96.88 94.12 100.00 95.24 96.77 93.33 93.33 88.46 88.89 92.31 94.44 100.00 87.50 91.67 94.44 100.00 NA 100.00 100.00 94.74 100.00 100.00 86.67 93.75 92.31 NA 90.00 100.00 95.65 90.00 88.24 92.86 87.50 90.91 95.45 94.44 86.67 97.56 95.24 85.71 88.89 89.47 92.31 94.74 95.00 92.59 86.21 K alternative_acceptor drk,RI_chr2R_9389255_9389317,I_chr2R_9389597_9389751,I_chr2R_9389597_9389907,I_chr2R_9389597_9389940,I_chr2R_9389597_9390151,I_chr2R_9389597_9390271,I_chr2R_9389714_9390195 chr2R - chr2R_9389400_9390195;chr2R_9389714_9390195;chr2R_9389430_9390195 chr2R_9389597_9390195 chr2R_9390196_9390251;chr2R_9389318_9389399 83.78 81.69 86.32 81.18 84.38 84.42 81.71 84.80 85.78 86.27 84.06 82.76 86.87 81.19 83.49 82.76 82.72 83.95 86.23 84.78 82.05 79.55 83.84 76.32 81.82 87.96 80.81 78.46 87.25 82.02 85.25 85.00 75.78 86.49 83.78 87.18 81.36 84.09 83.33 85.40 81.18 84.53 75.86 80.52 85.96 84.62 77.94 87.94 82.71 81.25 83.33 80.95 86.27 86.36 84.50 80.00 83.53 86.84 K intron_retention Srp14 chr3R + chr3R_16406044_16406111 chr3R_16406043_16406044;chr3R_16406111_16406112 chr3R_16405971_16406043;chr3R_16406112_16406212 1.11 0.00 2.11 6.67 0.00 3.49 12.09 1.39 3.23 0.00 7.55 2.53 7.27 0.00 2.41 1.06 0.00 0.00 2.78 1.11 3.08 0.00 0.00 0.00 6.02 19.74 3.49 1.98 6.56 0.00 3.54 0.00 0.00 0.91 0.92 5.49 0.00 0.00 1.61 0.70 5.30 2.17 0.00 2.99 0.86 1.36 0.00 0.51 2.72 0.98 0.00 0.00 0.49 0.00 0.00 2.10 2.19 1.17 K intron_retention AP-1gamma,I_chrX_9003790_9007675 chrX + chrX_9006273_9007675 chrX_9006272_9006273;chrX_9007675_9007676 chrX_9006196_9006272;chrX_9007676_9007775 0.00 0.00 0.00 0.00 1.85 0.00 0.00 0.00 2.34 0.00 0.00 2.15 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.97 2.25 0.00 1.32 0.00 0.00 0.00 0.00 0.00 0.00 0.00 2.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.98 1.79 0.00 0.00 0.00 0.00 2.63 1.79 0.00 0.00 K intron_retention Zyx102EF,I_chr4_1080463_1081366,REF_chr4_1081261_1081452,F_chr4_1081280_1081398,F_chr4_1081280_1081452 chr4 - chr4_1078199_1078263 chr4_1078198_1078199;chr4_1078263_1078264 chr4_1078191_1078198;chr4_1078264_1078326 80.00 NA NA 92.59 NA 66.67 76.92 81.25 84.62 NA NA 77.78 NA NA NA 92.86 NA NA NA 69.23 NA NA 71.43 NA NA 88.89 90.91 NA NA NA 70.00 NA NA 82.35 NA NA NA NA NA 77.78 NA 64.71 NA NA NA 80.00 NA NA 82.35 NA NA NA 80.00 NA NA NA 70.00 100.00 K jcn_only_AD nrv2,I_chr2L_6791842_6794492,I_chr2L_6793397_6794492,I_chr2L_6793405_6793916,I_chr2L_6793405_6794499,I_chr2L_6793684_6794492 chr2L - chr2L_6793405_6794492;chr2L_6793405_6794316;chr2L_6793405_6794551 chr2L_6793405_6794328 chr2L_6793305_6793404;chr2L_6794552_6794592 0.00 5.00 0.00 3.12 0.00 0.00 0.00 0.00 3.19 0.00 4.76 0.00 0.00 0.00 2.63 2.20 0.00 0.00 4.76 1.83 0.00 2.27 0.00 0.00 3.45 0.00 2.27 NA 0.00 0.00 0.00 3.57 0.00 7.46 4.08 3.70 1.41 0.00 0.00 1.79 0.00 5.88 0.00 0.00 0.00 2.41 0.00 0.00 1.03 4.88 3.33 0.00 0.00 0.00 1.45 3.57 4.29 4.05 K intron_retention CG7546 chr3L + chr3L_7504338_7504431 chr3L_7504337_7504338;chr3L_7504431_7504432 chr3L_7504269_7504337;chr3L_7504432_7504542 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.15 100.00 100.00 100.00 100.00 100.00 100.00 100.00 95.83 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K alternative_acceptor CG1265,I_chr3L_4255296_4255550 chr3L + chr3L_4255296_4255353;chr3L_4255296_4255550;chr3L_4255296_4255457 chr3L_4255296_4255609 chr3L_4255196_4255295;chr3L_4255610_4255650 96.08 98.31 96.67 93.48 97.44 97.78 94.44 97.40 96.08 93.94 97.30 97.65 87.88 97.30 93.18 92.96 97.62 96.08 95.65 96.99 97.73 94.92 96.88 98.70 100.00 92.68 95.45 100.00 89.66 97.30 92.16 96.88 92.00 96.00 91.67 100.00 96.10 94.92 97.40 95.71 93.94 98.02 100.00 97.18 88.89 97.40 96.67 94.29 95.12 95.00 95.16 96.08 100.00 100.00 95.08 97.40 95.29 93.62 K alternative_donor CG10277,I_chr3R_2211939_2212057 chr3R + chr3R_2211921_2212057 chr3R_2211939_2212057 chr3R_2212058_2212157;chr3R_2211839_2211920 0.00 0.00 0.00 0.00 0.00 0.00 0.52 0.00 0.00 0.00 0.00 0.00 0.88 0.00 0.71 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.20 0.89 0.00 0.00 2.73 0.00 0.00 0.55 0.00 0.00 0.53 0.00 0.00 0.00 0.00 0.49 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.61 0.00 0.00 0.00 K intron_retention HDAC4,F_chrX_13159070_13159174,I_chrX_13170581_13179235,I_chrX_13178996_13179235 chrX - chrX_13176263_13179235 chrX_13176262_13176263;chrX_13179235_13179236 chrX_13176199_13176262;chrX_13179236_13179281 13.30 16.22 14.89 15.71 5.26 10.42 19.51 6.17 10.71 21.43 6.67 11.24 18.37 23.08 13.56 16.13 8.47 13.04 19.48 20.59 16.67 5.00 7.81 14.29 25.00 25.93 18.92 NA 22.58 12.77 17.72 4.35 8.47 16.96 19.35 21.62 6.67 6.45 0.00 5.26 17.95 11.24 21.67 2.70 15.38 15.25 0.00 20.88 15.13 3.85 12.77 11.76 8.33 10.53 10.14 0.00 0.00 19.35 K intron_retention CG5792,F_chr2L_12714547_12714695 chr2L - chr2L_12715530_12715893 chr2L_12715529_12715530;chr2L_12715893_12715894 chr2L_12715069_12715529;chr2L_12715894_12716011 0.00 0.00 NA 0.00 0.00 0.00 0.00 6.67 0.00 NA NA 8.33 NA 0.00 0.00 14.29 5.88 0.00 15.38 2.56 NA 0.00 0.00 4.55 NA 0.00 4.76 0.00 0.00 NA 0.00 NA 0.00 6.25 5.26 10.53 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 9.09 0.00 0.00 2.94 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 0.00 K intron_retention inaD,I_chr2R_18744912_18744978 chr2R - chr2R_18744917_18744978 chr2R_18744916_18744917;chr2R_18744978_18744979 chr2R_18744663_18744916;chr2R_18744979_18745069 100.00 NA NA 100.00 NA NA NA NA NA NA NA NA NA NA NA 100.00 NA NA NA 88.89 NA 100.00 100.00 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA K intron_retention CG1407,RI_chr2R_5918919_5919093,I_chr2R_5918925_5919213,RI_chr2R_5918952_5919084,RI_chr2R_5918952_5919093 chr2R - chr2R_5918925_5919084 chr2R_5918924_5918925;chr2R_5919084_5919085 chr2R_5918852_5918924;chr2R_5919085_5919090 62.50 61.54 50.00 58.33 53.33 56.25 54.55 61.90 66.67 NA 66.67 80.00 90.00 58.33 73.68 59.38 53.85 55.56 53.85 42.55 58.82 73.68 55.00 62.50 41.67 68.18 50.00 58.33 64.29 63.64 55.56 NA 66.67 55.56 64.29 90.00 66.67 63.64 50.00 85.19 72.73 64.29 60.00 87.50 80.00 64.29 64.29 70.00 54.05 72.73 52.63 64.29 50.00 75.00 54.17 75.00 57.89 83.33 K intron_retention drk,RI_chr2R_9389255_9389317,I_chr2R_9389597_9389751,I_chr2R_9389597_9389907,I_chr2R_9389597_9389940,I_chr2R_9389597_9390151,I_chr2R_9389597_9390271,I_chr2R_9389714_9390195 chr2R - chr2R_9389597_9389751 chr2R_9389596_9389597;chr2R_9389751_9389752 chr2R_9389497_9389596;chr2R_9389752_9389851 100.00 95.65 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.08 96.43 100.00 97.06 98.25 100.00 96.15 100.00 100.00 96.00 96.67 94.74 97.50 100.00 100.00 100.00 100.00 100.00 96.88 100.00 100.00 100.00 98.51 100.00 100.00 100.00 100.00 100.00 96.67 100.00 100.00 100.00 100.00 100.00 96.67 100.00 95.65 98.78 100.00 100.00 96.30 100.00 100.00 97.50 100.00 97.14 100.00 K intron_retention yellow-c chr2L + chr2L_15036992_15037050 chr2L_15036991_15036992;chr2L_15037050_15037051 chr2L_15036935_15036991;chr2L_15037051_15037095 97.22 97.14 96.77 96.83 96.55 96.43 98.55 93.55 97.37 91.67 95.24 98.04 96.77 96.77 97.22 97.18 97.30 95.24 100.00 100.00 96.67 100.00 98.61 100.00 100.00 94.74 98.04 94.12 100.00 96.67 98.04 100.00 100.00 98.39 95.83 100.00 97.30 96.55 96.88 97.56 100.00 96.55 96.55 93.75 97.14 100.00 100.00 96.00 97.33 96.67 97.56 97.22 100.00 100.00 97.22 96.97 97.30 100.00 K intron_retention caz,RI_chrX_16183356_16185973 chrX + chrX_16186677_16186918 chrX_16186676_16186677;chrX_16186918_16186919 chrX_16186228_16186676;chrX_16186919_16187489 0.51 0.55 0.78 0.80 0.34 0.69 0.60 1.07 0.39 0.00 0.00 0.91 0.00 1.69 0.58 1.63 0.45 0.71 1.74 0.43 0.00 0.27 0.54 1.17 0.50 0.00 1.96 0.91 1.05 0.20 0.21 0.42 0.22 0.93 0.62 0.28 0.35 0.15 0.51 0.65 0.44 0.37 0.40 0.50 0.15 0.51 0.72 0.24 1.13 0.66 1.13 0.65 0.26 0.32 0.62 0.74 0.90 0.16 K intron_retention CG5245,Pros25 chr3R + chr3R_8257383_8257467 chr3R_8257382_8257383;chr3R_8257467_8257468 chr3R_8257306_8257382;chr3R_8257468_8257723 0.00 0.00 0.00 0.33 0.00 0.00 0.00 0.00 0.18 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.82 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.21 K intron_retention I_chr3L_3223943_3224313,CG11505 chr3L + chr3L_3226540_3226876 chr3L_3226539_3226540;chr3L_3226876_3226877 chr3L_3226521_3226539;chr3L_3226877_3227705 13.96 14.29 NA 21.05 NA 0.00 19.23 13.16 12.50 NA NA 20.00 19.05 6.25 6.67 20.00 11.11 NA NA 11.76 NA 42.86 13.64 14.29 25.00 23.53 10.71 36.36 20.00 10.00 5.56 NA 17.39 22.22 NA 23.81 8.33 NA NA 10.64 NA 18.75 NA 0.00 NA NA NA 5.00 7.69 NA 6.67 NA NA NA 16.67 NA NA NA K intron_retention CG5382,CG5380 chr3R - chr3R_18190680_18190740 chr3R_18190679_18190680;chr3R_18190740_18190741 chr3R_18190245_18190679;chr3R_18190741_18190942 1.82 3.17 4.55 25.53 0.00 0.00 8.11 0.00 2.94 0.00 7.14 1.28 0.00 4.00 4.88 3.85 0.00 0.00 0.00 2.15 0.00 15.07 0.00 0.00 5.13 3.85 3.57 2.38 7.58 7.69 0.00 2.13 3.12 5.56 0.00 0.00 0.00 3.66 0.00 1.75 8.89 2.35 0.00 2.27 6.90 0.00 1.82 0.00 2.00 2.78 5.48 0.00 0.00 0.00 0.00 0.00 0.95 0.00 K intron_retention dmondo,I_chr2L_21289375_21289461,I_chr2L_21301528_21308287,I_chr2L_21308827_21310000,I_chr2L_21309092_21309579 chr2L - chr2L_21289549_21289614 chr2L_21289548_21289549;chr2L_21289614_21289615 chr2L_21289462_21289548;chr2L_21289615_21289744 0.00 0.00 0.00 1.80 0.00 0.00 1.94 1.43 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.81 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.01 0.84 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.76 0.00 0.00 0.00 0.00 0.00 0.99 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K jcn_only_AA eIF5,I_chrX_15882955_15883078,RI_chrX_15883163_15883424,I_chrX_15883297_15883424,EI_chrX_15885411_15885854,RI_chrX_15885416_15885611 chrX - chrX_15883360_15883424;chrX_15883163_15883424;chrX_15883302_15883424 chrX_15883143_15883424 chrX_15883425_15883509;chrX_15883079_15883142 9.09 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 9.09 K intron_retention ppk28 chrX + chrX_16701334_16701395 chrX_16701333_16701334;chrX_16701395_16701396 chrX_16700667_16701333;chrX_16701396_16701990 46.15 70.00 NA NA NA NA NA NA 47.37 NA NA NA NA NA NA NA NA 30.77 NA 40.00 NA NA 50.00 NA NA NA NA NA 70.00 NA 46.15 NA 46.15 53.33 NA NA NA NA 35.71 NA NA 36.84 NA 53.85 NA 58.33 NA 53.33 38.46 NA NA NA NA NA NA NA 45.45 45.45 K intron_retention pum,I_chr3R_4898752_4906279,I_chr3R_4989351_5039481 chr3R - chr3R_4906745_4982839 chr3R_4906744_4906745;chr3R_4982839_4982840 chr3R_4906280_4906744;chr3R_4982840_4983072 65.00 50.00 76.00 61.76 65.00 73.68 65.38 55.56 70.77 NA 45.83 67.39 68.42 73.91 68.18 81.82 60.71 76.47 72.22 63.16 57.14 NA 63.16 55.56 NA 74.07 60.00 NA NA 40.00 85.00 NA NA 65.00 69.23 NA 33.33 36.36 NA 55.00 NA 68.89 78.26 NA NA NA NA 57.14 66.67 NA 58.33 54.55 NA NA 73.08 NA NA NA K intron_retention CG10254 chr3R - chr3R_19515460_19515513 chr3R_19515459_19515460;chr3R_19515513_19515514 chr3R_19514728_19515459;chr3R_19515514_19515732 0.00 NA 0.00 0.00 0.00 0.00 0.00 6.25 0.00 NA 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 0.00 4.17 NA NA NA NA NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 NA 0.00 NA 0.00 0.00 0.00 NA NA 0.00 0.00 0.00 0.00 NA K jcn_only_AD smid,I_chr3L_7375166_7375310,I_chr3L_7375435_7375508 chr3L + chr3L_7375425_7375486 chr3L_7375435_7375486 chr3L_7375487_7375574;chr3L_7375335_7375424 100.00 98.20 100.00 100.00 100.00 100.00 100.00 100.00 99.55 100.00 100.00 99.41 100.00 98.51 100.00 98.80 100.00 100.00 100.00 99.50 100.00 100.00 100.00 100.00 100.00 98.85 99.25 100.00 100.00 100.00 100.00 100.00 99.14 100.00 98.25 100.00 99.40 99.06 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 99.00 100.00 99.36 100.00 100.00 98.11 98.11 100.00 100.00 97.53 98.88 100.00 K alternative_acceptor CG9799,I_chr3R_9213119_9213164 chr3R - chr3R_9213102_9213164 chr3R_9213119_9213164 chr3R_9213165_9213264;chr3R_9213019_9213101 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.14 1.37 0.00 1.33 0.00 0.00 0.00 1.59 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K alternative_donor CG17721,RI_chr3R_7061265_7061322 chr3R + chr3R_7061229_7061322 chr3R_7061265_7061322 chr3R_7061323_7061422;chr3R_7061165_7061228 12.20 12.20 11.76 15.15 4.76 8.33 7.32 20.00 19.15 14.58 9.52 12.20 4.76 13.04 12.90 8.70 13.64 12.50 6.25 16.67 16.00 14.81 1.89 6.90 8.82 0.00 5.56 7.14 19.35 13.64 9.09 18.18 NA 6.67 NA 16.67 7.69 14.71 15.38 9.09 14.29 10.26 8.33 12.50 13.33 14.04 15.15 14.71 16.13 9.09 9.09 6.25 3.03 15.38 13.04 9.62 6.67 17.86 K jcn_only_AA CG1418,RI_chr2R_5852050_5852138 chr2R - chr2R_5852050_5852138 chr2R_5852087_5852138 chr2R_5852139_5852207;chr2R_5852030_5852049 100.00 100.00 100.00 100.00 100.00 100.00 98.98 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 98.98 100.00 100.00 100.00 99.43 100.00 100.00 98.84 100.00 98.63 100.00 100.00 100.00 100.00 98.73 98.68 100.00 100.00 100.00 98.77 100.00 100.00 98.51 100.00 99.57 99.44 100.00 100.00 100.00 100.00 99.60 100.00 100.00 99.13 100.00 98.99 100.00 100.00 98.92 100.00 100.00 100.00 99.68 K intron_retention qkr58E-3,I_chr2R_18300846_18301656 chr2R - chr2R_18297902_18298043 chr2R_18297901_18297902;chr2R_18298043_18298044 chr2R_18297816_18297901;chr2R_18298044_18298133 0.00 3.85 0.00 0.93 0.00 0.00 0.00 0.00 0.85 0.00 0.00 4.21 5.00 0.00 2.99 0.00 0.00 2.13 1.89 0.00 0.00 2.08 2.22 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 4.62 0.00 0.00 1.27 NA 0.00 3.23 0.00 0.00 0.00 0.00 0.00 0.00 1.47 0.00 2.35 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 K cassette CG7188 chr3L - chr3L_8300481_8300893 chr3L_8300481_8300692;chr3L_8300833_8300893 chr3L_8300693_8300832 chr3L_8300192_8300480;chr3L_8300894_8301064 2.29 1.24 4.10 4.40 1.47 1.75 2.29 2.79 2.82 0.78 2.54 5.22 3.79 2.68 3.57 1.22 2.68 1.15 4.20 2.04 1.10 2.80 0.86 1.49 2.42 1.46 2.51 2.88 2.08 1.75 4.58 4.55 3.51 2.66 0.93 0.99 1.67 0.67 2.82 2.42 2.86 3.26 1.83 2.83 4.82 2.31 1.79 4.44 1.72 1.39 1.40 1.38 1.59 1.92 2.13 1.97 1.81 2.46 K jcn_only_AD cnn,I_chr2R_9333096_9336723,I_chr2R_9333096_9336812,RI_chr2R_9334834_9336719,I_chr2R_9347031_9370659 chr2R - chr2R_9334834_9336723;chr2R_9334834_9336501;chr2R_9334834_9336719 chr2R_9334834_9336812 chr2R_9334744_9334833;chr2R_9336813_9336819 19.62 NA NA 12.90 NA NA 15.38 18.92 16.67 NA NA 24.14 39.13 NA NA 17.14 NA NA NA 25.64 NA 34.21 20.00 NA NA NA 27.59 19.23 NA 14.29 NA NA 27.59 NA NA 29.63 19.23 NA NA 15.38 NA 15.00 NA 20.00 NA 39.13 NA 24.00 6.06 33.33 3.85 NA NA NA NA NA NA NA K intron_retention CG9855,I_chr3R_223384_223429 chr3R - chr3R_222779_222833 chr3R_222778_222779;chr3R_222833_222834 chr3R_222582_222778;chr3R_222834_223362 7.27 7.69 8.57 8.93 3.85 0.00 7.41 5.77 9.30 5.00 0.00 5.45 0.00 0.00 9.09 8.33 6.25 2.94 8.00 6.78 12.00 4.76 4.88 7.27 3.03 0.00 7.27 3.85 8.57 5.00 17.39 6.67 0.00 10.87 0.00 5.71 11.54 11.11 1.82 12.20 12.50 6.45 4.55 10.00 9.52 8.51 11.43 2.38 10.20 18.42 4.26 7.41 10.71 6.98 2.44 11.63 9.62 15.38 K jcn_only_AD msn,I_chr3L_2579521_2586402,I_chr3L_2585716_2586402,I_chr3L_2585733_2586036,I_chr3L_2585739_2586265,I_chr3L_2585739_2586413 chr3L - chr3L_2585739_2586265;chr3L_2585739_2586402;chr3L_2585739_2586413 chr3L_2585739_2586036 chr3L_2585639_2585738;chr3L_2586414_2586502 4.83 6.93 4.21 4.27 2.61 5.24 10.08 3.17 5.01 7.35 3.70 3.91 2.41 4.74 3.49 3.60 5.67 6.36 3.38 2.05 6.90 3.87 5.83 6.30 4.44 5.61 7.02 7.25 8.12 4.83 2.55 4.00 3.19 6.44 5.45 3.61 8.73 5.07 2.63 8.20 5.84 2.94 3.82 16.02 3.60 5.78 4.55 6.37 3.19 7.14 2.86 4.84 8.00 2.00 4.90 4.50 9.62 3.27 K intron_retention I_chr3R_7040337_7041144,RpS25,I_chr3R_7041333_7041414,I_chr3R_7041347_7041556,RI_chr3R_7044164_7044221 chr3R - chr3R_7041092_7041144 chr3R_7041091_7041092;chr3R_7041144_7041145 chr3R_7040952_7041091;chr3R_7041145_7041244 99.42 98.29 97.71 99.82 100.00 99.32 98.83 99.78 99.33 98.41 98.88 99.09 99.16 100.00 100.00 99.42 99.51 98.83 99.63 99.69 98.75 99.51 100.00 100.00 100.00 100.00 97.87 100.00 100.00 97.59 99.62 100.00 99.10 100.00 98.86 100.00 98.73 98.04 98.65 99.53 99.34 99.25 99.42 100.00 100.00 98.91 96.97 99.32 100.00 100.00 98.80 98.57 99.41 96.88 100.00 99.22 99.42 100.00 K intron_retention CG4662 chr3R + chr3R_15677641_15677744 chr3R_15677640_15677641;chr3R_15677744_15677745 chr3R_15677554_15677640;chr3R_15677745_15678147 0.00 0.00 0.00 0.00 NA 0.00 13.33 0.00 3.23 NA 0.00 0.00 NA NA 0.00 0.00 NA 0.00 0.00 0.00 NA 0.00 3.70 0.00 NA 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 3.85 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 NA 0.00 0.00 0.00 0.00 K alternative_acceptor cerv,RI_chrX_15471783_15471843 chrX - chrX_15471783_15471843 chrX_15471799_15471843 chrX_15471844_15471943;chrX_15471683_15471782 61.82 NA NA NA NA NA 71.43 69.23 90.91 NA NA 66.67 NA NA NA 53.33 NA NA NA 77.78 NA NA 46.67 71.43 NA NA NA NA NA NA 18.75 NA NA 63.64 NA NA NA NA NA NA NA 53.33 NA NA NA 50.00 NA NA 66.67 45.45 87.50 NA NA 55.56 NA 60.00 41.67 NA K intron_retention CE_chrX_20766225_20927825,CG1518,snoRNA:Me28S-U3344a chrX - chrX_20923231_20923436 chrX_20923230_20923231;chrX_20923436_20923437 chrX_20922943_20923230;chrX_20923437_20923826 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.34 0.00 0.00 0.00 0.21 0.00 0.00 0.00 0.33 0.00 0.00 0.32 0.57 0.63 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 1.01 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.74 0.00 0.00 0.00 0.00 0.00 0.00 0.00 N intron_retention Pvr,I_chr2L_8226604_8228082,I_chr2L_8229001_8230124,I_chr2L_8229012_8229080,I_chr2L_8230332_8238998 chr2L - chr2L_8226607_8228493 chr2L_8226606_8226607;chr2L_8228493_8228494 chr2L_8226458_8226606;chr2L_8228494_8229011 59.26 25.00 100.00 50.00 100.00 100.00 60.00 65.79 52.00 NA NA 70.00 46.88 100.00 65.52 100.00 100.00 100.00 100.00 100.00 47.06 100.00 33.33 43.59 55.56 100.00 37.21 NA NA 43.48 32.43 NA 55.00 59.26 46.67 65.00 44.74 36.00 37.93 51.35 41.67 59.18 100.00 62.50 NA NA NA 100.00 68.63 35.00 53.85 40.00 NA NA 69.23 100.00 NA NA N cassette inaE chrX + chrX_13697884_13698155 chrX_13697884_13697941;chrX_13698084_13698155 chrX_13697942_13698083 chrX_13697359_13697883;chrX_13698156_13698260 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 88.46 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 100.00 K intron_retention CG32176,RI_chr3L_17427238_17427301 chr3L + chr3L_17427557_17429423 chr3L_17427556_17427557;chr3L_17429423_17429424 chr3L_17427494_17427556;chr3L_17429424_17429477 10.53 NA NA NA NA NA 28.57 NA 19.05 NA NA NA NA NA NA 5.88 NA NA NA 10.53 NA NA 0.00 NA NA NA NA NA NA NA 21.43 NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA NA 5.00 NA NA NA NA NA NA NA NA NA K cassette RhoGAP19D,EI_chrX_20347839_20348139,DMG4-MB6.chrX.37.001,RI_chrX_20380495_20381649 chrX - chrX_20347839_20348292;chrX_20347836_20348292 chrX_20347836_20348139,chrX_20347839_20348139;chrX_20348215_20348292 chrX_20348140_20348214 chrX_20347739_20347835;chrX_20348293_20348380 12.50 13.04 13.04 6.06 11.76 13.04 10.71 10.71 14.63 31.82 12.50 12.50 7.14 14.29 12.50 21.74 18.18 19.05 NA 10.42 6.25 13.64 8.51 9.68 14.29 5.56 13.95 17.39 11.11 7.41 11.11 NA 2