sp|Q5VN06|CLF_ORYSJ ----> Histone-lysine N-methyltransferase CLF
Intron 1 GTAAGATAAG ... GTCATCATAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 18.97 | 94 | 1 | 22 |
| A2 | 16.48 | 76 | 0 | 15 |
| A3 | 11.07 | 89 | 1.1 | 11.1 |
| A4 | 23 | 77 | 2 | 23 |
| A5 | 26.53 | 36 | 0 | 13 |
| A6 | 7.69 | 12 | 0 | 1 |
| A7 | 12.28 | 50 | 0 | 7 |
| A8 | 12.5 | 14 | 0 | 2 |
| A9 | 3.77 | 51 | 0 | 2 |
| A10 | 24.44 | 34 | 2 | 11 |
>TRINITY_DN118044_c4_g1_i4 from sample A1 / Example spliced isoformAACAGATATAAATCACTAAGAGAGATAGAATGATGACACAATGCGTATGCATATCTCTCTCACACAGTAGTTGTTGTCAAGAGGCATTCAAAAATTTGCCAGTAAGGTTGTTTCCCACCATTTTAACCTTTCAATTTCAATTTCTATAGGCACACTGTGCAAAGCTGAAGCTATTTTGTCTTTGGTTTTCTTTTTCATTG
GTTGGGCGTGTCCTAGGGTTTCAACCAACCTCCTGTCCCCTTCCGTGCTTGCTCGGGCATGGCCGGACACCTTCCGTCCATGCTCGGCTGAACTCCTTCTGTTCTGTTTAACTACCTTCCCAAATCATGGATCTCAAATACCCATTTTGATCTCGATGAACGATTTTCCGTAATACTCAGATCAAGGCGGTGTGTCGCTT
TCAGGCTTCCCGGCTCATGTGTTACTGGTTTTTTTTGGTTCAGTTTCTAAATGCAAGAGCGCTACTGATGTTAGGCTTAGGGTAGAGAGAAAAGGGATTGCTATTTGCAAGTTAAAATGACTTCCAAAAACATAGGGTCTGTATCTGGCTCAAGGTCCTCTTCCAAACCCGATGCCAAAGATGCACAGGTTAATGAAGAG
GGGGAGCAAGTCAACCAGCCTTCTGGGAGCTTTTCCTCTGCAATATGTCGGGTAAAGGATCAGCTAAAGGATAATAGAAATGCATTTGTAAAGGAGAGAGTTGAGTTAAACAGGAGAAATCTAGAGTCATATACAGATAACCTTCTCATGCTATCAAAGTCGAGGAAAGTGACAACCTCATCAGGGAATAACGGAATGAA
AGACATGTTCACCCAGAGAATTGAGAGAGCACTGTGTAAGTTGAATGGTCTTGATACAGTTGTAGGGGATAAAGAAAATGTAAATTGTCAAGAAGAAGGCTCAAGCTCAACATCAACAATAATATTTGGAAGTAACTCGGGAGGAAGGAGTGTTGTGCGGCCTATCAAGCTTCCTGAAGTGCAAAAGATCCCGCATTATA
CTACATGGATCTTTTTGGACAGGAACCAAAGAATGGCTGATGACCAATCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATGACACAGTTGAAGAGGAAGATGAGAAGTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAA
CAGGGGTTATCACAGGCAGTCTTAGATTGCCTTAGTCAATGCCTTGGAATCAAGCCCAATGAAATTAAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAAATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGA
TTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCCGTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATGCCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTC
CTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAG
CCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGT
TAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTG
TGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAAT
TTGCGGTCTGATGGCAATGGAAAGGGGACAGAAGCTCGAACAAGAACAAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCA
ATGTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGATGTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCG
GTCCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTTCTCCTAAAGCAGCAGCAGCGAGTACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATT
TATGATCGAGAAGACTCCTCCTTCCTTTTCAACTTGAATGATCAGTACGTTCTTGATGCATATCGAAAGGGAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTA
TGATTACCGTTATGAGCCAGATAGGGCACCAGCGTGGGCAAGAAAACCTGAAGGTTTGAATCCAAAGAGGGATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATA
TACCTTCTCTAATTGTAACATTCTCCTAATCCATGGGTGCATCATTTGATTTTTGTAACTGATTTTTGTAATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCAC
TCTTTTTATGAGTCAATTTATTTTCATCTATTGAAGAATGCAAAGCTGATTACCTTTTCTTAGACAATTGTCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGA
ACATTAAGTGTGTGCTGGTGATGTGCATTCTTTTTAATGCCATTCTGGGGTTGACATATATATGCTGATGTTAATATATGTACTTGCTCATGCTATTTATATATTCCTGTTTAATGTATCTGCATACCTGGAGTGATGCCATGGAAAACATCTTTTGCTCAATATTTTTCGTTACATTTCAAATGCTTGCTTGTCTTCAT
TCTGTCAATTGACTCGAAAATATAGTGTTTTATTTCCTTTTCTAAGATGGTGT
>TRINITY_DN118044_c4_g1_i18 from sample A1 / Example unspliced isoform:GTTCTCAGTCTCTTGTTTTCCCTgtaagataagcttattgattcttttaacagttcttttagttttctgtgttatttctctgtcatgactcttattgatggaattttgtcatcatagTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATGCCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGC
GGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTCCTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTG
AATATGATGCGGGGAAGGATGGTCCGGAGTTGAAGCCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGAT
ATTAACCTGAGATCAAACTCAAAAAAGTCTAATGTTAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGA
AGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTGTGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAAT
CCACAATACAGTGGGCAGCTGGGGATGGGCCAAATTTGCGGTCTGATGGCAATGGAAAGG
Intron 2 GTTGACCGTA ... CTTCCTACAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 25.32 | 115 | 41 | 37 |
| A2 | 19.84 | 101 | 26 | 24 |
| A3 | 22.92 | 74 | 24 | 20 |
| A4 | 21.47 | 75 | 17 | 24 |
| A5 | 23.64 | 63 | 19 | 20 |
| A6 | 23.33 | 23 | 6 | 8 |
| A7 | 21.47 | 128 | 32 | 38 |
| A8 | 20 | 64 | 15 | 17 |
| A9 | 23.01 | 92 | 33 | 22 |
| A10 | 22.6 | 113 | 38 | 28 |
>TRINITY_DN118044_c4_g1_i4 from sample A1 / Example spliced isoformAACAGATATAAATCACTAAGAGAGATAGAATGATGACACAATGCGTATGCATATCTCTCTCACACAGTAGTTGTTGTCAAGAGGCATTCAAAAATTTGCCAGTAAGGTTGTTTCCCACCATTTTAACCTTTCAATTTCAATTTCTATAGGCACACTGTGCAAAGCTGAAGCTATTTTGTCTTTGGTTTTCTTTTTCATTG
GTTGGGCGTGTCCTAGGGTTTCAACCAACCTCCTGTCCCCTTCCGTGCTTGCTCGGGCATGGCCGGACACCTTCCGTCCATGCTCGGCTGAACTCCTTCTGTTCTGTTTAACTACCTTCCCAAATCATGGATCTCAAATACCCATTTTGATCTCGATGAACGATTTTCCGTAATACTCAGATCAAGGCGGTGTGTCGCTT
TCAGGCTTCCCGGCTCATGTGTTACTGGTTTTTTTTGGTTCAGTTTCTAAATGCAAGAGCGCTACTGATGTTAGGCTTAGGGTAGAGAGAAAAGGGATTGCTATTTGCAAGTTAAAATGACTTCCAAAAACATAGGGTCTGTATCTGGCTCAAGGTCCTCTTCCAAACCCGATGCCAAAGATGCACAGGTTAATGAAGAG
GGGGAGCAAGTCAACCAGCCTTCTGGGAGCTTTTCCTCTGCAATATGTCGGGTAAAGGATCAGCTAAAGGATAATAGAAATGCATTTGTAAAGGAGAGAGTTGAGTTAAACAGGAGAAATCTAGAGTCATATACAGATAACCTTCTCATGCTATCAAAGTCGAGGAAAGTGACAACCTCATCAGGGAATAACGGAATGAA
AGACATGTTCACCCAGAGAATTGAGAGAGCACTGTGTAAGTTGAATGGTCTTGATACAGTTGTAGGGGATAAAGAAAATGTAAATTGTCAAGAAGAAGGCTCAAGCTCAACATCAACAATAATATTTGGAAGTAACTCGGGAGGAAGGAGTGTTGTGCGGCCTATCAAGCTTCCTGAAGTGCAAAAGATCCCGCATTATA
CTACATGGATCTTTTTGGACAGGAACCAAAGAATGGCTGATGACCAATCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATGACACAGTTGAAGAGGAAGATGAGAAGTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAA
CAGGGGTTATCACAGGCAGTCTTAGATTGCCTTAGTCAATGCCTTGGAATCAAGCCCAATGAAATTAAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAAATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGA
TTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCCGTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATGCCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTC
CTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAG
CCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGT
TAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTG
TGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAAT
TTGCGGTCTGATGGCAATGGAAAGGGGACAGAAGCTCGAACAAGAACAAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCA
ATGTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGATGTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCG
GTCCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTTCTCCTAAAGCAGCAGCAGCGAGTACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATT
TATGATCGAGAAGACTCCTCCTTCCTTTTCAACTTGAATGATCAGTACGTTCTTGATGCATATCGAAAGGGAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTA
TGATTACCGTTATGAGCCAGATAGGGCACCAGCGTGGGCAAGAAAACCTGAAGGTTTGAATCCAAAGAGGGATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATA
TACCTTCTCTAATTGTAACATTCTCCTAATCCATGGGTGCATCATTTGATTTTTGTAACTGATTTTTGTAATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCAC
TCTTTTTATGAGTCAATTTATTTTCATCTATTGAAGAATGCAAAGCTGATTACCTTTTCTTAGACAATTGTCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGA
ACATTAAGTGTGTGCTGGTGATGTGCATTCTTTTTAATGCCATTCTGGGGTTGACATATATATGCTGATGTTAATATATGTACTTGCTCATGCTATTTATATATTCCTGTTTAATGTATCTGCATACCTGGAGTGATGCCATGGAAAACATCTTTTGCTCAATATTTTTCGTTACATTTCAAATGCTTGCTTGTCTTCAT
TCTGTCAATTGACTCGAAAATATAGTGTTTTATTTCCTTTTCTAAGATGGTGT
>TRINITY_DN118044_c4_g1_i7 from sample A1 / Example unspliced isoform:TAATATTGTACCTTGCTTTTATTGCTTCCGCCAGTTATGCTCTTTTTTGTATTACAGTTGACTAATTTATTTTCGCTGTCGTGACTGCAGTTCAGTTTCTAAATGCAAGAGCGCTACTGATGTTAGGCTTAGGGTAGAGAGAAAAGGGATTGCTATTTGCAAGTTAAAATGACTTCCAAAAACATAGGGTCTGTATCTGG
CTCAAGGTCCTCTTCCAAACCCGATGCCAAAGATGCACAGGTTAATGAAGAGGGGGAGCAAGTCAACCAGCCTTCTGGGAGCTTTTCCTCTGCAATATGTCGGGTAAAGGATCAGCTAAAGGATAATAGAAATGCATTTGTAAAGGAGAGAGTTGAGTTAAACAGGAGAAATCTAGAGTCATATACAGATAACCTTCTCA
TGCTATCAAAGTCGAGGAAAGTGACAACCTCATCAGGGAATAACGGAATGAAAGACATGTTCACCCAGAGAATTGAGAGAGCACTGTGTAAGTTGAATGGTCTTGATACAGTTGTAGGGGATAAAGAAAATGTAAATTGTCAAGAAGAAGGCTCAAGCTCAACATCAACAATAATATTTGGAAGTAACTCGGGAGGAAGG
AGTGTTGTGCGGCCTATCAAGCTTCCTGAAGTGCAAAAGATCCCGCATTATACTACATGGATCTTTTTGGACAGGAACCAAAGAATGGCTGATGACCAATCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATGACACAGTTGAAGAGGAAGATGAGAA
GTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAACAGGGGTTATCACAGGCAGTCTTAGATTGCCTTAGTCAATGCCTTGGAATCAAGCCCAATGAAATTAAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAAATGGATCTGGTGTTGAAA
ATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGATTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCCGTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATGCCGTGTAGTATTCACTGC
TATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTCCTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGAT
TGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAGCCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAG
TTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGTTAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTT
TTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTGTGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATA
TATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAATTTGCGGTCTGATGGCAATGGAAAGgttgaccgtactgatgctatggttggtatccatatgctaagtattccaattttttattctttcttgtatattgctgttcaggttatatacaattaacacaataggcctgaacttcctacagGGG
ACAGAAGCTCGAACAAGAACAAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCAATGTCCCTGCCTACGTAGCGGGACTTG
TTGTGAGAAATACTGTGGATGTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCGGTCCACCACAGAGAGGTGATAACTATG
AATGCAGAAATATGAAGCTTCTCCTAAAGCAGCAGCAGCGAGTACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATTTATGATCGAGAAGACTCCTCCTTCCTT
TTCAACTTGAATGATCAGTACGTTCTTGATGCATATCGAAAGGGAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTATGATTACCGTTATGAGCCAGATAGGGC
ACCAGCGTGGGCAAGAAAACCTGAAGGTTTGAATCCAAAGAGGGATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATATACCTTCTCTAATTGTAACATTCTCCT
AATCCATGGGTGCATCATTTGATTTTTGTAACTGATTTTTGTAATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCACTCTTTTTATGAGTCAATTTATTTTCAT
CTATTGAAGAATGCAAAGCTGATTACCTTTTCTTAGACAATTGTCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGAACATTAAGTGTGTGCTGGTGATGTGCA
TTCTTTTTAATGCCATTCTGGGGTTGACATATATATGCTGATGTTAATATATGTACTTGCTCATGCTATTTATATATTCCTGTTTAATGTATCTGCATACCTGGAGTGATGCCATGGAAAACATCTTTTGCTCAATATTTTTCGTTACATTTCAAATGCTTGCTTGTCTTCATTCTGTCAATTGACTCGAAAATATAGTG
TTTTATTTCCTTTTCTAAGATGGTGT
Intron 3 GTTGACCGTA ... CTTCCTACAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 41.33 | 115 | 80 | 82 |
| A2 | 47.12 | 101 | 93 | 87 |
| A3 | 41.96 | 74 | 58 | 49 |
| A4 | 41.63 | 75 | 54 | 53 |
| A5 | 42.47 | 63 | 47 | 46 |
| A6 | 37.84 | 23 | 15 | 13 |
| A7 | 43.24 | 128 | 96 | 99 |
| A8 | 41.55 | 64 | 43 | 48 |
| A9 | 44.91 | 92 | 81 | 69 |
| A10 | 41.3 | 113 | 85 | 74 |
>TRINITY_DN38246_c1_g1_i6 from sample A9 / Example spliced isoformTGCATATCTCTCTCACACAGTAGTTGTTGTCAAGAGGCATTCAAAAATTTGCCAGTAAGGTTGTTTCCCACCATTTTAACCTTTCAATTTCAATTTCTATAGGCACACTGTGCAAAGCTGAAGCTATTTTGTCTTTGGTTTTCTTTTTCATTGGTTGGGCGTGTCCTAGGGTTTCAACCAACCTCCTGTCCCCTTCCGTG
CTTGCTCGGGCATGGCCGGACACCTTCCGTCCATGCTCGGCTGAACTCCTTCTGTTCTGTTTAACTACCTTCCCAAATCATGGATCTCAAATACCCATTTTGATCTCGATGAACGATTTTCCGTAATACTCAGATCAAGGCGGTGTGTCGCTTTCAGGCTTCCCGGCTCATGTGTTACTGGTTTTTTTTGGTTCAGTTTC
TAAATGCAAGAGCGCTACTGATGTTAGGCTTAGGGTAGAGAGAAAAGGGATTGCTATTTGCAAGTTAAAATGACTTCCAAAAACATAGGGTCTGTATCTGGCTCAAGGTCCTCTTCCAAACCCGATGCCAAAGATGCACAGGTTAATGAAGAGGGGGAGCAAGTCAACCAGCCTTCTGGGAGCTTTTCCTCTGCAATATG
TCGGGTAAAGGATCAGCTAAAGGATAATAGAAATGCATTTGTAAAGGAGAGAGTTGAGTTAAACAGGAGAAATCTAGAGTCATATACAGATAACCTTCTCATGCTATCAAAGTCGAGGAAAGTGACAACCTCATCAGGGAATAACGGAATGAAAGACATGTTCACCCAGAGAATTGAGAGAGCACTGTGTAAGTTGAATG
GTCTTGATACAGTTGTAGGGGATAAAGAAAATGTAAATTGTCAAGAAGAAGGCTCAAGCTCAACATCAACAATAATATTTGGAAGTAACTCGGGAGGAAGGAGTGTTGTGCGGCCTATCAAGCTTCCTGAAGTGCAAAAGATCCCGCATTATACTACATGGATCTTTTTGGACAGGAACCAAAGAATGGCTGATGACCAA
TCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATGACACAGTTGAAGAGGAAGATGAGAAGTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAACAGGGGTTATCACAGGCAGTCTTAGATTGCCTTAGTCAATGCCTTGG
AATCAAGCCCAATGAAATTAAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAAATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGATTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCC
GTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATGCCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTCCTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTA
CCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAGCCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAG
TTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGTTAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAG
CGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTGTGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAA
GGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAATTTGCGGTCTGATGGCAATGGAAAGGGGACAGAAGCTCGAACAAGAAC
AAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCAATGTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGAT
GTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCGGTCCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTT
CTCCTAAAGCAGCAGCAGCGAGTACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATTTATGATCGAGAAGACTCCTCCTTCCTTTTCAACTTGAATGATCAGTA
CGTTCTTGATGCATATCGAAAGGGAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTATGATTACCGTTATGAGCCAGATAGGGCACCAGCGTGGGCAAGAAAAC
CTGAAGGTTTGAATCCAAAGAGGGATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATATACCTTCTCTAATTGTAACATTCTCCTAATCCATGGGTGCATCATTT
GATTTTTGTAACTGATTTTTGTAATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCACTCTTTTTATGAGTCAATTTATTTTCATCTATTGAAGAATGCAAAGCT
GATTACCTTTTCTTAGACAATTGTCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGAACATTAAGTGTGTGCTGGTGATGTGCATTCTTTTTAATGCCATTCTG
GGGTTGACATATATATGCTGATGTTAATATATGTACTTGCTCATGCTATTTATATATTCCTGTTTAATGTATCTGCATACCTGGAGTGATGCCATGGAAAACATCTTTTGCTCAATATTTTTC
>TRINITY_DN38246_c1_g1_i2 from sample A9 / Example unspliced isoform:TGCATATCTCTCTCACACAGTAGTTGTTGTCAAGAGGCATTCAAAAATTTGCCAGTAAGGTTGTTTCCCACCATTTTAACCTTTCAATTTCAATTTCTATAGGCACACTGTGCAAAGCTGAAGCTATTTTGTCTTTGGTTTTCTTTTTCATTGGTTGGGCGTGTCCTAGGGTTTCAACCAACCTCCTGTCCCCTTCCGTG
CTTGCTCGGGCATGGCCGGACACCTTCCGTCCATGCTCGGCTGAACTCCTTCTGTTCTGTTTAACTACCTTCCCAAATCATGGATCTCAAATACCCATTTTGATCTCGATGAACGATTTTCCGTAATACTCAGATCAAGGCGGTGTGTCGCTTTCAGGCTTCCCGGCTCATGTGTTACTGGTTTTTTTTGGTTCAGTTTC
TAAATGCAAGAGCGCTACTGATGTTAGGCTTAGGGTAGAGAGAAAAGGGATTGCTATTTGCAAGTTAAAATGACTTCCAAAAACATAGGGTCTGTATCTGGCTCAAGGTCCTCTTCCAAACCCGATGCCAAAGATGCACAGGTTAATGAAGAGGGGGAGCAAGTCAACCAGCCTTCTGGGAGCTTTTCCTCTGCAATATG
TCGGGTAAAGGATCAGCTAAAGGATAATAGAAATGCATTTGTAAAGGAGAGAGTTGAGTTAAACAGGAGAAATCTAGAGTCATATACAGATAACCTTCTCATGCTATCAAAGTCGAGGAAAGTGACAACCTCATCAGGGAATAACGGAATGAAAGACATGTTCACCCAGAGAATTGAGAGAGCACTGTGTAAGTTGAATG
GTCTTGATACAGTTGTAGGGGATAAAGAAAATGTAAATTGTCAAGAAGAAGGCTCAAGCTCAACATCAACAATAATATTTGGAAGTAACTCGGGAGGAAGGAGTGTTGTGCGGCCTATCAAGCTTCCTGAAGTGCAAAAGATCCCGCATTATACTACATGGATCTTTTTGGACAGGAACCAAAGAATGGCTGATGACCAA
TCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATGACACAGTTGAAGAGGAAGATGAGAAGTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAACAGGGGTTATCACAGGCAGTCTTAGATTGCCTTAGTCAATGCCTTGG
AATCAAGCCCAATGAAATTAAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAAATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGATTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCC
GTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATGCCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTCCTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTA
CCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAGCCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAG
TTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGTTAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAG
CGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTGTGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAA
GGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAATTTGCGGTCTGATGGCAATGGAAAGgttgaccgtactgatgctatggc
ctgaacttcctacagGGGACAGAAGCTCGAACAAGAACAAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCAATGTCCCTG
CCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGATGTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCGGTCCACCAC
AGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTTCTCCTAAAGCAGCAGCAGCGAGTACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATTTATGATCGA
GAAGACTCCTCCTTCCTTTTCAACTTGAATGATCAGTACGTTCTTGATGCATATCGAAAGGGAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTATGATTACCG
TTATGAGCCAGATAGGGCACCAGCGTGGGCAAGAAAACCTGAAGGTTTGAATCCAAAGAGGGATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATATACCTTCTC
TAATTGTAACATTCTCCTAATCCATGGGTGCATCATTTGATTTTTGTAACTGATTTTTGTAATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCACTCTTTTTAT
GAGTCAATTTATTTTCATCTATTGAAGAATGCAAAGCTGATTACCTTTTCTTAGACAATTGTCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGAACATTAAGT
GTGTGCTGGTGATGTGCATTCTTTTTAATGCCATTCTGGGGTTGACATATATATGCTGATGTTAATATATGTACTTGCTCATGCTATTTATATATTCCTGTTTAATGTATCTGCATACCTGGAGTGATGCCATGGAAAACATCTTTTGCTCAATATTTTTC
Intron 4 GTAGTACGAT ... TCTTATACAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 25.59 | 81.4 | 2 | 28 |
| A2 | 16.77 | 114.2 | 0 | 23 |
| A3 | 16.86 | 143 | 1 | 29 |
| A4 | 16.28 | 108 | 0 | 21 |
| A5 | 14.58 | 41 | 0 | 7 |
| A6 | 24 | 19 | 0 | 6 |
| A7 | 18.56 | 87.8 | 0 | 20 |
| A8 | 4.17 | 23 | 0 | 1 |
| A9 | 21.15 | 41 | 0 | 11 |
| A10 | 15.48 | 71 | 0 | 13 |
>TRINITY_DN118044_c4_g1_i4 from sample A1 / Example spliced isoformAACAGATATAAATCACTAAGAGAGATAGAATGATGACACAATGCGTATGCATATCTCTCTCACACAGTAGTTGTTGTCAAGAGGCATTCAAAAATTTGCCAGTAAGGTTGTTTCCCACCATTTTAACCTTTCAATTTCAATTTCTATAGGCACACTGTGCAAAGCTGAAGCTATTTTGTCTTTGGTTTTCTTTTTCATTG
GTTGGGCGTGTCCTAGGGTTTCAACCAACCTCCTGTCCCCTTCCGTGCTTGCTCGGGCATGGCCGGACACCTTCCGTCCATGCTCGGCTGAACTCCTTCTGTTCTGTTTAACTACCTTCCCAAATCATGGATCTCAAATACCCATTTTGATCTCGATGAACGATTTTCCGTAATACTCAGATCAAGGCGGTGTGTCGCTT
TCAGGCTTCCCGGCTCATGTGTTACTGGTTTTTTTTGGTTCAGTTTCTAAATGCAAGAGCGCTACTGATGTTAGGCTTAGGGTAGAGAGAAAAGGGATTGCTATTTGCAAGTTAAAATGACTTCCAAAAACATAGGGTCTGTATCTGGCTCAAGGTCCTCTTCCAAACCCGATGCCAAAGATGCACAGGTTAATGAAGAG
GGGGAGCAAGTCAACCAGCCTTCTGGGAGCTTTTCCTCTGCAATATGTCGGGTAAAGGATCAGCTAAAGGATAATAGAAATGCATTTGTAAAGGAGAGAGTTGAGTTAAACAGGAGAAATCTAGAGTCATATACAGATAACCTTCTCATGCTATCAAAGTCGAGGAAAGTGACAACCTCATCAGGGAATAACGGAATGAA
AGACATGTTCACCCAGAGAATTGAGAGAGCACTGTGTAAGTTGAATGGTCTTGATACAGTTGTAGGGGATAAAGAAAATGTAAATTGTCAAGAAGAAGGCTCAAGCTCAACATCAACAATAATATTTGGAAGTAACTCGGGAGGAAGGAGTGTTGTGCGGCCTATCAAGCTTCCTGAAGTGCAAAAGATCCCGCATTATA
CTACATGGATCTTTTTGGACAGGAACCAAAGAATGGCTGATGACCAATCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATGACACAGTTGAAGAGGAAGATGAGAAGTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAA
CAGGGGTTATCACAGGCAGTCTTAGATTGCCTTAGTCAATGCCTTGGAATCAAGCCCAATGAAATTAAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAAATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGA
TTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCCGTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATGCCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTC
CTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAG
CCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGT
TAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTG
TGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAAT
TTGCGGTCTGATGGCAATGGAAAGGGGACAGAAGCTCGAACAAGAACAAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCA
ATGTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGATGTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCG
GTCCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTTCTCCTAAAGCAGCAGCAGCGAGTACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATT
TATGATCGAGAAGACTCCTCCTTCCTTTTCAACTTGAATGATCAGTACGTTCTTGATGCATATCGAAAGGGAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTA
TGATTACCGTTATGAGCCAGATAGGGCACCAGCGTGGGCAAGAAAACCTGAAGGTTTGAATCCAAAGAGGGATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATA
TACCTTCTCTAATTGTAACATTCTCCTAATCCATGGGTGCATCATTTGATTTTTGTAACTGATTTTTGTAATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCAC
TCTTTTTATGAGTCAATTTATTTTCATCTATTGAAGAATGCAAAGCTGATTACCTTTTCTTAGACAATTGTCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGA
ACATTAAGTGTGTGCTGGTGATGTGCATTCTTTTTAATGCCATTCTGGGGTTGACATATATATGCTGATGTTAATATATGTACTTGCTCATGCTATTTATATATTCCTGTTTAATGTATCTGCATACCTGGAGTGATGCCATGGAAAACATCTTTTGCTCAATATTTTTCGTTACATTTCAAATGCTTGCTTGTCTTCAT
TCTGTCAATTGACTCGAAAATATAGTGTTTTATTTCCTTTTCTAAGATGGTGT
>TRINITY_DN118044_c4_g1_i12 from sample A1 / Example unspliced isoform:AATCAAGCCCAATGAAATTAAGgtagtacgatgcccttcattccattgcaataaacaattgttaaattaagatcttgcatttcaattgcggaaattgacactgaagatgtttatccaagcaccgctaattctataatggcattctggtaaatcatgcaatgtgtttccttctgcaaatgagggtgtttcattcattttat
cattgtctaatttgtgggcagtctgtctgcctacaattcttttgttgttaagtagcataatttgagttccttagcttgtgcccattcattctttgctgcctttacagaggtatgaatcaaagtcaaacgtcttatacagGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAA
ATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGATTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCCGTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATG
CCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTCCTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTC
TAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAGCCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGG
ATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGTTAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAG
GCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTGTGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTG
TTCTGAGATAGCTGAATATATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAATTTGCGGTCTGATGGCAATGGAAAGGGGACAGAAGCTCGAACAAGAACAAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAA
TTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCAATGTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGATGTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCT
GCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCGGTCCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTTCTCCTAAAGCAGCAGCAGCGA
Intron 5 GTATGGCATC ... ATTTCTGCAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 24.58 | 89 | 29 | 5 |
| A2 | 22.92 | 74 | 22 | 1 |
| A3 | 15.69 | 86 | 16 | 1 |
| A4 | 18.42 | 62 | 14 | 0 |
| A5 | 22.86 | 27 | 8 | 2 |
| A6 | 10 | 9 | 1 | 0 |
| A7 | 22.54 | 55 | 16 | 0 |
| A8 | 18.75 | 13 | 3 | 0 |
| A9 | 14.29 | 54 | 9 | 0 |
| A10 | 21.05 | 30 | 8 | 0 |
>TRINITY_DN118044_c4_g1_i4 from sample A1 / Example spliced isoformAACAGATATAAATCACTAAGAGAGATAGAATGATGACACAATGCGTATGCATATCTCTCTCACACAGTAGTTGTTGTCAAGAGGCATTCAAAAATTTGCCAGTAAGGTTGTTTCCCACCATTTTAACCTTTCAATTTCAATTTCTATAGGCACACTGTGCAAAGCTGAAGCTATTTTGTCTTTGGTTTTCTTTTTCATTG
GTTGGGCGTGTCCTAGGGTTTCAACCAACCTCCTGTCCCCTTCCGTGCTTGCTCGGGCATGGCCGGACACCTTCCGTCCATGCTCGGCTGAACTCCTTCTGTTCTGTTTAACTACCTTCCCAAATCATGGATCTCAAATACCCATTTTGATCTCGATGAACGATTTTCCGTAATACTCAGATCAAGGCGGTGTGTCGCTT
TCAGGCTTCCCGGCTCATGTGTTACTGGTTTTTTTTGGTTCAGTTTCTAAATGCAAGAGCGCTACTGATGTTAGGCTTAGGGTAGAGAGAAAAGGGATTGCTATTTGCAAGTTAAAATGACTTCCAAAAACATAGGGTCTGTATCTGGCTCAAGGTCCTCTTCCAAACCCGATGCCAAAGATGCACAGGTTAATGAAGAG
GGGGAGCAAGTCAACCAGCCTTCTGGGAGCTTTTCCTCTGCAATATGTCGGGTAAAGGATCAGCTAAAGGATAATAGAAATGCATTTGTAAAGGAGAGAGTTGAGTTAAACAGGAGAAATCTAGAGTCATATACAGATAACCTTCTCATGCTATCAAAGTCGAGGAAAGTGACAACCTCATCAGGGAATAACGGAATGAA
AGACATGTTCACCCAGAGAATTGAGAGAGCACTGTGTAAGTTGAATGGTCTTGATACAGTTGTAGGGGATAAAGAAAATGTAAATTGTCAAGAAGAAGGCTCAAGCTCAACATCAACAATAATATTTGGAAGTAACTCGGGAGGAAGGAGTGTTGTGCGGCCTATCAAGCTTCCTGAAGTGCAAAAGATCCCGCATTATA
CTACATGGATCTTTTTGGACAGGAACCAAAGAATGGCTGATGACCAATCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATGACACAGTTGAAGAGGAAGATGAGAAGTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAA
CAGGGGTTATCACAGGCAGTCTTAGATTGCCTTAGTCAATGCCTTGGAATCAAGCCCAATGAAATTAAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAAATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGA
TTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCCGTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATGCCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTC
CTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAG
CCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGT
TAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTG
TGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAAT
TTGCGGTCTGATGGCAATGGAAAGGGGACAGAAGCTCGAACAAGAACAAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCA
ATGTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGATGTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCG
GTCCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTTCTCCTAAAGCAGCAGCAGCGAGTACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATT
TATGATCGAGAAGACTCCTCCTTCCTTTTCAACTTGAATGATCAGTACGTTCTTGATGCATATCGAAAGGGAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTA
TGATTACCGTTATGAGCCAGATAGGGCACCAGCGTGGGCAAGAAAACCTGAAGGTTTGAATCCAAAGAGGGATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATA
TACCTTCTCTAATTGTAACATTCTCCTAATCCATGGGTGCATCATTTGATTTTTGTAACTGATTTTTGTAATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCAC
TCTTTTTATGAGTCAATTTATTTTCATCTATTGAAGAATGCAAAGCTGATTACCTTTTCTTAGACAATTGTCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGA
ACATTAAGTGTGTGCTGGTGATGTGCATTCTTTTTAATGCCATTCTGGGGTTGACATATATATGCTGATGTTAATATATGTACTTGCTCATGCTATTTATATATTCCTGTTTAATGTATCTGCATACCTGGAGTGATGCCATGGAAAACATCTTTTGCTCAATATTTTTCGTTACATTTCAAATGCTTGCTTGTCTTCAT
TCTGTCAATTGACTCGAAAATATAGTGTTTTATTTCCTTTTCTAAGATGGTGT
>TRINITY_DN118044_c4_g1_i19 from sample A1 / Example unspliced isoform:AACCAAAGAATGGCTGATGACCAATCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATGACACAGTTGAAGAGGAAGATGAGAAGTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAACAGGGGTTATCACAGGCAGTCTT
AGATTGCCTTAGTCAATGCCTTGGAATCAAGCCCAATGAAATTAAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAAATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGATTCCTTTGATAATCTGTTTTGTC
GTCGTTGTCTGgtatggcatcagttatttggtttatacttgtgttacatactagtataagttcttccttacattggagtttgtaattgaagcaattagaaaataactattatattgttacaaacaaggcaattgtaattctatatttcatttctgcagGTATTTGATTGCCGTTTGCATG
Intron 6 GTTGTCTACT ... TCCTTTACAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 21.68 | 87.5 | 6.2 | 24 |
| A2 | 27.17 | 75.7 | 3.8 | 28 |
| A3 | 18.93 | 73.7 | 5 | 17 |
| A4 | 14.2 | 79.5 | 4.2 | 13 |
| A5 | 5.15 | 37.1 | 1 | 2 |
| A6 | 12.95 | 20.4 | 1 | 3 |
| A7 | 11.5 | 38.9 | 2.4 | 5 |
| A8 | 12.48 | 14.4 | 1 | 2 |
| A9 | 4.47 | 24.3 | 2.8 | 1 |
| A10 | 30.91 | 26.8 | 0.3 | 12 |
>TRINITY_DN118044_c4_g1_i4 from sample A1 / Example spliced isoformAACAGATATAAATCACTAAGAGAGATAGAATGATGACACAATGCGTATGCATATCTCTCTCACACAGTAGTTGTTGTCAAGAGGCATTCAAAAATTTGCCAGTAAGGTTGTTTCCCACCATTTTAACCTTTCAATTTCAATTTCTATAGGCACACTGTGCAAAGCTGAAGCTATTTTGTCTTTGGTTTTCTTTTTCATTG
GTTGGGCGTGTCCTAGGGTTTCAACCAACCTCCTGTCCCCTTCCGTGCTTGCTCGGGCATGGCCGGACACCTTCCGTCCATGCTCGGCTGAACTCCTTCTGTTCTGTTTAACTACCTTCCCAAATCATGGATCTCAAATACCCATTTTGATCTCGATGAACGATTTTCCGTAATACTCAGATCAAGGCGGTGTGTCGCTT
TCAGGCTTCCCGGCTCATGTGTTACTGGTTTTTTTTGGTTCAGTTTCTAAATGCAAGAGCGCTACTGATGTTAGGCTTAGGGTAGAGAGAAAAGGGATTGCTATTTGCAAGTTAAAATGACTTCCAAAAACATAGGGTCTGTATCTGGCTCAAGGTCCTCTTCCAAACCCGATGCCAAAGATGCACAGGTTAATGAAGAG
GGGGAGCAAGTCAACCAGCCTTCTGGGAGCTTTTCCTCTGCAATATGTCGGGTAAAGGATCAGCTAAAGGATAATAGAAATGCATTTGTAAAGGAGAGAGTTGAGTTAAACAGGAGAAATCTAGAGTCATATACAGATAACCTTCTCATGCTATCAAAGTCGAGGAAAGTGACAACCTCATCAGGGAATAACGGAATGAA
AGACATGTTCACCCAGAGAATTGAGAGAGCACTGTGTAAGTTGAATGGTCTTGATACAGTTGTAGGGGATAAAGAAAATGTAAATTGTCAAGAAGAAGGCTCAAGCTCAACATCAACAATAATATTTGGAAGTAACTCGGGAGGAAGGAGTGTTGTGCGGCCTATCAAGCTTCCTGAAGTGCAAAAGATCCCGCATTATA
CTACATGGATCTTTTTGGACAGGAACCAAAGAATGGCTGATGACCAATCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATGACACAGTTGAAGAGGAAGATGAGAAGTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAA
CAGGGGTTATCACAGGCAGTCTTAGATTGCCTTAGTCAATGCCTTGGAATCAAGCCCAATGAAATTAAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAAATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGA
TTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCCGTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATGCCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTC
CTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAG
CCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGT
TAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTG
TGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAAT
TTGCGGTCTGATGGCAATGGAAAGGGGACAGAAGCTCGAACAAGAACAAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCA
ATGTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGATGTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCG
GTCCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTTCTCCTAAAGCAGCAGCAGCGAGTACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATT
TATGATCGAGAAGACTCCTCCTTCCTTTTCAACTTGAATGATCAGTACGTTCTTGATGCATATCGAAAGGGAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTA
TGATTACCGTTATGAGCCAGATAGGGCACCAGCGTGGGCAAGAAAACCTGAAGGTTTGAATCCAAAGAGGGATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATA
TACCTTCTCTAATTGTAACATTCTCCTAATCCATGGGTGCATCATTTGATTTTTGTAACTGATTTTTGTAATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCAC
TCTTTTTATGAGTCAATTTATTTTCATCTATTGAAGAATGCAAAGCTGATTACCTTTTCTTAGACAATTGTCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGA
ACATTAAGTGTGTGCTGGTGATGTGCATTCTTTTTAATGCCATTCTGGGGTTGACATATATATGCTGATGTTAATATATGTACTTGCTCATGCTATTTATATATTCCTGTTTAATGTATCTGCATACCTGGAGTGATGCCATGGAAAACATCTTTTGCTCAATATTTTTCGTTACATTTCAAATGCTTGCTTGTCTTCAT
TCTGTCAATTGACTCGAAAATATAGTGTTTTATTTCCTTTTCTAAGATGGTGT
>TRINITY_DN118044_c4_g1_i13 from sample A1 / Example unspliced isoform:GTAGTATTCACTGCTATCGTCTGgttgtctacttgacctatccactttatgattcttttgttttcccattatgaacattactgcaatattatttgatatacctaaattctgtatttaataagccaatgttcacttctattgcattgaactgatgttgatttatatgaatattctgatactcctttacagAGGGCCGCGGA
AGTTGAAGAAACAAGTGGCCCAAATTCACTTCCTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAAT
ATGATGCGGGGAAGGATGGTCCGGAGTTGAAGCCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATT
AACCTGAGATCAAACTCAAAAAAGTCTAATGTTAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGA
TGTGGAGTCTTGTAGAAAGGACTCAATGGTTGTGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAATCCA
CAATACAGTGGGCAGCTGGGGATGGGCCAAATTTGCGGTCTGATGGCAATGGAAAGGTTGACCGTACTGATGCTATGGTTGGTATCCATATGCTAAGTATTCCAATTTTTTATTCTTTCTTGTATATTGCTGTTCAGGTTATATACAATTAACACAATAGGCCTGAACTTCCTACAGGGGACAGAAGCTCGAACAAGAAC
AAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCAATGTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGAT
GTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCGGTCCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTT
CTCCTAAAGCAGCAGCAGCGAGTACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATTTATGATCGAGAAGACTCCTCCTTCCTTTTCAACTTGAATGATCAGTA
CGTTCTTGATGCATATCGAAAGGGAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTATGATTACCGTTATGAGCCAGATAGGGCACCAGCGTGGGCAAGAAAAC
CTGAAGGTTTGAATCCAAAGAGGGATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATATACCTTCTCTAATTGTAACATTCTCCTAATCCATGGGTGCATCATTT
GATTTTTGTAACTGATTTTTGTAATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCACTCTTTTTATGAGTCAATTTATTTTCATCTATTGAAGAATGCAAAGCT
GATTACCTTTTCTTAGACAATTGTCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGAACATTAAGTGTGTGCTGGTGATGTGCATTCTTTTTAATGCCATTCTG
GGGTTGACATATATATGCTGATGTTAATATATGTACTTGCTCATGCTATTTATATATTCCTGTTTAATGTATCTGCATACCTGGAGTGATGCCATGGAAAACATCTTTTGCTCAATATTTTTCGTTACATTTCAAATGCTTGCTTGTCTTCATTCTGTCAATTGACTCGAAAATATAGTGTTTTATTTCCTTTTCTAAGA
TGGTGT
Intron 7 GTTGGTATCC ... CTTCCTACAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 22.58 | 96 | 19 | 37 |
| A2 | 16.6 | 98 | 15 | 24 |
| A3 | 21.79 | 61 | 14 | 20 |
| A4 | 18.6 | 70 | 8 | 24 |
| A5 | 18.31 | 58 | 6 | 20 |
| A6 | 19.15 | 19 | 1 | 8 |
| A7 | 18.88 | 116 | 16 | 38 |
| A8 | 17.65 | 56 | 7 | 17 |
| A9 | 18.84 | 84 | 17 | 22 |
| A10 | 19.53 | 103 | 22 | 28 |
>TRINITY_DN119491_c3_g1_i5 from sample A3 / Example spliced isoformCTAAATTAAAAACTAAATTCCCCAAAATAACATAAATGTAAGGTTTCAGTCAACTCAAAAACCACCAATGGAAAACTAACAGATATAAATCACTAAGAGAGATAGAATGATGACACAATGCGTATGCATATCTCTCTCACACAGTAGTTGTTGTCAAGAGGCATTCAAAAATTTGCCAGTAAGGTTGTTTCCCACCATTT
TAACCTTTCAATTTCAATTTCTATAGGCACACTGTGCAAAGCTGAAGCTATTTTGTCTTTGGTTTTCTTTTTCATTGGTTGGGCGTGTCCTAGGGTTTCAACCAACCTCCTGTCCCCTTCCGTGCTTGCTCGGGCATGGCCGGACACCTTCCGTCCATGCTCGGCTGAACTCCTTCTGTTCTGTTTAACTACCTTCCCAA
ATCATGGATCTCAAATACCCATTTTGATCTCGATGAACGATTTTCCGTAATACTCAGATCAAGGCGGTGTGTCGCTTTCAGGCTTCCCGGCTCATGTGTTACTGGTTTTTTTTGGTTCAGTTTCTAAATGCAAGAGCGCTACTGATGTTAGGCTTAGGGTAGAGAGAAAAGGGATTGCTATTTGCAAGTTAAAATGACTT
CCAAAAACATAGGGTCTGTATCTGGCTCAAGGTCCTCTTCCAAACCCGATGCCAAAGATGCACAGGTTAATGAAGAGGGGGAGCAAGTCAACCAGCCTTCTGGGAGCTTTTCCTCTGCAATATGTCGGGTAAAGGATCAGCTAAAGGATAATAGAAATGCATTTGTAAAGGAGAGAGTTGAGTTAAACAGGAGAAATCTA
GAGTCATATACAGATAACCTTCTCATGCTATCAAAGTCGAGGAAAGTGACAACCTCATCAGGGAATAACGGAATGAAAGACATGTTCACCCAGAGAATTGAGAGAGCACTGTGTAAGTTGAATGGTCTTGATACAGTTGTAGGGGATAAAGAAAATGTAAATTGTCAAGAAGAAGGCTCAAGCTCAACATCAACAATAAT
ATTTGGAAGTAACTCGGGAGGAAGGAGTGTTGTGCGGCCTATCAAGCTTCCTGAAGTGCAAAAGATCCCGCATTATACTACATGGATCTTTTTGGACAGGAACCAAAGAATGGCTGATGACCAATCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATG
ACACAGTTGAAGAGGAAGATGAGAAGTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAACAGGGGTTATCACAGGCAGTCTTAGATTGCCTTAGTCAATGCCTTGGAATCAAGCCCAATGAAATTAAGAGGTATGAATCAAAGTCAAACGTCTTATACAGGCAAGGTATGATTTTCTTATGG
AACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAAATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGATTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCCGTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAG
CAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATGCCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTCCTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTT
GAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAGCCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACT
GTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGTTAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGAT
AACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTGTGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTG
CTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAATTTGCGGTCTGATGGCAATGGAAAGGTTGACCGTACTGATGCTATGGGGACAGAAGCTCGAACAAGAACAAGGCTTTGGCGCAGAAGGGGAA
GGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCAATGTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGATGTTCCAAAGGCTGCAAGAATCGG
TTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCGGTCCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTTCTCCTAAAGCAGCAGCAGCGAGT
ACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATTTATGATCGAGAAGACTCCTCCTTCCTTTTCAACTTGAATGATCAGTACGTTCTTGATGCATATCGAAAGG
GAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTATGATTACCGTTATGAGCCAGATAGGGCACCAGCGTGGGCAAGAAAACCTGAAGGTTTGAATCCAAAGAGG
GATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATATACCTTCTCTAATTGTAACATTCTCCTAATCCATGGGTGCATCATTTGATTTTTGTAACTGATTTTTGTA
ATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCACTCTTTTTATGAGTCAATTTATTTTCATCTATTGAAGAATGCAAAGCTGATTACCTTTTCTTAGACAATTG
TCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGAACATTAAGTGTGTGCTGGTGATGTGCATTCTTTTTAATGCCATTCTGGGGTTGACATATATATGC
>TRINITY_DN119491_c3_g1_i2 from sample A3 / Example unspliced isoform:CTAAATTAAAAACTAAATTCCCCAAAATAACATAAATGTAAGGTTTCAGTCAACTCAAAAACCACCAATGGAAAACTAACAGATATAAATCACTAAGAGAGATAGAATGATGACACAATGCGTATGCATATCTCTCTCACACAGTAGTTGTTGTCAAGAGGCATTCAAAAATTTGCCAGTAAGGTTGTTTCCCACCATTT
TAACCTTTCAATTTCAATTTCTATAGGCACACTGTGCAAAGCTGAAGCTATTTTGTCTTTGGTTTTCTTTTTCATTGGTTGGGCGTGTCCTAGGGTTTCAACCAACCTCCTGTCCCCTTCCGTGCTTGCTCGGGCATGGCCGGACACCTTCCGTCCATGCTCGGCTGAACTCCTTCTGTTCTGTTTAACTACCTTCCCAA
ATCATGGATCTCAAATACCCATTTTGATCTCGATGAACGATTTTCCGTAATACTCAGATCAAGGCGGTGTGTCGCTTTCAGGCTTCCCGGCTCATGTGTTACTGGTTTTTTTTGGTTCAGTTTCTAAATGCAAGAGCGCTACTGATGTTAGGCTTAGGGTAGAGAGAAAAGGGATTGCTATTTGCAAGTTAAAATGACTT
CCAAAAACATAGGGTCTGTATCTGGCTCAAGGTCCTCTTCCAAACCCGATGCCAAAGATGCACAGGTTAATGAAGAGGGGGAGCAAGTCAACCAGCCTTCTGGGAGCTTTTCCTCTGCAATATGTCGGGTAAAGGATCAGCTAAAGGATAATAGAAATGCATTTGTAAAGGAGAGAGTTGAGTTAAACAGGAGAAATCTA
GAGTCATATACAGATAACCTTCTCATGCTATCAAAGTCGAGGAAAGTGACAACCTCATCAGGGAATAACGGAATGAAAGACATGTTCACCCAGAGAATTGAGAGAGCACTGTGTAAGTTGAATGGTCTTGATACAGTTGTAGGGGATAAAGAAAATGTAAATTGTCAAGAAGAAGGCTCAAGCTCAACATCAACAATAAT
ATTTGGAAGTAACTCGGGAGGAAGGAGTGTTGTGCGGCCTATCAAGCTTCCTGAAGTGCAAAAGATCCCGCATTATACTACATGGATCTTTTTGGACAGGAACCAAAGAATGGCTGATGACCAATCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATG
ACACAGTTGAAGAGGAAGATGAGAAGTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAACAGGGGTTATCACAGGCAGTCTTAGATTGCCTTAGTCAATGCCTTGGAATCAAGCCCAATGAAATTAAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTT
GGAGGAAATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGATTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCCGTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTG
TAACATGCCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTCCTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTG
GCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAGCCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCA
AACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGTTAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGA
TACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTGTGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCA
AGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAATTTGCGGTCTGATGGCAATGGAAAGGTTGACCGTACTGATGCTATGgttggtatccatatgctaagtattccaattttttattctttcttgtatattgctgttcaggttatatacaattaacac
aataggcctgaacttcctacagGGGACAGAAGCTCGAACAAGAACAAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCAAT
GTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGATGTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCGGT
CCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTTCTCCTAAAGCAGCAGCAGCGAGTACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATTTA
TGATCGAGAAGACTCCTCCTTCCTTTTCAACTTGAATGATCAGTACGTTCTTGATGCATATCGAAAGGGAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTATG
ATTACCGTTATGAGCCAGATAGGGCACCAGCGTGGGCAAGAAAACCTGAAGGTTTGAATCCAAAGAGGGATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATATA
CCTTCTCTAATTGTAACATTCTCCTAATCCATGGGTGCATCATTTGATTTTTGTAACTGATTTTTGTAATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCACTC
TTTTTATGAGTCAATTTATTTTCATCTATTGAAGAATGCAAAGCTGATTACCTTTTCTTAGACAATTGTCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGAAC
ATTAAGTGTGTGCTGGTGATGTGCATTCTTTTTAATGCCATTCTGGGGTTGACATATATATGC
Intron 8 GTAGTACGAT ... GCCTTTACAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 20.93 | 34 | 2 | 9 |
| A2 | 14.04 | 49 | 0 | 8 |
| A3 | 3.23 | 60 | 1 | 2 |
| A4 | 0 | 49 | 0 | 0 |
| A5 | 16.67 | 15 | 0 | 3 |
| A6 | 0 | 6 | 0 | 0 |
| A7 | 19.44 | 29 | 0 | 7 |
| A8 | 0 | 13 | 0 | 0 |
| A9 | 7.69 | 12 | 0 | 1 |
| A10 | 13.04 | 20 | 0 | 3 |
>TRINITY_DN118044_c4_g1_i5 from sample A1 / Example spliced isoformAACAGATATAAATCACTAAGAGAGATAGAATGATGACACAATGCGTATGCATATCTCTCTCACACAGTAGTTGTTGTCAAGAGGCATTCAAAAATTTGCCAGTAAGGTTGTTTCCCACCATTTTAACCTTTCAATTTCAATTTCTATAGGCACACTGTGCAAAGCTGAAGCTATTTTGTCTTTGGTTTTCTTTTTCATTG
GTTGGGCGTGTCCTAGGGTTTCAACCAACCTCCTGTCCCCTTCCGTGCTTGCTCGGGCATGGCCGGACACCTTCCGTCCATGCTCGGCTGAACTCCTTCTGTTCTGTTTAACTACCTTCCCAAATCATGGATCTCAAATACCCATTTTGATCTCGATGAACGATTTTCCGTAATACTCAGATCAAGGCGGTGTGTCGCTT
TCAGGCTTCCCGGCTCATGTGTTACTGGTTTTTTTTGGTTCAGTTTCTAAATGCAAGAGCGCTACTGATGTTAGGCTTAGGGTAGAGAGAAAAGGGATTGCTATTTGCAAGTTAAAATGACTTCCAAAAACATAGGGTCTGTATCTGGCTCAAGGTCCTCTTCCAAACCCGATGCCAAAGATGCACAGGTTAATGAAGAG
GGGGAGCAAGTCAACCAGCCTTCTGGGAGCTTTTCCTCTGCAATATGTCGGGTAAAGGATCAGCTAAAGGATAATAGAAATGCATTTGTAAAGGAGAGAGTTGAGTTAAACAGGAGAAATCTAGAGTCATATACAGATAACCTTCTCATGCTATCAAAGTCGAGGAAAGTGACAACCTCATCAGGGAATAACGGAATGAA
AGACATGTTCACCCAGAGAATTGAGAGAGCACTGTGTAAGTTGAATGGTCTTGATACAGTTGTAGGGGATAAAGAAAATGTAAATTGTCAAGAAGAAGGCTCAAGCTCAACATCAACAATAATATTTGGAAGTAACTCGGGAGGAAGGAGTGTTGTGCGGCCTATCAAGCTTCCTGAAGTGCAAAAGATCCCGCATTATA
CTACATGGATCTTTTTGGACAGGAACCAAAGAATGGCTGATGACCAATCTGTCCTTGGAAGAAGACGAATTTACTATGATCAAAATGGTAGTGAAGCACTAATTTGCAGTGATAGTGAGGATGACACAGTTGAAGAGGAAGATGAGAAGTATGAGTTTGGTGAAGGAGATGATGAGCTTTTGCGGATAATGATTCAGGAA
CAGGGGTTATCACAGGCAGTCTTAGATTGCCTTAGTCAATGCCTTGGAATCAAGCCCAATGAAATTAAGAGGTATGAATCAAAGTCAAACGTCTTATACAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAAATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATA
TTTCTTGGAAAAGATCTTGATGCAGCTATGGATTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCCGTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATGCCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGA
AGTTGAAGAAACAAGTGGCCCAAATTCACTTCCTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTCTAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAAT
ATGATGCGGGGAAGGATGGTCCGGAGTTGAAGCCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGGATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATT
AACCTGAGATCAAACTCAAAAAAGTCTAATGTTAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAGGCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGA
TGTGGAGTCTTGTAGAAAGGACTCAATGGTTGTGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTGTTCTGAGATAGCTGAATATATCCATCGCAATGAATCCA
CAATACAGTGGGCAGCTGGGGATGGGCCAAATTTGCGGTCTGATGGCAATGGAAAGGTTGACCGTACTGATGCTATGGTTGGTATCCATATGCTAAGTATTCCAATTTTTTATTCTTTCTTGTATATTGCTGTTCAGGTTATATACAATTAACACAATAGGCCTGAACTTCCTACAGGGGACAGAAGCTCGAACAAGAAC
AAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAATTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCAATGTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGAT
GTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCTGCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCGGTCCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTT
CTCCTAAAGCAGCAGCAGCGAGTACTGCTTGGAAAGTCAGATGTTTCTGGATGGGGAGCATTTTTAAAGAACCCTGTCAACAAGCATGATTACCTTGGGGAGTATACTGGTGAATTGATTTCACATCGAGAAGCTGATAAGCGAGGAAAGATTTATGATCGAGAAGACTCCTCCTTCCTTTTCAACTTGAATGATCAGTA
CGTTCTTGATGCATATCGAAAGGGAGATAAGTTGAAGTTTGCAAATCATTCACCAACACCAAATTGCTATGCAAAGGTGATCATGGTTGCCGGTGATCATAGAGTGGGTATTTTTGCAAAGGAACGCATTGCACCTGGCGAGGAGCTTTTCTATGATTACCGTTATGAGCCAGATAGGGCACCAGCGTGGGCAAGAAAAC
CTGAAGGTTTGAATCCAAAGAGGGATGAAACATCAACATCTCATCGTCGGGCTCAGAAGGTTGCTTGATAATTCTTTCCAATGATAGGAATCATTGGACCTGATTGTAGAAGAGCATATAAAAATGCATTGTATTCTTTTCACGAAGGTCATATACCTTCTCTAATTGTAACATTCTCCTAATCCATGGGTGCATCATTT
GATTTTTGTAACTGATTTTTGTAATCTTATCACCCCTGAATATGGGGATGATTGAATGATATCCTCCAGATCACAAGGCACAGAAGAAGTGTTTTGTGGTAGTGTATCTTGGATATCATACAAGTTCGGATATACAAATTAAAAAGGGGTCACTCTTTTTATGAGTCAATTTATTTTCATCTATTGAAGAATGCAAAGCT
GATTACCTTTTCTTAGACAATTGTCCTTTAGTCTGAAAAACCCCACTTTAGGAGGAACCTTTTTTCCACCTCTGGCACTGAGTGGAGTCCATAAATCTTTGGAGACTTGTCTGTGATCATTGGCAAAAGGGACTTGGTTTTACAACCGCTTGAACATTAAGTGTGTGCTGGTGATGTGCATTCTTTTTAATGCCATTCTG
GGGTTGACATATATATGCTGATGTTAATATATGTACTTGCTCATGCTATTTATATATTCCTGTTTAATGTATCTGCATACCTGGAGTGATGCCATGGAAAACATCTTTTGCTCAATATTTTTCGTTACATTTCAAATGCTTGCTTGTCTTCATTCTGTCAATTGACTCGAAAATATAGTGTTTTATTTCCTTTTCTAAGA
TGGTGT
>TRINITY_DN118044_c4_g1_i12 from sample A1 / Example unspliced isoform:AATCAAGCCCAATGAAATTAAGgtagtacgatgcccttcattccattgcaataaacaattgttaaattaagatcttgcatttcaattgcggaaattgacactgaagatgtttatccaagcaccgctaattctataatggcattctggtaaatcatgcaatgtgtttccttctgcaaatgagggtgtttcattcattttat
cattgtctaatttgtgggcagtctgtctgcctacaattcttttgttgttaagtagcataatttgagttccttagcttgtgcccattcattctttgctgcctttacagAGGTATGAATCAAAGTCAAACGTCTTATACAGGCAAGGTATGATTTTCTTATGGAACAAGATCCTCAAAAAGAATCTGCTGAGCTTGGAGGAA
ATGGATCTGGTGTTGAAAATTTAGCCTCGGGCGATATATTTCTTGGAAAAGATCTTGATGCAGCTATGGATTCCTTTGATAATCTGTTTTGTCGTCGTTGTCTGGTATTTGATTGCCGTTTGCATGGTTGTTCTCAGTCTCTTGTTTTCCCTTGTGAAAAGCAATCACCATGGGTTCCTCCAGAAGAGGAGTGTAACATG
CCGTGTAGTATTCACTGCTATCGTCTGAGGGCCGCGGAAGTTGAAGAAACAAGTGGCCCAAATTCACTTCCTGACATTTGTGAGGTAAAGCCTGTTCTTTCTACAAGCAATGATGTACCTAAGATATGCTCCCGAAGGAAAGGTTCAACTGGTGGTGCTTTGAGAGCACCAAAAGCTCTTCAGACTGAAAGTGGCTGTTC
TAATGAAAAGCCAGTGATTGAGAGCAGTTGTGGTGAATATGATGCGGGGAAGGATGGTCCGGAGTTGAAGCCTGAACCCTCACAGAAGGGTAAACGGAGGGGAAAACCTGCAGGGAGTTCAAAGAAAAATAACAAAAGGAGTGCTGAACACGTTTTAGACTGTATGAGGAAAAGGCAAAAAAGAATGGCTTCAAACATGG
ATGTCGTTGCTATTGGAGTTACTTCACCAGTAGATATTAACCTGAGATCAAACTCAAAAAAGTCTAATGTTAAAACATCGGGAGCACCACAGAAGAAGAACAACAAGACATCCACAGCGAAGAAGTTTTCGAGAAAAAAGAATTCAACTGTAAAAGAGGATAACAATGCAGAAGATATGGAGCTTGAGGATGATACGAAG
GCTGACATCGAAAGTGTTTTAACTAAAATGGAAGAAGATGTGGAGTCTTGTAGAAAGGACTCAATGGTTGTGACATGTTCCAAACAAGATGATTGTGGCTGGAGTGCAATCGAGAAAGGTTTATATGCAAAAGGTGTAGAGATCTTTGGACAGAACAGCTGCTTTATAGCACGCAACTTATTGAATGGTCTCAAGACGTG
TTCTGAGATAGCTGAATATATCCATCGCAATGAATCCACAATACAGTGGGCAGCTGGGGATGGGCCAAATTTGCGGTCTGATGGCAATGGAAAGGGGACAGAAGCTCGAACAAGAACAAGGCTTTGGCGCAGAAGGGGAAGGGTGCGGAGGCTGAAGTACACTTGGAAGTCTGCTGGTCATCCCTCAATAAAAAAACGAA
TTGCTGATAGCAAAGATCAGCCATGTAGGCAATATACACCATGTGACTGTCAATCCATGTGTGGAAAGCAATGTCCCTGCCTACGTAGCGGGACTTGTTGTGAGAAATACTGTGGATGTTCCAAAGGCTGCAAGAATCGGTTCCGAGGCTGTCATTGTGCGAAGAGTCAATGTCGAAGTCGACAATGCCCTTGCTTTGCT
GCTGGCCGTGAATGTGATCCAGATGTTTGTCGGAACTGTTGGGTTGGTTGTGGAGATGGCACTTTGGGCGGTCCACCACAGAGAGGTGATAACTATGAATGCAGAAATATGAAGCTTCTCCTAAAGCAGCAGCAGCGA