sp|Q5XVI1|SINE1_ARATH ----> Protein SINE1
Intron 1 GTCTGTACAT ... TTTGTCTCAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 62.39 | 79 | 1 | 131 |
| A2 | 70.78 | 35.5 | 1 | 86 |
| A3 | 69.59 | 49 | 0 | 112 |
| A4 | 73.59 | 30.5 | 0 | 85 |
| A5 | 75.65 | 23.5 | 1 | 73 |
| A6 | 79.41 | 7 | 0 | 27 |
| A7 | 65.29 | 42 | 1 | 79 |
| A8 | 69.58 | 10.5 | 0 | 24 |
| A9 | 68.42 | 24 | 0 | 52 |
| A10 | 72.04 | 36.5 | 0 | 94 |
>TRINITY_DN109205_c0_g1_i2 from sample A2 / Example spliced isoformAAAGATTTCAAACTGCAATTATCACTATCCGAATGGTTTTCGGACAGAAAAACGCCAAATACCAAATTTAGAACCATAAATCCTTCATTGCATCGCGCTTCGACATTTCAACAACTTTTGCTTACCAGTCCTAAAATCGCATTAAGCTCAACAGAAAGCCTGAATTCCAGCCTCATGTGCTCCATTTTCTGATTCGCTTC
TCACCCATTCGCTGGATCTGACGTGAAGCTGAGAATAAAGTTTTGCCTTGTTCAGTCTCAGAGAATTTGACCGTTACAAGCAATGATGTGGAAACCCAATCCGGGAAAAGGCGTGCCCATGTTCTGAATAATATCTGAATGCAAACTTACTGTGGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTA
GGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTAAGCTCTCGCTATAAAAGGGTAAAGGGGTGGAAGGGTTTGATCTTGTCGACAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTTTTTAGTCTCCATTCTCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCC
ATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGCCAGATTAGGTCAGGGTGTGAGCTCTGCCAAATTGTGGAAACTTTGGGCTTGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCATGGGTACCCATTTGAAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAG
ATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCACAGTGTATAGCCCAGCTGTCGGAGCTTCAAGATGGGCACCTTCCTAGACAGTATTTGATCTATTTGTATGAAGTGATTGCACGAGAACATGGTAAAAGTATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTT
TGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTCTGCAATGGCAAGATATACAATAGGTCCTAGCTCCTTTCAAGGGCAAAGAGAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCTTGATGTCCTGTTAGGAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCT
TTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTTGCTTGAGAGTTACAGGGGCATTGGAGGAGAAAGGAACCCAAACAAATAGCCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTAACAGCCCCATTCTTGAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGA
GGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATCGATGGTTTGTTGAAATCTGTCGACATGGACATTTTAGCTTCAGAAATTCCGAATACTGTTATGTATCTGGAGAGATGTAGGTCTGATAGAACACCTTCTGTAAGAAATACAGTTTCTGAAACTATTCAACTTGCGAAGGCTTTAG
CTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAATCCTTTGTGGAGGCAACACATCTAGCAGTGGAAGCTTGTGTGGATTCAATGACTTTTCCCCAGGCATGCAAATTGGTCCTTACACACAATCCCCTGTCTCTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACA
GGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATTATTCAGATTCCATAGATAAGAATGCCTTCTCTGGGAAAATGAGGAATCCATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAACCAGACTCAATGCTGGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCA
CACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTTGATGAGGGAGGGAATGGAAGCATTTCGTTGGAAAATGGCATCATTTTTGGGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGTGATGGAGCATCAGAAAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGA
TACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTGATGGAGACTGCTTTGAAAGGAGACATTCCTATAAAGAGGATGAAAATGACCCATGCTTTTCCTTCCGCGGTAACTACTCTCACTCTCATTGCCCTTCAGCTGTGGAAGAAACAGTTAGCCCTAAGAATCCAGGATCATATATTGCAATTGATGAT
ATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCTCCTCCAAAAACACGTGTAGAAAATTGCAATCTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATGAAATTGACTGGACTATGAACTTAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGG
AGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTGTATAGTGTAGCTGATGGGTATTCAGTTAGAAGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGTGTGCATAGAACTGATTCTTTGTCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACG
AGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGACAGAGAATAAGAAAGAAAATTGCTTACCAGCTAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGACAAAAACATTTTGTACATGTTGGAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCC
TTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCAGGCAAGAGGAATACCATGTCATGGTTCCCACCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATTATCGACTTAGTATGCAGCCTTTGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCT
TCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTGATTGCAGAGGGGATTATGATAAAGCATAATTCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAGAATGATGTGCAAGTTATGAGGATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTC
ATTCTATATAAATTACTCAAGTTGGA
>TRINITY_DN109205_c0_g1_i1 from sample A2 / Example unspliced isoform:AATAAAGTTTTGCCTTGTTCAGgtctgtacataatttgccctttcgcagttattgaatgccttctattttgtatttttggcagtagttagaggctatgtaatgagccaaggctgcattggattcattgttttctgtatttcttattgaatattccagtgttcaggaaatgggttgttattttcataggcgtgcaggtgtt
catttatttttctggtgcatgcgggtattgggttctttactggattccaccggcgtggactgacagacaaacttcattaatttctagctgggtttgtctcagTCTCAGAGAATTTGACCGTTACAAGCAATGATGTGGAAACCCAATCCGGGAAAAGGCGTGCCCATGTTCTGAATAATATCTGAATGCAAACTTACTGT
GGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTAGGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTAAGCTCTCGCTATAAAAGGGTAAAGGGGTGGAAGGGTTTGATCTTGTCGACAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTTTTTAGTCTCCATTC
TCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCCATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGCCAGATTAGGTCAGGGTGTGAGCTCTGCCAAATTGTGGAAACTTTGGGCTTGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCATGGGTACCCATTTG
AAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAGATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCACAGTGTATAGCCCAGCTGTCGGAGCTTCAAGATGGGCACCTTCCTAGACAGTATTTGATCTATTTGTATGAAGTGATTGCACGAGAACATGGTAAAAG
TATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTTTGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTCTGCAATGGCAAGATATACAATAGGTCCTAGCTCCTTTCAAGGGCAAAGAGAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCTTGATGTCCTGTTAG
GAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCTTTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTTGCTTGAGAGTTACAGGGGCATTGGAGGAGAAAGGAACCCAAACAAATAGCCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTAACAGCCCCATTCTT
GAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGAGGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATCGATGGTTTGTTGAAATCTGTCGACATGGACATTTTAGCTTCAGAAATTCCGAATACTGTTATGTATCTGGAGAGATGTAGGTCTGATAGAACACCTTC
TGTAAGAAATACAGTTTCTGAAACTATTCAACTTGCGAAGGCTTTAGCTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAATCCTTTGTGGAGGCAACACATCTAGCAGTGGAAGCTTGTGTGGATTCAATGACTTTTCCCCAGGCATGCAAATTGGTCCTTACACACAATCCCCTGTCT
CTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACAGGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATTATTCAGATTCCATAGATAAGAATGCCTTCTCTGGGAAAATGAGGAATCCATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAACCAGACTCAATGCT
GGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCACACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTTGATGAGGGAGGGAATGGAAGCATTTCGTTGGAAAATGGCATCATTTTTGGGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGTGATGGAGCATCAGA
AAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGATACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTGATGGAGACTGCTTTGAAAGGAGACATTCCTATAAAGAGGATGAAAATGACCCATGCTTTTCCTTCCGCGGTAACTACTCTCACTCTCATTGCCCTTCAGCTGTGGAAG
AAACAGTTAGCCCTAAGAATCCAGGATCATATATTGCAATTGATGATATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCTCCTCCAAAAACACGTGTAGAAAATTGCAATCTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATGAAATTGACTGGACTATG
AACTTAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGGAGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTGTATAGTGTAGCTGATGGGTATTCAGTTAGAAGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGTGTGCATAGAACTGATTC
TTTGTCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACGAGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGACAGAGAATAAGAAAGAAAATTGCTTACCAGCTAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGACAAAAACATTTTGTACAT
GTTGGAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCCTTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCAGGCAAGAGGAATACCATGTCATGGTTCCCACCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATTATCGACTTAGTATGCAG
CCTTTGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCTTCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTGATTGCAGAGGGGATTATGATAAAGCATAATTCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAGAATGATGTGCAAGTTAT
GAGGATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTCATTCTATATAAATTACTCAAGTTGGA
Intron 2 GTCTGTACAT ... AATATTCCAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 21 | 52.7 | 30.3 | 14 |
| A2 | 24.09 | 34.7 | 15.7 | 11 |
| A3 | 18.05 | 36.3 | 22 | 8 |
| A4 | 23.28 | 29.7 | 11.3 | 9 |
| A5 | 16.67 | 15 | 9.7 | 3 |
| A6 | 60 | 2 | 0 | 3 |
| A7 | 26.11 | 34 | 19 | 12 |
| A8 | 41.67 | 7 | 5.3 | 5 |
| A9 | 35 | 26 | 8.7 | 14 |
| A10 | 22.92 | 37 | 16.7 | 11 |
>TRINITY_DN109205_c0_g1_i4 from sample A2 / Example spliced isoformAAAGATTTCAAACTGCAATTATCACTATCCGAATGGTTTTCGGACAGAAAAACGCCAAATACCAAATTTAGAACCATAAATCCTTCATTGCATCGCGCTTCGACATTTCAACAACTTTTGCTTACCAGTCCTAAAATCGCATTAAGCTCAACAGAAAGCCTGAATTCCAGCCTCATGTGCTCCATTTTCTGATTCGCTTC
TCACCCATTCGCTGGATCTGACGTGAAGCTGAGAATAAAGTTTTGCCTTGTTCAGTGTTCAGGAAATGGGTTGTTATTTTCATAGGCGTGCAGGTGTTCATTTATTTTTCTGGTGCATGCGGGTATTGGGTTCTTTACTGGATTCCACCGGCGTGGACTGACAGACAAACTTCATTAATTTCTAGCTGGGTTTGTCTCAG
TCTCAGAGAATTTGACCGTTACAAGCAATGATGTGGAAACCCAATCCGGGAAAAGGCGTGCCCATGTTCTGAATAATATCTGAATGCAAACTTACTGTGGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTAGGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTA
AGCTCTCGCTATAAAAGGGTAAAGGGGTGGAAGGGTTTGATCTTGTCGACAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTTTTTAGTCTCCATTCTCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCCATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGC
CAGATTAGGTCAGGGTGTGAGCTCTGCCAAATTGTGGAAACTTTGGGCTTGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCATGGGTACCCATTTGAAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAGATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCA
CAGTGTATAGCCCAGCTGTCGGAGCTTCAAGATGGGCACCTTCCTAGACAGTATTTGATCTATTTGTATGAAGTGATTGCACGAGAACATGGTAAAAGTATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTTTGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTC
TGCAATGGCAAGATATACAATAGGTCCTAGCTCCTTTCAAGGGCAAAGAGAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCTTGATGTCCTGTTAGGAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCTTTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTT
GCTTGAGAGTTACAGGGGCATTGGAGGAGAAAGGAACCCAAACAAATAGCCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTAACAGCCCCATTCTTGAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGAGGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATC
GATGGTTTGTTGAAATCTGTCGACATGGACATTTTAGCTTCAGAAATTCCGAATACTGTTATGTATCTGGAGAGATGTAGGTCTGATAGAACACCTTCTGTAAGAAATACAGTTTCTGAAACTATTCAACTTGCGAAGGCTTTAGCTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAAT
CCTTTGTGGAGGCAACACATCTAGCAGTGGAAGCTTGTGTGGATTCAATGACTTTTCCCCAGGCATGCAAATTGGTCCTTACACACAATCCCCTGTCTCTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACAGGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATT
ATTCAGATTCCATAGATAAGAATGCCTTCTCTGGGAAAATGAGGAATCCATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAACCAGACTCAATGCTGGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCACACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTT
GATGAGGGAGGGAATGGAAGCATTTCGTTGGAAAATGGCATCATTTTTGGGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGTGATGGAGCATCAGAAAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGATACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTGATGGAGACTG
CTTTGAAAGGAGACATTCCTATAAAGAGGATGAAAATGACCCATGCTTTTCCTTCCGCGGTAACTACTCTCACTCTCATTGCCCTTCAGCTGTGGAAGAAACAGTTAGCCCTAAGAATCCAGGATCATATATTGCAATTGATGATATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCT
CCTCCAAAAACACGTGTAGAAAATTGCAATCTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATGAAATTGACTGGACTATGAACTTAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGGAGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTG
TATAGTGTAGCTGATGGGTATTCAGTTAGAAGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGTGTGCATAGAACTGATTCTTTGTCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACGAGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGAC
AGAGAATAAGAAAGAAAATTGCTTACCAGCTAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGACAAAAACATTTTGTACATGTTGGAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCCTTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCA
GGCAAGAGGAATACCATGTCATGGTTCCCACCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATTATCGACTTAGTATGCAGCCTTTGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCTTCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTG
ATTGCAGAGGGGATTATGATAAAGCATAATTCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAGAATGATGTGCAAGTTATGAGGATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTCATTCTATATAAATTACTCAAGTTGGA
>TRINITY_DN109205_c0_g1_i1 from sample A2 / Example unspliced isoform:AATAAAGTTTTGCCTTGTTCAGgtctgtacataatttgccctttcgcagttattgaatgccttctattttgtatttttggcagtagttagaggctatgtaatgagccaaggctgcattggattcattgttttctgtatttcttattgaatattccagTGTTCAGGAAATGGGTTGTTATTTTCATAGGCGTGCAGGTGTT
CATTTATTTTTCTGGTGCATGCGGGTATTGGGTTCTTTACTGGATTCCACCGGCGTGGACTGACAGACAAACTTCATTAATTTCTAGCTGGGTTTGTCTCAGTCTCAGAGAATTTGACCGTTACAAGCAATGATGTGGAAACCCAATCCGGGAAAAGGCGTGCCCATGTTCTGAATAATATCTGAATGCAAACTTACTGT
GGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTAGGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTAAGCTCTCGCTATAAAAGGGTAAAGGGGTGGAAGGGTTTGATCTTGTCGACAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTTTTTAGTCTCCATTC
TCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCCATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGCCAGATTAGGTCAGGGTGTGAGCTCTGCCAAATTGTGGAAACTTTGGGCTTGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCATGGGTACCCATTTG
AAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAGATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCACAGTGTATAGCCCAGCTGTCGGAGCTTCAAGATGGGCACCTTCCTAGACAGTATTTGATCTATTTGTATGAAGTGATTGCACGAGAACATGGTAAAAG
TATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTTTGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTCTGCAATGGCAAGATATACAATAGGTCCTAGCTCCTTTCAAGGGCAAAGAGAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCTTGATGTCCTGTTAG
GAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCTTTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTTGCTTGAGAGTTACAGGGGCATTGGAGGAGAAAGGAACCCAAACAAATAGCCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTAACAGCCCCATTCTT
GAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGAGGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATCGATGGTTTGTTGAAATCTGTCGACATGGACATTTTAGCTTCAGAAATTCCGAATACTGTTATGTATCTGGAGAGATGTAGGTCTGATAGAACACCTTC
TGTAAGAAATACAGTTTCTGAAACTATTCAACTTGCGAAGGCTTTAGCTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAATCCTTTGTGGAGGCAACACATCTAGCAGTGGAAGCTTGTGTGGATTCAATGACTTTTCCCCAGGCATGCAAATTGGTCCTTACACACAATCCCCTGTCT
CTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACAGGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATTATTCAGATTCCATAGATAAGAATGCCTTCTCTGGGAAAATGAGGAATCCATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAACCAGACTCAATGCT
GGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCACACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTTGATGAGGGAGGGAATGGAAGCATTTCGTTGGAAAATGGCATCATTTTTGGGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGTGATGGAGCATCAGA
AAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGATACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTGATGGAGACTGCTTTGAAAGGAGACATTCCTATAAAGAGGATGAAAATGACCCATGCTTTTCCTTCCGCGGTAACTACTCTCACTCTCATTGCCCTTCAGCTGTGGAAG
AAACAGTTAGCCCTAAGAATCCAGGATCATATATTGCAATTGATGATATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCTCCTCCAAAAACACGTGTAGAAAATTGCAATCTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATGAAATTGACTGGACTATG
AACTTAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGGAGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTGTATAGTGTAGCTGATGGGTATTCAGTTAGAAGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGTGTGCATAGAACTGATTC
TTTGTCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACGAGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGACAGAGAATAAGAAAGAAAATTGCTTACCAGCTAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGACAAAAACATTTTGTACAT
GTTGGAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCCTTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCAGGCAAGAGGAATACCATGTCATGGTTCCCACCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATTATCGACTTAGTATGCAG
CCTTTGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCTTCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTGATTGCAGAGGGGATTATGATAAAGCATAATTCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAGAATGATGTGCAAGTTAT
GAGGATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTCATTCTATATAAATTACTCAAGTTGGA
Intron 3 GTCTGTACAT ... CAGTGTTCAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 20.93 | 68 | 37.7 | 18 |
| A2 | 12.04 | 43.8 | 19.3 | 6 |
| A3 | 17.14 | 58 | 27.5 | 12 |
| A4 | 18.87 | 43 | 14.2 | 10 |
| A5 | 15.38 | 22 | 11.8 | 4 |
| A6 | 28.57 | 5 | 0 | 2 |
| A7 | 15.69 | 43 | 23.5 | 8 |
| A8 | 12.5 | 7 | 6.7 | 1 |
| A9 | 23.64 | 42 | 10.8 | 13 |
| A10 | 7.55 | 49 | 21.2 | 4 |
>TRINITY_DN124429_c1_g1_i5 from sample A1 / Example spliced isoformTATCACTATCCGAATGGTTTTCGGACAGAAAAACGCCAAATACCAAATTTAGAACCATAAATCCTTCATTGCATCGCGCTTCGACATTTCAACAACTTTTGCTTACCAGTCCTAAAATCGCATTAAGCTCAACAGAAAGCCTGAATTCCAGCCTCATGTGCTCCATTTTCTGATTCGCTTCTCACCCATTCGCTGGATCT
GACGTGAAGCTGAGAATAAAGTTTTGCCTTGTTCAGGAAATGGGTTGTTATTTTCATAGGCGTGCAGGTGTTCATTTATTTTTCTGGTGCATGCGGGTATTGGGTTCTTTACTGGATTCCACCGGCGTGGACTGACAGACAAACTTCATTAATTTCTAGCTGGGTTTGTCTCAGTCTCAGAGAATTTGACCGTTACAAGC
AATGATGTGGAAACCCAATCCGGGAAAAGGCGTGCCCATGTTCTGAATAATATCTGAATGCAAACTTACTGTGGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTAGGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTAAGCTCTCGCTATAAAAGGGTAAAGGG
GTGGAAGGGTTTTATCTTGTCGACAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTTTTTAGTCTCCATTCTCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCCATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGCCAGATTAGGTCAGGGTGTGAGCTCTG
CCAAATTGTGGAAACTTTGGGCTTGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCATGGGTACCCATTTGAAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAGATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCACAGTGTATAGCCCAGCTGTCGGAGCT
TCAAGATGGGCACCTTCCTAGACAGTATTTGATCTATTTGTATGAAGTGATTGCACGAGAACATGGTAAAAGTATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTTTGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTCTGCAATGGCAAGATATACAATAGGTC
CTAGCTCCTTTCAAGGGCAAAGAGAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCTTGATGTCCTGTTAGGAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCTTTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTTGCTTGAGAGTTACAGGGGCATTGGAG
GAGAAAGGAACCCAAACAAATAGCCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTAACAGCCCCATTCTTGAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGAGGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATCAATGGTTTGTTGAAATCTGTCGACAT
GGACATTTTAGCTTCAGAAATTCCGAATACTGTTATGTATCTGGAGAGATGTAGGTCTGATAGAACACCTTCTGTAAGAAATACAGTTTTTGAAACTATTCAACTTGCGAAGGCTTTAGCTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAATCCCCTGTGGAGGCAACACATCTAGCA
GTGGAAGCTTGTGTGGATTCAATGACTTTTCCCCAGGCATGCAAATTGGTCCTTACACACAATCCCCTGTCTCTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACAGGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATTATTCAGATTCCATAGATAAGAATGCC
TTCTCTGGGAAAATGAGGAATCCATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAACCAGACTCAATGCTGGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCACACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTTGATGAGGGAGGGAATGGAAGCATTTC
GTTGGAAAATGGCATCATTTTTGGGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGTGATGGAGCATCAGAAAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGATACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTTATGATGGAGACTGCTTTGAAAGGAGACATTCCTATA
AAGAGGATGAAAATGACGCATGCTTTTCCTTCCGCGGTAACTACTCTCACTCTCATTGCCCTTCAGCTGTGGAAGAAACAGTTAGCCCTAAGAATCCAGGATCATATATTGCAATTGATGATATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCTCCTCCAAAAACACGTGTAGAAAA
TTGCAATCTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATGAAATTGACTGGACTATGAACTTAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGGAGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTGTATAGTGTAGCTGATGGGTATTC
AGTTAGAAGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGTGTGCATAGAACTGATTCTTTGTCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACGAGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGACAGAGAATAAGAAAGAAAATTGCT
TACCAGCTAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGACAAAAACATTTTGTACATGTTGGAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCCTTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCAGGCAAGAGGAATACCATGTCATG
GTTCCCACCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATTATCGACTTAGTATGCAGCCTTTGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCTTCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTGATTGCAGAGGGGATTATGATAAA
GCATAATTCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAGAATGATGTGCAAGTTATGAGGATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTCATTCTATATAAATTACTCAAGTTGGAAAGTTATAGTTGTTGTTTTTGATTATGTCTCCTTTGAATCCACTGAACAACA
CGTGCATCCAGATATAACTAACATACTCAC
>TRINITY_DN124429_c1_g1_i3 from sample A1 / Example unspliced isoform:TATCACTATCCGAATGGTTTTCGGACAGAAAAACGCCAAATACCAAATTTAGAACCATAAATCCTTCATTGCATCGCGCTTCGACATTTCAACAACTTTTGCTTACCAGTCCTAAAATCGCATTAAGCTCAACAGAAAGCCTGAATTCCAGCCTCATGTGCTCCATTTTCTGATTCGCTTCTCACCCATTCGCTGGATCT
GACGTGAAGCTGAGAATAAAGTTTTGCCTTGTTCAGgtctgtacataatttgccctttcgcagttattgaatgccttctattttgtatttttggcagtagttagaggctatgtaatgagccaaggctgcattggattcattgttttctgtatttcttattgaatattccagtgttcagGAAATGGGTTGTTATTTTCATA
GGCGTGCAGGTGTTCATTTATTTTTCTGGTGCATGCGGGTATTGGGTTCTTTACTGGATTCCACCGGCGTGGACTGACAGACAAACTTCATTAATTTCTAGCTGGGTTTGTCTCAGTCTCAGAGAATTTGACCGTTACAAGCAATGATGTGGAAACCCAATCCGGGAAAAGGCGTGCCCATGTTCTGAATAATATCTGAA
TGCAAACTTACTGTGGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTAGGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTAAGCTCTCGCTATAAAAGGGTAAAGGGGTGGAAGGGTTTTATCTTGTCGACAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTT
TTTAGTCTCCATTCTCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCCATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGCCAGATTAGGTCAGGGTGTGAGCTCTGCCAAATTGTGGAAACTTTGGGCTTGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCA
TGGGTACCCATTTGAAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAGATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCACAGTGTATAGCCCAGCTGTCGGAGCTTCAAGATGGGCACCTTCCTAGACAGTATTTGATCTATTTGTATGAAGTGATTGCACGA
GAACATGGTAAAAGTATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTTTGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTCTGCAATGGCAAGATATACAATAGGTCCTAGCTCCTTTCAAGGGCAAAGAGAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCT
TGATGTCCTGTTAGGAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCTTTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTTGCTTGAGAGTTACAGGGGCATTGGAGGAGAAAGGAACCCAAACAAATAGCCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTA
ACAGCCCCATTCTTGAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGAGGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATCAATGGTTTGTTGAAATCTGTCGACATGGACATTTTAGCTTCAGAAATTCCGAATACTGTTATGTATCTGGAGAGATGTAGGTCT
GATAGAACACCTTCTGTAAGAAATACAGTTTTTGAAACTATTCAACTTGCGAAGGCTTTAGCTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAATCCCCTGTGGAGGCAACACATCTAGCAGTGGAAGCTTGTGTGGATTCAATGACTTTTCCCCAGGCATGCAAATTGGTCCTTACAC
ACAATCCCCTGTCTCTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACAGGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATTATTCAGATTCCATAGATAAGAATGCCTTCTCTGGGAAAATGAGGAATCCATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAA
CCAGACTCAATGCTGGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCACACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTTGATGAGGGAGGGAATGGAAGCATTTCGTTGGAAAATGGCATCATTTTTGGGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGT
GATGGAGCATCAGAAAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGATACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTTATGATGGAGACTGCTTTGAAAGGAGACATTCCTATAAAGAGGATGAAAATGACGCATGCTTTTCCTTCCGCGGTAACTACTCTCACTCTCATTG
CCCTTCAGCTGTGGAAGAAACAGTTAGCCCTAAGAATCCAGGATCATATATTGCAATTGATGATATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCTCCTCCAAAAACACGTGTAGAAAATTGCAATCTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATG
AAATTGACTGGACTATGAACTTAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGGAGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTGTATAGTGTAGCTGATGGGTATTCAGTTAGAAGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGT
GTGCATAGAACTGATTCTTTGTCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACGAGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGACAGAGAATAAGAAAGAAAATTGCTTACCAGCTAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGAC
AAAAACATTTTGTACATGTTGGAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCCTTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCAGGCAAGAGGAATACCATGTCATGGTTCCCACCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATT
ATCGACTTAGTATGCAGCCTTTGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCTTCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTGATTGCAGAGGGGATTATGATAAAGCATAATTCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAG
AATGATGTGCAAGTTATGAGGATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTCATTCTATATAAATTACTCAAGTTGGAAAGTTATAGTTGTTGTTTTTGATTATGTCTCCTTTGAATCCACTGAACAACACGTGCATCCAGATATAACTAACATACTCAC
Intron 4 GCGTGCAGGT ... TTTGTCTCAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 57.76 | 79 | 85 | 131 |
| A2 | 66.51 | 35.5 | 53 | 88 |
| A3 | 64.53 | 49 | 66 | 112 |
| A4 | 68.72 | 30.5 | 49 | 85 |
| A5 | 68.25 | 23.5 | 28 | 73 |
| A6 | 72 | 7 | 9 | 27 |
| A7 | 60.2 | 42 | 48 | 79 |
| A8 | 62.52 | 10.5 | 11 | 24 |
| A9 | 67.12 | 24 | 46 | 52 |
| A10 | 68 | 36.5 | 61 | 94 |
>TRINITY_DN109205_c0_g1_i2 from sample A2 / Example spliced isoformAAAGATTTCAAACTGCAATTATCACTATCCGAATGGTTTTCGGACAGAAAAACGCCAAATACCAAATTTAGAACCATAAATCCTTCATTGCATCGCGCTTCGACATTTCAACAACTTTTGCTTACCAGTCCTAAAATCGCATTAAGCTCAACAGAAAGCCTGAATTCCAGCCTCATGTGCTCCATTTTCTGATTCGCTTC
TCACCCATTCGCTGGATCTGACGTGAAGCTGAGAATAAAGTTTTGCCTTGTTCAGTCTCAGAGAATTTGACCGTTACAAGCAATGATGTGGAAACCCAATCCGGGAAAAGGCGTGCCCATGTTCTGAATAATATCTGAATGCAAACTTACTGTGGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTA
GGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTAAGCTCTCGCTATAAAAGGGTAAAGGGGTGGAAGGGTTTGATCTTGTCGACAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTTTTTAGTCTCCATTCTCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCC
ATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGCCAGATTAGGTCAGGGTGTGAGCTCTGCCAAATTGTGGAAACTTTGGGCTTGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCATGGGTACCCATTTGAAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAG
ATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCACAGTGTATAGCCCAGCTGTCGGAGCTTCAAGATGGGCACCTTCCTAGACAGTATTTGATCTATTTGTATGAAGTGATTGCACGAGAACATGGTAAAAGTATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTT
TGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTCTGCAATGGCAAGATATACAATAGGTCCTAGCTCCTTTCAAGGGCAAAGAGAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCTTGATGTCCTGTTAGGAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCT
TTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTTGCTTGAGAGTTACAGGGGCATTGGAGGAGAAAGGAACCCAAACAAATAGCCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTAACAGCCCCATTCTTGAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGA
GGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATCGATGGTTTGTTGAAATCTGTCGACATGGACATTTTAGCTTCAGAAATTCCGAATACTGTTATGTATCTGGAGAGATGTAGGTCTGATAGAACACCTTCTGTAAGAAATACAGTTTCTGAAACTATTCAACTTGCGAAGGCTTTAG
CTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAATCCTTTGTGGAGGCAACACATCTAGCAGTGGAAGCTTGTGTGGATTCAATGACTTTTCCCCAGGCATGCAAATTGGTCCTTACACACAATCCCCTGTCTCTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACA
GGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATTATTCAGATTCCATAGATAAGAATGCCTTCTCTGGGAAAATGAGGAATCCATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAACCAGACTCAATGCTGGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCA
CACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTTGATGAGGGAGGGAATGGAAGCATTTCGTTGGAAAATGGCATCATTTTTGGGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGTGATGGAGCATCAGAAAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGA
TACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTGATGGAGACTGCTTTGAAAGGAGACATTCCTATAAAGAGGATGAAAATGACCCATGCTTTTCCTTCCGCGGTAACTACTCTCACTCTCATTGCCCTTCAGCTGTGGAAGAAACAGTTAGCCCTAAGAATCCAGGATCATATATTGCAATTGATGAT
ATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCTCCTCCAAAAACACGTGTAGAAAATTGCAATCTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATGAAATTGACTGGACTATGAACTTAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGG
AGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTGTATAGTGTAGCTGATGGGTATTCAGTTAGAAGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGTGTGCATAGAACTGATTCTTTGTCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACG
AGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGACAGAGAATAAGAAAGAAAATTGCTTACCAGCTAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGACAAAAACATTTTGTACATGTTGGAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCC
TTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCAGGCAAGAGGAATACCATGTCATGGTTCCCACCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATTATCGACTTAGTATGCAGCCTTTGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCT
TCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTGATTGCAGAGGGGATTATGATAAAGCATAATTCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAGAATGATGTGCAAGTTATGAGGATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTC
ATTCTATATAAATTACTCAAGTTGGA
>TRINITY_DN109205_c0_g1_i3 from sample A2 / Example unspliced isoform:AAAGATTTCAAACTGCAATTATCACTATCCGAATGGTTTTCGGACAGAAAAACGCCAAATACCAAATTTAGAACCATAAATCCTTCATTGCATCGCGCTTCGACATTTCAACAACTTTTGCTTACCAGTCCTAAAATCGCATTAAGCTCAACAGAAAGCCTGAATTCCAGCCTCATGTGCTCCATTTTCTGATTCGCTTC
TCACCCATTCGCTGGATCTGACGTGAAGCTGAGAATAAAGTTTTGCCTTGTTCAGgcgtgcaggtgttcatttatttttctggtgcatgcgggtattgggttctttactggattccaccggcgtggactgacagacaaacttcattaatttctagctgggtttgtctcagTCTCAGAGAATTTGACCGTTACAAGCAATG
ATGTGGAAACCCAATCCGGGAAAAGGCGTGCCCATGTTCTGAATAATATCTGAATGCAAACTTACTGTGGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTAGGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTAAGCTCTCGCTATAAAAGGGTAAAGGGGTGG
AAGGGTTTGATCTTGTCGACAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTTTTTAGTCTCCATTCTCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCCATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGCCAGATTAGGTCAGGGTGTGAGCTCTGCCAA
ATTGTGGAAACTTTGGGCTTGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCATGGGTACCCATTTGAAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAGATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCACAGTGTATAGCCCAGCTGTCGGAGCTTCAA
GATGGGCACCTTCCTAGACAGTATTTGATCTATTTGTATGAAGTGATTGCACGAGAACATGGTAAAAGTATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTTTGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTCTGCAATGGCAAGATATACAATAGGTCCTAG
CTCCTTTCAAGGGCAAAGAGAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCTTGATGTCCTGTTAGGAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCTTTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTTGCTTGAGAGTTACAGGGGCATTGGAGGAGA
AAGGAACCCAAACAAATAGCCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTAACAGCCCCATTCTTGAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGAGGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATCGATGGTTTGTTGAAATCTGTCGACATGGAC
ATTTTAGCTTCAGAAATTCCGAATACTGTTATGTATCTGGAGAGATGTAGGTCTGATAGAACACCTTCTGTAAGAAATACAGTTTCTGAAACTATTCAACTTGCGAAGGCTTTAGCTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAATCCTTTGTGGAGGCAACACATCTAGCAGTGG
AAGCTTGTGTGGATTCAATGACTTTTCCCCAGGCATGCAAATTGGTCCTTACACACAATCCCCTGTCTCTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACAGGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATTATTCAGATTCCATAGATAAGAATGCCTTCT
CTGGGAAAATGAGGAATCCATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAACCAGACTCAATGCTGGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCACACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTTGATGAGGGAGGGAATGGAAGCATTTCGTTG
GAAAATGGCATCATTTTTGGGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGTGATGGAGCATCAGAAAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGATACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTGATGGAGACTGCTTTGAAAGGAGACATTCCTATAAAGAGGA
TGAAAATGACCCATGCTTTTCCTTCCGCGGTAACTACTCTCACTCTCATTGCCCTTCAGCTGTGGAAGAAACAGTTAGCCCTAAGAATCCAGGATCATATATTGCAATTGATGATATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCTCCTCCAAAAACACGTGTAGAAAATTGCAAT
CTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATGAAATTGACTGGACTATGAACTTAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGGAGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTGTATAGTGTAGCTGATGGGTATTCAGTTAGA
AGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGTGTGCATAGAACTGATTCTTTGTCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACGAGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGACAGAGAATAAGAAAGAAAATTGCTTACCAGC
TAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGACAAAAACATTTTGTACATGTTGGAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCCTTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCAGGCAAGAGGAATACCATGTCATGGTTCCCA
CCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATTATCGACTTAGTATGCAGCCTTTGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCTTCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTGATTGCAGAGGGGATTATGATAAAGCATAAT
TCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAGAATGATGTGCAAGTTATGAGGATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTCATTCTATATAAATTACTCAAGTTGGA
Intron 5 GTAACTACTC ... TAGCCCTAAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 74.48 | 45.6 | 151 | 104 |
| A2 | 75.49 | 25.7 | 84 | 70 |
| A3 | 73.93 | 30.6 | 94.1 | 73.1 |
| A4 | 84.2 | 14.7 | 86 | 68 |
| A5 | 66.64 | 16.4 | 38 | 24 |
| A6 | 73.4 | 45.9 | 124 | 126.1 |
| A7 | 73.86 | 82.4 | 266 | 186 |
| A8 | 74.81 | 75.6 | 232.9 | 206.9 |
| A9 | 70.25 | 74.7 | 173 | 170 |
| A10 | 71.03 | 90.7 | 245 | 168 |
>TRINITY_DN124429_c1_g1_i2 from sample A1 / Example spliced isoformTATCACTATCCGAATGGTTTTCGGACAGAAAAACGCCAAATACCAAATTTAGAACCATAAATCCTTCATTGCATCGCGCTTCGACATTTCAACAACTTTTGCTTACCAGTCCTAAAATCGCATTAAGCTCAACAGAAAGCCTGAATTCCAGCCTCATGTGCTCCATTTTCTGATTCGCTTCTCACCCATTCGCTGGATCT
GACGTGAAGCTGAGAATAAAGTTTTGCCTTGTTCAGGCGTGCAGGTGTTCATTTATTTTTCTGGTGCATGCGGGTATTGGGTTCTTTACTGGATTCCACCGGCGTGGACTGACAGACAAACTTCATTAATTTCTAGCTGGGTTTGTCTCAGTCTCAGAGAATTTGACCGTTACAAGCAATGATGTGGAAACCCAATCCGG
GAAAAGGCGTGCCCATGTTCTGAATAATATCTGAATGCAAACTTACTGTGGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTAGGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTAAGCTCTCGCTATAAAAGGGTAAAGGGGTGGAAGGGTTTTATCTTGTCGA
CAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTTTTTAGTCTCCATTCTCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCCATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGCCAGATTAGGTCAGGGTGTGAGCTCTGCCAAATTGTGGAAACTTTGGGCT
TGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCATGGGTACCCATTTGAAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAGATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCACAGTGTATAGCCCAGCTGTCGGAGCTTCAAGATGGGCACCTTCCTAGAC
AGTATTTGATCTATTTGTATGAAGTGATTGCACGAGAACATGGTAAAAGTATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTTTGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTCTGCAATGGCAAGATATACAATAGGTCCTAGCTCCTTTCAAGGGCAAAGA
GAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCTTGATGTCCTGTTAGGAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCTTTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTTGCTTGAGAGTTACAGGGGCATTGGAGGAGAAAGGAACCCAAACAAATAG
CCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTAACAGCCCCATTCTTGAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGAGGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATCAATGGTTTGTTGAAATCTGTCGACATGGACATTTTAGCTTCAGAAATTC
CGAATACTGTTATGTATCTGGAGAGATGTAGGTCTGATAGAACACCTTCTGTAAGAAATACAGTTTTTGAAACTATTCAACTTGCGAAGGCTTTAGCTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAATCCCCTGTGGAGGCAACACATCTAGCAGTGGAAGCTTGTGTGGATTCAAT
GACTTTTCCCCAGGCATGCAAATTGGTCCTTACACACAATCCCCTGTCTCTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACAGGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATTATTCAGATTCCATAGATAAGAATGCCTTCTCTGGGAAAATGAGGAATCC
ATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAACCAGACTCAATGCTGGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCACACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTTGATGAGGGAGGGAATGGAAGCATTTCGTTGGAAAATGGCATCATTTTTG
GGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGTGATGGAGCATCAGAAAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGATACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTTATGATGGAGACTGCTTTGAAAGGAGACATTCCTATAAAGAGGATGAAAATGACGCATGC
TTTTCCTTCCGCGAATCCAGGATCATATATTGCAATTGATGATATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCTCCTCCAAAAACACGTGTAGAAAATTGCAATCTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATGAAATTGACTGGACTATGAACT
TAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGGAGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTGTATAGTGTAGCTGATGGGTATTCAGTTAGAAGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGTGTGCATAGAACTGATTCTTTG
TCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACGAGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGACAGAGAATAAGAAAGAAAATTGCTTACCAGCTAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGACAAAAACATTTTGTACATGTTG
GAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCCTTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCAGGCAAGAGGAATACCATGTCATGGTTCCCACCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATTATCGACTTAGTATGCAGCCTT
TGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCTTCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTGATTGCAGAGGGGATTATGATAAAGCATAATTCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAGAATGATGTGCAAGTTATGAGG
ATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTCATTCTATATAAATTACTCAAGTTGGAAAGTTATAGTTGTTGTTTTTGATTATGTCTCCTTTGAATCCACTGAACAACACGTGCATCCAGATATAACTAACATACTCAC
>TRINITY_DN124429_c1_g1_i3 from sample A1 / Example unspliced isoform:TATCACTATCCGAATGGTTTTCGGACAGAAAAACGCCAAATACCAAATTTAGAACCATAAATCCTTCATTGCATCGCGCTTCGACATTTCAACAACTTTTGCTTACCAGTCCTAAAATCGCATTAAGCTCAACAGAAAGCCTGAATTCCAGCCTCATGTGCTCCATTTTCTGATTCGCTTCTCACCCATTCGCTGGATCT
GACGTGAAGCTGAGAATAAAGTTTTGCCTTGTTCAGGTCTGTACATAATTTGCCCTTTCGCAGTTATTGAATGCCTTCTATTTTGTATTTTTGGCAGTAGTTAGAGGCTATGTAATGAGCCAAGGCTGCATTGGATTCATTGTTTTCTGTATTTCTTATTGAATATTCCAGTGTTCAGGAAATGGGTTGTTATTTTCATA
GGCGTGCAGGTGTTCATTTATTTTTCTGGTGCATGCGGGTATTGGGTTCTTTACTGGATTCCACCGGCGTGGACTGACAGACAAACTTCATTAATTTCTAGCTGGGTTTGTCTCAGTCTCAGAGAATTTGACCGTTACAAGCAATGATGTGGAAACCCAATCCGGGAAAAGGCGTGCCCATGTTCTGAATAATATCTGAA
TGCAAACTTACTGTGGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTAGGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTAAGCTCTCGCTATAAAAGGGTAAAGGGGTGGAAGGGTTTTATCTTGTCGACAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTT
TTTAGTCTCCATTCTCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCCATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGCCAGATTAGGTCAGGGTGTGAGCTCTGCCAAATTGTGGAAACTTTGGGCTTGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCA
TGGGTACCCATTTGAAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAGATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCACAGTGTATAGCCCAGCTGTCGGAGCTTCAAGATGGGCACCTTCCTAGACAGTATTTGATCTATTTGTATGAAGTGATTGCACGA
GAACATGGTAAAAGTATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTTTGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTCTGCAATGGCAAGATATACAATAGGTCCTAGCTCCTTTCAAGGGCAAAGAGAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCT
TGATGTCCTGTTAGGAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCTTTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTTGCTTGAGAGTTACAGGGGCATTGGAGGAGAAAGGAACCCAAACAAATAGCCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTA
ACAGCCCCATTCTTGAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGAGGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATCAATGGTTTGTTGAAATCTGTCGACATGGACATTTTAGCTTCAGAAATTCCGAATACTGTTATGTATCTGGAGAGATGTAGGTCT
GATAGAACACCTTCTGTAAGAAATACAGTTTTTGAAACTATTCAACTTGCGAAGGCTTTAGCTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAATCCCCTGTGGAGGCAACACATCTAGCAGTGGAAGCTTGTGTGGATTCAATGACTTTTCCCCAGGCATGCAAATTGGTCCTTACAC
ACAATCCCCTGTCTCTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACAGGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATTATTCAGATTCCATAGATAAGAATGCCTTCTCTGGGAAAATGAGGAATCCATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAA
CCAGACTCAATGCTGGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCACACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTTGATGAGGGAGGGAATGGAAGCATTTCGTTGGAAAATGGCATCATTTTTGGGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGT
GATGGAGCATCAGAAAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGATACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTTATGATGGAGACTGCTTTGAAAGGAGACATTCCTATAAAGAGGATGAAAATGACGCATGCTTTTCCTTCCGCGgtaactactctcactctcattg
cccttcagctgtggaagaaacagttagccctaagAATCCAGGATCATATATTGCAATTGATGATATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCTCCTCCAAAAACACGTGTAGAAAATTGCAATCTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATG
AAATTGACTGGACTATGAACTTAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGGAGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTGTATAGTGTAGCTGATGGGTATTCAGTTAGAAGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGT
GTGCATAGAACTGATTCTTTGTCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACGAGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGACAGAGAATAAGAAAGAAAATTGCTTACCAGCTAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGAC
AAAAACATTTTGTACATGTTGGAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCCTTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCAGGCAAGAGGAATACCATGTCATGGTTCCCACCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATT
ATCGACTTAGTATGCAGCCTTTGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCTTCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTGATTGCAGAGGGGATTATGATAAAGCATAATTCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAG
AATGATGTGCAAGTTATGAGGATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTCATTCTATATAAATTACTCAAGTTGGAAAGTTATAGTTGTTGTTTTTGATTATGTCTCCTTTGAATCCACTGAACAACACGTGCATCCAGATATAACTAACATACTCAC
Intron 6 GTCTGTACAT ... ATTTTCATAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 28.57 | 85 | 36.2 | 34 |
| A2 | 28.38 | 53 | 18.6 | 21 |
| A3 | 26.67 | 66 | 26.4 | 24 |
| A4 | 23.44 | 49 | 13.6 | 15 |
| A5 | 28.21 | 28 | 11.4 | 11 |
| A6 | 43.75 | 9 | 0 | 7 |
| A7 | 23.81 | 48 | 22.6 | 15 |
| A8 | 31.25 | 11 | 6.4 | 5 |
| A9 | 30.3 | 46 | 10.4 | 20 |
| A10 | 26.51 | 61 | 20.4 | 22 |
>TRINITY_DN124429_c1_g1_i2 from sample A1 / Example spliced isoformTATCACTATCCGAATGGTTTTCGGACAGAAAAACGCCAAATACCAAATTTAGAACCATAAATCCTTCATTGCATCGCGCTTCGACATTTCAACAACTTTTGCTTACCAGTCCTAAAATCGCATTAAGCTCAACAGAAAGCCTGAATTCCAGCCTCATGTGCTCCATTTTCTGATTCGCTTCTCACCCATTCGCTGGATCT
GACGTGAAGCTGAGAATAAAGTTTTGCCTTGTTCAGGCGTGCAGGTGTTCATTTATTTTTCTGGTGCATGCGGGTATTGGGTTCTTTACTGGATTCCACCGGCGTGGACTGACAGACAAACTTCATTAATTTCTAGCTGGGTTTGTCTCAGTCTCAGAGAATTTGACCGTTACAAGCAATGATGTGGAAACCCAATCCGG
GAAAAGGCGTGCCCATGTTCTGAATAATATCTGAATGCAAACTTACTGTGGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTAGGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTAAGCTCTCGCTATAAAAGGGTAAAGGGGTGGAAGGGTTTTATCTTGTCGA
CAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTTTTTAGTCTCCATTCTCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCCATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGCCAGATTAGGTCAGGGTGTGAGCTCTGCCAAATTGTGGAAACTTTGGGCT
TGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCATGGGTACCCATTTGAAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAGATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCACAGTGTATAGCCCAGCTGTCGGAGCTTCAAGATGGGCACCTTCCTAGAC
AGTATTTGATCTATTTGTATGAAGTGATTGCACGAGAACATGGTAAAAGTATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTTTGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTCTGCAATGGCAAGATATACAATAGGTCCTAGCTCCTTTCAAGGGCAAAGA
GAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCTTGATGTCCTGTTAGGAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCTTTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTTGCTTGAGAGTTACAGGGGCATTGGAGGAGAAAGGAACCCAAACAAATAG
CCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTAACAGCCCCATTCTTGAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGAGGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATCAATGGTTTGTTGAAATCTGTCGACATGGACATTTTAGCTTCAGAAATTC
CGAATACTGTTATGTATCTGGAGAGATGTAGGTCTGATAGAACACCTTCTGTAAGAAATACAGTTTTTGAAACTATTCAACTTGCGAAGGCTTTAGCTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAATCCCCTGTGGAGGCAACACATCTAGCAGTGGAAGCTTGTGTGGATTCAAT
GACTTTTCCCCAGGCATGCAAATTGGTCCTTACACACAATCCCCTGTCTCTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACAGGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATTATTCAGATTCCATAGATAAGAATGCCTTCTCTGGGAAAATGAGGAATCC
ATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAACCAGACTCAATGCTGGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCACACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTTGATGAGGGAGGGAATGGAAGCATTTCGTTGGAAAATGGCATCATTTTTG
GGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGTGATGGAGCATCAGAAAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGATACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTTATGATGGAGACTGCTTTGAAAGGAGACATTCCTATAAAGAGGATGAAAATGACGCATGC
TTTTCCTTCCGCGAATCCAGGATCATATATTGCAATTGATGATATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCTCCTCCAAAAACACGTGTAGAAAATTGCAATCTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATGAAATTGACTGGACTATGAACT
TAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGGAGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTGTATAGTGTAGCTGATGGGTATTCAGTTAGAAGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGTGTGCATAGAACTGATTCTTTG
TCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACGAGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGACAGAGAATAAGAAAGAAAATTGCTTACCAGCTAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGACAAAAACATTTTGTACATGTTG
GAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCCTTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCAGGCAAGAGGAATACCATGTCATGGTTCCCACCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATTATCGACTTAGTATGCAGCCTT
TGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCTTCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTGATTGCAGAGGGGATTATGATAAAGCATAATTCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAGAATGATGTGCAAGTTATGAGG
ATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTCATTCTATATAAATTACTCAAGTTGGAAAGTTATAGTTGTTGTTTTTGATTATGTCTCCTTTGAATCCACTGAACAACACGTGCATCCAGATATAACTAACATACTCAC
>TRINITY_DN124429_c1_g1_i3 from sample A1 / Example unspliced isoform:TATCACTATCCGAATGGTTTTCGGACAGAAAAACGCCAAATACCAAATTTAGAACCATAAATCCTTCATTGCATCGCGCTTCGACATTTCAACAACTTTTGCTTACCAGTCCTAAAATCGCATTAAGCTCAACAGAAAGCCTGAATTCCAGCCTCATGTGCTCCATTTTCTGATTCGCTTCTCACCCATTCGCTGGATCT
GACGTGAAGCTGAGAATAAAGTTTTGCCTTGTTCAGgtctgtacataatttgccctttcgcagttattgaatgccttctattttgtatttttggcagtagttagaggctatgtaatgagccaaggctgcattggattcattgttttctgtatttcttattgaatattccagtgttcaggaaatgggttgttattttcata
gGCGTGCAGGTGTTCATTTATTTTTCTGGTGCATGCGGGTATTGGGTTCTTTACTGGATTCCACCGGCGTGGACTGACAGACAAACTTCATTAATTTCTAGCTGGGTTTGTCTCAGTCTCAGAGAATTTGACCGTTACAAGCAATGATGTGGAAACCCAATCCGGGAAAAGGCGTGCCCATGTTCTGAATAATATCTGAA
TGCAAACTTACTGTGGGTTTTTATTTTGCTCATCACTGGCTGCTCATCTTCCGAGCGTTTAGGTTCCTTGAGTAGCTTTTTCTGGGGCTAAAACTCATTGATTGGGCGAGGTTTTAAGCTCTCGCTATAAAAGGGTAAAGGGGTGGAAGGGTTTTATCTTGTCGACAGAAGGGTTTGGGTTGGGAGAAGGTTTAAGTTTT
TTTAGTCTCCATTCTCTTCTGCGGATTCTCATGTATTGCACGCTGTGGTTGACGGGATTCCATTCATTGTGACTTTTCTTGGACCATTCTGGGACCAATCTGTGCAAGACCTTCGCCAGATTAGGTCAGGGTGTGAGCTCTGCCAAATTGTGGAAACTTTGGGCTTGATCTCCGAAGCCAGAAGGCTATGGAAAGATTCA
TGGGTACCCATTTGAAACAAATGTTTGCAGATCTAGACAAGGATCCAGACAGCAGAAGAAGATCTATGAATTCTCTGAGAAACTATGTCCAGCAGTTAGACAGTAAGGCGATCCCACAGTGTATAGCCCAGCTGTCGGAGCTTCAAGATGGGCACCTTCCTAGACAGTATTTGATCTATTTGTATGAAGTGATTGCACGA
GAACATGGTAAAAGTATAATTCCCGAAATAACTAAGATGATGGGTGACGTGTTGAAGGCTTTGTCTTCAAATGCACCTTCATTGGCCCTGCAACAGGCCTGTGCCAAGGCGGTTTCTGCAATGGCAAGATATACAATAGGTCCTAGCTCCTTTCAAGGGCAAAGAGAAGGAGTCATCCGAGATTTAGCCAATCCCCTGCT
TGATGTCCTGTTAGGAACTGTACAGTCACTGGCAGAAGGAGCAGCAATGTGTTTGCAAGCTTTAGTGGAAACAGAGGCATGGAAATATGCACCAGATGATATTGTCAATGAGATTTGCTTGAGAGTTACAGGGGCATTGGAGGAGAAAGGAACCCAAACAAATAGCCATATAAAGCTGGTTTGTTCTCTAGTCAAGTCTA
ACAGCCCCATTCTTGAAGCTTATGGGAGGTCGCTGCTGAAGGCAGCAGCCAAAATCCTTGAGGCTGGAGTAGTCACTGGGAACTCTCAGCAACGTTTGCATGCTGTACTGATGATCAATGGTTTGTTGAAATCTGTCGACATGGACATTTTAGCTTCAGAAATTCCGAATACTGTTATGTATCTGGAGAGATGTAGGTCT
GATAGAACACCTTCTGTAAGAAATACAGTTTTTGAAACTATTCAACTTGCGAAGGCTTTAGCTTCTGAGACGGGTATAGACCTAAATAATGATGGCTCTTATGGTGATGAGGAAATCCCCTGTGGAGGCAACACATCTAGCAGTGGAAGCTTGTGTGGATTCAATGACTTTTCCCCAGGCATGCAAATTGGTCCTTACAC
ACAATCCCCTGTCTCTTCCATGCAATCTTTGAATACCAAATACCAAATTCCTTCTATAACAGGTTCTGGTACAAGGGCTAAAAGGTTCTCTAATTTTGATTTGAGCCGAGGTTATTATTCAGATTCCATAGATAAGAATGCCTTCTCTGGGAAAATGAGGAATCCATCTTTCTCACCATTGTCTGATAGGTCAGAGTCAA
CCAGACTCAATGCTGGAAAAAACATGGCAACAGAGCAGACACCTCATTGTTTCTTCACTCACACTGGAAAAGATGGCGATTTCAGGAGATATTTGGTGCCAGAATCACATTTATTTGATGAGGGAGGGAATGGAAGCATTTCGTTGGAAAATGGCATCATTTTTGGGAGTGATACAGAAGTTGTTGCAGAGTATGAAAGT
GATGGAGCATCAGAAAGAAAATACTCTTGTGAACATGGTAATAGGCAAAGAAGGACCAGGATACATATGGTTGACAGACATGGGGAAAATGGAGATGCATCGGTTTATGATGGAGACTGCTTTGAAAGGAGACATTCCTATAAAGAGGATGAAAATGACGCATGCTTTTCCTTCCGCGGTAACTACTCTCACTCTCATTG
CCCTTCAGCTGTGGAAGAAACAGTTAGCCCTAAGAATCCAGGATCATATATTGCAATTGATGATATGAGTGTATTCAACACACCAAGTTCATTCGTTAGGTCTCTGGAACAGCAATCCTCCTCCAAAAACACGTGTAGAAAATTGCAATCTAGAGGAGAATTTGCAGATTGTGCAGAAGCTAACCATGATAATTTGAATG
AAATTGACTGGACTATGAACTTAAGTCCAGCTGCCAATGGAGCTGTCAATGAATCCAGGGGTGGAGACCATCGACAAATGATCACTACAAAAAAAGGAAGGACAATGCCTGACAGTCTGTATAGTGTAGCTGATGGGTATTCAGTTAGAAGCAATTCAGAAGAGGGAGATCTGCAGAACAGTTCTGAATGGTCAGAAAGT
GTGCATAGAACTGATTCTTTGTCACCTGCTTCAAGCACTGTCTTTGAGGAGATGTTAGATAACGAGGAAGATTACCAGAGCACTGGCCTGTCTGAGTTAGACAAAGAAGCTTATAGGACAGAGAATAAGAAAGAAAATTGCTTACCAGCTAATCTTGATTCAGTTGAAGGTTCAACAGATTCTTGCAAATGGCAAGAGAC
AAAAACATTTTGTACATGTTGGAGAAGAGCATTGTGCTTTATGGAATCCATTCTGGGAGTCTCCTTGTGTGCTGTGCTGGCTGTTCCTGCAACTATGGTGGCTGTCAAGTTATTTAGCAGGCAAGAGGAATACCATGTCATGGTTCCCACCTAGGACATTCTATTTTGTGGTCATTAAAAAATAGTAATTTACAAATATT
ATCGACTTAGTATGCAGCCTTTGTTTTAATGGGAGTATACAATTTGAATCATCTTCTTGAAGCTTCTTGCTTTTGCCTTTCCCTTATTCATCAGGCTTTCTTCCATATGTTTCAGTTTGATTGCAGAGGGGATTATGATAAAGCATAATTCCATTTATGCACAGTAGGAGGATGAATCATGGAAAGCTTTCTGTTGCTAG
AATGATGTGCAAGTTATGAGGATGTTTATCCCTTGAATATAAAAATATTCTGTTGTGAGGTTTCATTCTATATAAATTACTCAAGTTGGAAAGTTATAGTTGTTGTTTTTGATTATGTCTCCTTTGAATCCACTGAACAACACGTGCATCCAGATATAACTAACATACTCAC