sp|Q04996|HAT31_ARATH ----> Homeobox protein HAT3.1
Intron 1 GTGAGTTCCC ... TAAGTTTTAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 29.09 | 39 | 8 | 24 |
| A2 | 27.27 | 28 | 11 | 10 |
| A3 | 26.83 | 30 | 11 | 11 |
| A4 | 31.03 | 30 | 12 | 15 |
| A5 | 33.33 | 20 | 11 | 9 |
| A6 | 33.33 | 8 | 4 | 4 |
| A7 | 14.69 | 61 | 11 | 10 |
| A8 | 24.44 | 34 | 7 | 15 |
| A9 | 15.79 | 40 | 3 | 12 |
| A10 | 10.59 | 38 | 4 | 5 |
>TRINITY_DN104820_c0_g3_i6 from sample A4 / Example spliced isoformCTTGGAACCTTAGCCATGTTTGTGCTTTGGGCTCGGTCGATTTTATTTTTTATATATAAAACAGACCGCATTTGGCTGTCCTGGCTAACGTTGGCGGGCAGGCAAGGTCGTCTGCATACATTCACTATCTCGACTGCGCACAACTCCGAGGCGTTATCAGCCGCCGCATCATCATCAGTCAATCAATAATGGTGATACGT
TTCCTTTACTAAAATAACAAACAATTGAGAGGGAATTGGTTGCAGATGAATAGTGGACAGTCTTGAAGTAAACCTGAGTTACGACCTTTCATATAGAAAAATGGTAAGAAATAGGGGTCAGAAGGCTACTAATGGCCCAAAGAAGGATACAAAGAAAGTTGAGAACTCAAATCAACAATCTAACTTGGCGAATGGAGAGG
CCTCTGGGACATCAGCGACTATGAGTCACTCAAAGAGCAAGAGCTCTGGTTCATCATCCCACCACTTGGCACAGGCGAGGATAAACTCTCAGAAATCTGAGATTCAAGAAAGTGTGTCAAATGGAGAGGAAAATGAGTCTACAGCAGCTCCTGCAACTGGAGACAATCACGTTGAGTCAGATAAGCCTGAATTGCAAATG
AATGTGGACAAAAAAACTAGCAGGTCTGCTACCAAAGTTGGCAAGAGTACATCTGCAGCTGGGAAAAAATACATATTGAGGTCATTGTCCAATAGTGTCCGGGTTCTTAGATCAAGAGAAAATAAAACCCCAAAGGCTCTTCCTAAAACTGAAATCCATTCCATGGAAATTAGTGCAGAGCAAAGCAAACAAAAGCGAAA
AAAGCACAAGAAGAAAATAAATGTTGTACAGGACGAACTCTCTCGAACCAGAAAGCGCATAAAATATTTATTGCTTCGAATTGGTTTTGAGCAGAACATGATTGATGCATATTCTAGTGAAGGATGGAAAGGGCAAAGTCAAGAAAAGATTAGGCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCA
AGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATATCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGC
CTGGAACCTCCTTTGGAAACTGCAAATATTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGTCGGAGATGAGAACCCCTTTGATTTGGA
AGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACAGCTCTGAGGTTTCCTCAGAAGACAACT
CGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAGAAGCTTCATGATTCAAGAAAAGATTAG
GCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCAAGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATA
TCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGCCTGGAACCTCCTTTGGAAACTGCAAATAGTAATCTTTTAGCTCTAGTCTTATCTTGTAACTTGTTGGGTTGATCTTGAAAATTAATATGGCAGAAAAGTTGAAACTGATTTTTTATGGAGTTTTTATTGTTTTCACTGAAATTTACATTCAGT
GTGGACTTCTCTATTCCAGTTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGGTTAATGCACTTTATGTGCAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGTCGGAGATGAGAACCC
CTTTGATTTGGAAGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACAGCTCTGAGGTTTCCT
CAGAAGACAACTCGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAGAAGCTTCATGATGAG
ATGTTTGGACATGCTGCTTCTGATGAAGAGAGTATGAGTGAAGATGATGAAGAGTGGGGACCTAGAAAGCGGCTGAGAAAAGGGAAGCAATTCGATACGGAACAAGATGTTTCTAGTGAGCCAGAATTAATGCAGCTCAATAAAGTCTCAGTGCTGAAGAAAAAAGGGAAGGGACACGATGCCAACTCCCCAGAAGATAC
CAAACTATCAAAGTTGAATTTATGGAGAAAAGATGATGTCAAGAAAGAAAATGAAGACTGCAAAATTAAAAAGAAAGCGAAGAAGAATGAAGAAGGTGGTCCTCAAGAAGATGTTGCTCCATCAGAATTTAAGGCATCCGCAAAAGAAAATATTAGTCAGCAGGAGCTACTTGGAAGTCCACCAGTTTCAGCAAAGCAAA
A
>TRINITY_DN104820_c0_g3_i3 from sample A4 / Example unspliced isoform:CTTGGAACCTTAGCCATGTTTGTGCTTTGGGCTCGGTCGATTTTATTTTTTATATATAAAACAGACCGCATTTGGCTGTCCTGGCTAACGTTGGCGGGCAGGCAAGGTCGTCTGCATACATTCACTATCTCGACTGCGCACAACTCCGAGGCGTTATCAGCCGCCGCATCATCATCAGTCAATCAATAATGGTGATACGT
TTCCTTTACTAAAATAACAAACAATTGAGAGGGAATTGGTTGCAGATGAATAGTGGACAGTCTTGAAGTAAACCTGAGTTACGACCTTTCATATAGAAAAATGGTAAGAAATAGGGGTCAGAAGGCTACTAATGGCCCAAAGAAGGATACAAAGAAAGTTGAGAACTCAAATCAACAATCTAACTTGGCGAATGGAGAGG
CCTCTGGGACATCAGCGACTATGAGTCACTCAAAGAGCAAGAGCTCTGGTTCATCATCCCACCACTTGGCACAGGCGAGGATAAACTCTCAGAAATCTGAGATTCAAGAAAGTGTGTCAAATGGAGAGGAAAATGAGTCTACAGCAGCTCCTGCAACTGGAGACAATCACGTTGAGTCAGATAAGCCTGAATTGCAAATG
AATGTGGACAAAAAAACTAGCAGGTCTGCTACCAAAGTTGGCAAGAGTACATCTGCAGCTGGGAAAAAATACATATTGAGGTCATTGTCCAATAGTGTCCGGGTTCTTAGATCAAGAGAAAATAAAACCCCAAAGGCTCTTCCTAAAACTGAAATCCATTCCATGGAAATTAGTGCAGAGCAAAGCAAACAAAAGCGAAA
AAAGCACAAGAAGAAAATAAATGTTGTACAGGACGAACTCTCTCGAACCAGAAAGCGCATAAAATATTTATTGCTTCGAATTGGTTTTGAGCAGAACATGATTGATGCATATTCTAGTGAAGGATGGAAAGGGCAAAGTCAAGAAAAGATTAGGCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCA
AGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATATCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGC
CTGGAACCTCCTTTGGAAACTGCAAATATTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGTCGGAGATGAGAACCCCTTTGATTTGGA
AGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACAGCTCTGAGGTTTCCTCAGAAGACAACT
CGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAGAAGCTTCATGATTCAAGAAAAGATTAG
GCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCAAGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATA
TCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGCCTGGAACCTCCTTTGGAAACTGCAAATAGTAATCTTTTAGCTCTAGTCTTATCTTGTAACTTGTTGGGTTGATCTTGAAAATTAATATGGCAGAAAAGTTGAAACTGATTTTTTATGGAGTTTTTATTGTTTTCACTGAAATTTACATTCAGT
GTGGACTTCTCTATTCCAGTTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGgtgagttcccaatagatttgaatagaaaaccttgaatggaatttcagttcagaaaagtgagaggtatg
tattttagcagttgtaaatttgcctcatgctaaatttctatttaaagatctatcttgtgttccaattggcattgcacagacagtgttatgtttttgcactttccatttaagcgaagcaaatttctgagttttagttttaagttttagGTTAATGCACTTTATGTGCAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGT
CGGAGATGAGAACCCCTTTGATTTGGAAGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACA
GCTCTGAGGTTTCCTCAGAAGACAACTCGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAG
AAGCTTCATGATGAGATGTTTGGACATGCTGCTTCTGATGAAGAGAGTATGAGTGAAGATGATGAAGAGTGGGGACCTAGAAAGCGGCTGAGAAAAGGGAAGCAATTCGATACGGAACAAGATGTTTCTAGTGAGCCAGAATTAATGCAGCTCAATAAAGTCTCAGTGCTGAAGAAAAAAGGGAAGGGACACGATGCCAA
CTCCCCAGAAGATACCAAACTATCAAAGTTGAATTTATGGAGAAAAGATGATGTCAAGAAAGAAAATGAAGACTGCAAAATTAAAAAGAAAGCGAAGAAGAATGAAGAAGGTGGTCCTCAAGAAGATGTTGCTCCATCAGAATTTAAGGCATCCGCAAAAGAAAATATTAGTCAGCAGGAGCTACTTGGAAGTCCACCAG
TTTCAGCAAAGCAAAA
Intron 2 GTCATTGTCC ... AAGGGCAAAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 75.93 | 29 | 100 | 83 |
| A2 | 75.88 | 24 | 89 | 62 |
| A3 | 75.81 | 26 | 97 | 66 |
| A4 | 68.42 | 18 | 46 | 32 |
| A5 | 83.33 | 2 | 15 | 5 |
| A6 | 86.67 | 1 | 8 | 5 |
| A7 | 77.22 | 18 | 65 | 57 |
| A8 | 81.82 | 6 | 37 | 17 |
| A9 | 80.45 | 13 | 48 | 59 |
| A10 | 89.47 | 9 | 99 | 54 |
>TRINITY_DN115215_c1_g2_i5 from sample A2 / Example spliced isoformCATGTTTGTTGACCATTGATATCAAGTAGTGGATGTGGATGGCAGGTGATACGTTTCCTTTACTAAAATAACAAACAATTGAGAGGGAATTGGTTGCAGATGAATAGTGGACAGTCTTGAAGTAAACCTGAGTTACGACCTTTCATATAGAAAAATGGTAAGAAATAGGGGTCAGAAGGCTACTAATGGCCCAAAGAAGG
ATACAAAGAAAGTTGAGAACTCAAATCAACAATCTAACTTGGCGAATGGAGAGGCCTCTGGGACATCAGTGACTATGAGTCACTCAAAGAGCAAGAGCTCTGGTTCATCATCCCACCACTTGGCACAGGCGAGGATAAACTCTCAGAAATCTGAGATTCAAGAAAGTGTGTCAAATGGAGAGGAAAATGAGTCTACAGCA
GCTCCTGCAACTGGAGACAATCACGTTGAGTCAGATAAGCCTGAATTGCAAATGAATGTGGACAAAAAAAACTAGCAGGTCTGCTACCAAAGTTGGCAAGAGTACATCTGCAGCTGGGAAAAAATACATATTGAGTCAAGAAAAGATTAGGCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCAAGC
TTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATATCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGCCTG
GAACCTCCTTTGGAAACTGCAAATATTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGTCGGAGATGAGAACCCCTTTGATTTGGAAGG
CATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACAGCTCTGAGGTTTCCTCAGAAGACAACTCGA
AGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAGAAGCTTCATGATGAGATGTTTGGACATGCT
GCTTCTGATGAAGAGAGTATGAGTGAAGATGATGAAGAGTGGGGACCTAGAAAGCGGCTGAGAAAAGGGAAGCAATTCGATACGGAACAAGATGTTTCTAGTGAGCCAGAATTAATGCAGCTCAATAAAGTCTCAGTGCTGAAGAAAAAAGGGAAGGGACACGATGCCAACTCCCCAGAAGATACCAAACTATCAAAGTT
GAATTTATGGAGAAAAGATGATGTCAAGAAAGAAAATGAAGACTGCAAAATTAAAAAGAAAGCGAAGAAGAATGAAGAAGGTGGTCCTCAAGAAGATGTTGCTCCATCAGAATTTAAGGCATCCGCAAAAGAAAATATTAGTCAGCAGGAGCTACTTGGAAGTCCACCAGTTTCAGCAAAGCAAAAAGGATTTTCTAGGT
TACCTACTCCTGCAATTGAGAAGTTTCGTGTAGTTTTTGGTGAGAATCACTTTCCATCGCGGTTTATAAAGGAGGGTTTAGCAAAGGAATTTGACATCTCCTTCAAGCAGGTAGACAAATGGTTTGACAATGCACGCCATTTTGCTCGTCATCAAGATAGAAGGAAACAAGCAGATAATTCTGATGGTTCTAATGAGTCA
GCTTCTATAATTAAAGACGACAATATTAAATCAGAAAAAGTGAGGGTGCCAGGCAGTGCAGGGAAAAGGAACAAGGATACGGAAATTGTGCCATCTGCTGAAAGAGGAAAGAGAAAGGGTGGGGAAAAGCATGGTATCAAAGACTTGAAAACCCCAGCCAGTTCTGGTGATAAAGCAAAACGGCAACATCGAAGAAACTA
GTGCCTGTGAAATTTCAGCATTTTTCCTGTCAGTTACAAGCTGTGTATCACACGACATTGGCCATTGTGAATGCAATAAGTGGAGATCAATTGTTTCGAATTCAAATGTTCTCACCAGTTGGTTGAATAAGCAATCGCGAGGCGTCATTGCCAATTATGTACAGGTTGCCTGTTCCAGTTTTCAAATGAGTACACATTGT
TCTCTATCAATTTTCAAATATTTAAATCCTTTCTTTCGTCCAGTTGTTTTTTTCATTTGGCAGGATTATTGTGTCAAAATTATCTAAAACCTTTCTAAATGTACTTTTACCTCAAGTAGACAAATATCATCTCAGATTTCTTTTTCTCAAGGTGCCAGATATTGAGCATGGATTACAAAGAAAATTCAACTGTTTTTTGG
AATTCTATGCTGATTATTTTTGACAGATCCAAGTAGTAGCACATTTGGTCCGGATTTACTGCAAACTAGTGACAGCCGGGGAAATCTGAGCAAGGAAACATTATCTGTGAAATGTCTCCCTGGTCTGTATGGATACTCCGCTCTGAAAGTACTTAGAATAATAAGATCCCAACACTCGGTGCAGTTCTCCAAAACCCTGA
GTAAGCTGTTAGGATGGTGCAGCAGGGCGGGGAAGATTTAGAGGCACAATAGATGCATATCCTTCACTAGTCACGAGAACACAAAGGAAAATGAGCTGCTGCACATTATTTTCACTTTATTTAGGAATTGCGTTTCTATTACTTCCATATGTTCTCATATTTTAGTGGGGGGCATGCAGGGAGTGACTGGGTACGATCTA
ATTGTACTGTATACGTATTTGTTTAATGCTGAGGCAAATGTACCTTTAGCCGTACAACTCAGAAATGAACTATTTCTTTTCAAGACTGCTGTTAATGGCTGCTCAGTGCTCAGTATTCTTTATTTATCCCAGCAATTTTATAGTATTGAAAGCTTCAAAAAAA
>TRINITY_DN115215_c1_g2_i6 from sample A2 / Example unspliced isoform:CATGTTTGTTGACCATTGATATCAAGTAGTGGATGTGGATGGCAGGTGATACGTTTCCTTTACTAAAATAACAAACAATTGAGAGGGAATTGGTTGCAGATGAATAGTGGACAGTCTTGAAGTAAACCTGAGTTACGACCTTTCATATAGAAAAATGGTAAGAAATAGGGGTCAGAAGGCTACTAATGGCCCAAAGAAGG
ATACAAAGAAAGTTGAGAACTCAAATCAACAATCTAACTTGGCGAATGGAGAGGCCTCTGGGACATCAGTGACTATGAGTCACTCAAAGAGCAAGAGCTCTGGTTCATCATCCCACCACTTGGCACAGGCGAGGATAAACTCTCAGAAATCTGAGATTCAAGAAAGTGTGTCAAATGGAGAGGAAAATGAGTCTACAGCA
GCTCCTGCAACTGGAGACAATCACGTTGAGTCAGATAAGCCTGAATTGCAAATGAATGTGGACAAAAAAACTAGCAGGTCTGCTACCAAAGTTGGCAAGAGTACATCTGCAGCTGGGAAAAAATACATATTGAGgtcattgtccaatagtgtccgggttcttagatcaagagaaaataaaaccccaaaggctcttcctaa
aactgaaatccattccatggaaattagtgcagagcaaagcaaacaaaagcgaaaaaagcacaagaagaaaataaatgttgtacaggacgaactctctcgaaccagaaagcgcataaaatatttattgcttcgaattggttttgagcagaacatgattgatgcatattctagtgaaggatggaaagggcaaagTCAAGAAA
AGATTAGGCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCAAGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGAT
AATGATATCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGCCTGGAACCTCCTTTGGAAACTGCAAATATTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGAAAGT
TTTTGCTGAGGCAGTTGTAAGCACAGTCGGAGATGAGAACCCCTTTGATTTGGAAGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTG
ATGATGAAGGTTCTGAAAGTGATGACAGCTCTGAGGTTTCCTCAGAAGACAACTCGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAA
AGGCATCGTCAAGACATCGACTACAAGAAGCTTCATGATGAGATGTTTGGACATGCTGCTTCTGATGAAGAGAGTATGAGTGAAGATGATGAAGAGTGGGGACCTAGAAAGCGGCTGAGAAAAGGGAAGCAATTCGATACGGAACAAGATGTTTCTAGTGAGCCAGAATTAATGCAGCTCAATAAAGTCTCAGTGCTGAA
GAAAAAAGGGAAGGGACACGATGCCAACTCCCCAGAAGATACCAAACTATCAAAGTTGAATTTATGGAGAAAAGATGATGTCAAGAAAGAAAATGAAGACTGCAAAATTAAAAAGAAAGCGAAGAAGAATGAAGAAGGTGGTCCTCAAGAAGATGTTGCTCCATCAGAATTTAAGGCATCCGCAAAAGAAAATATTAGTC
AGCAGGAGCTACTTGGAAGTCCACCAGTTTCAGCAAAGCAAAAAGGATTTTCTAGGTTACCTACTCCTGCAATTGAGAAGTTTCGTGTAGTTTTTGGTGAGAATCACTTTCCATCGCGGTTTATAAAGGAGGGTTTAGCAAAGGAATTTGACATCTCCTTCAAGCAGGTAGACAAATGGTTTGACAATGCACGCCATTTT
GCTCGTCATCAAGATAGAAGGAAACAAGCAGATAATTCTGATGGTTCTAATGAGTCAGCTTCTATAATTAAAGACGACAATATTAAATCAGAAAAAGTGAGGGTGCCAGGCAGTGCAGGGAAAAGGAACAAGGATACGGAAATTGTGCCATCTGCTGAAAGAGGAAAGAGAAAGGGTGGGGAAAAGCATGGTATCAAAGA
CTTGAAAACCCCAGCCAGTTCTGGTGATAAAGCAAAACGGCAACATCGAAGAAACTAGTGCCTGTGAAATTTCAGCATTTTTCCTGTCAGTTACAAGCTGTGTATCACACGACATTGGCCATTGTGAATGCAATAAGTGGAGATCAATTGTTTCGAATTCAAATGTTCTCACCAGTTGGTTGAATAAGCAATCGCGAGGC
GTCATTGCCAATTATGTACAGGTTGCCTGTTCCAGTTTTCAAATGAGTACACATTGTTCTCTATCAATTTTCAAATATTTAAATCCTTTCTTTCGTCCAGTTGTTTTTTTCATTTGGCAGGATTATTGTGTCAAAATTATCTAAAACCTTTCTAAATGTACTTTTACCTCAAGTAGACAAATATCATCTCAGATTTCTTT
TTCTCAAGGTGCCAGATATTGAGCATGGATTACAAAGAAAATTCAACTGTTTTTTGGAATTCTATGCTGATTATTTTTGACAGATCCAAGTAGTAGCACATTTGGTCCGGATTTACTGCAAACTAGTGACAGCCGGGGAAATCTGAGCAAGGAAACATTATCTGTGAAATGTCTCCCTGGTCTGTATGGATACTCCGCTC
TGAAAGTACTTAGAATAATAAGATCCCAACACTCGGTGCAGTTCTCCAAAACCCTGAGTAAGCTGTTAGGATGGTGCAGCAGGGCGGGGAAGATTTAGAGGCACAATAGATGCATATCCTTCACTAGTCACGAGAACACAAAGGAAAATGAGCTGCTGCACATTATTTTCACTTTATTTAGGAATTGCGTTTCTATTACT
TCCATATGTTCTCATATTTTAGTGGGGGGCATGCAGGGAGTGACTGGGTACGATCTAATTGTACTGTATACGTATTTGTTTAATGCTGAGGCAAATGTACCTTTAGCCGTACAACTCAGAAATGAACTATTTCTTTTCAAGACTGCTGTTAATGGCTGCTCAGTGCTCAGTATTCTTTATTTATCCCAGCAATTTTATAG
TATTGAAAGCTTCAAAAAAA
Intron 3 GTGATACGTT ... AAGGGCAAAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 71.3 | 33 | 81 | 83 |
| A2 | 69.03 | 24 | 45 | 62 |
| A3 | 66.67 | 34 | 70 | 66 |
| A4 | 70 | 15 | 38 | 32 |
| A5 | 67.21 | 10 | 36 | 5 |
| A6 | 57.89 | 4 | 6 | 5 |
| A7 | 70.61 | 19.2 | 35 | 57 |
| A8 | 74.19 | 8 | 29 | 17 |
| A9 | 75.36 | 17 | 45 | 59 |
| A10 | 80 | 12 | 42 | 54 |
>TRINITY_DN115215_c1_g2_i3 from sample A2 / Example spliced isoformGTGACAGTGGGGTTGGGGAATACTTGGAACCTTAGCCATGTTTGTGCTTTGGGCTCGGTCGATTTTATTTTTTATATATAAAACAGACCGCATTTGGCTGTCCTGGCTAACGTTGGCGGGCAGGCAAGGTCGTCTGCATACATTCACTATCTCGACTGCGCACAACTCCGAGGCGTTATCAGCCGCCGCATCATCATCAG
TCAATCAATAATGTCAAGAAAAGATTAGGCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCAAGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGG
TCAAAAGACTTGGTTCCTGATAATGATATCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGCCTGGAACCTCCTTTGGAAACTGCAAATATTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACT
TGGGGATAGCTGGGAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGTCGGAGATGAGAACCCCTTTGATTTGGAAGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGA
ATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACAGCTCTGAGGTTTCCTCAGAAGACAACTCGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATT
GCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAGAAGCTTCATGATGAGATGTTTGGACATGCTGCTTCTGATGAAGAGAGTATGAGTGAAGATGATGAAGAGTGGGGACCTAGAAAGCGGCTGAGAAAAGGGAAGCAATTCGATACGGAACAAGATGTTTCTAGTGAGCCAGAATTAATGCAGCT
CAATAAAGTCTCAGTGCTGAAGAAAAAAGGGAAGGGACACGATGCCAACTCCCCAGAAGATACCAAACTATCAAAGTTGAATTTATGGAGAAAAGATGATGTCAAGAAAGAAAATGAAGACTGCAAAATTAAAAAGAAAGCGAAGAAGAATGAAGAAGGTGGTCCTCAAGAAGATGTTGCTCCATCAGAATTTAAGGCAT
CCGCAAAAGAAAATATTAGTCAGCAGGAGCTACTTGGAAGTCCACCAGTTTCAGCAAAGCAAAAAGGATTTTCTAGGTTACCTACTCCTGCAATTGAGAAGTTTCGTGTAGTTTTTGGTGAGAATCACTTTCCATCGCGGTTTATAAAGGAGGGTTTAGCAAAGGAATTTGACATCTCCTTCAAGCAGGTAGACAAATGG
TTTGACAATGCACGCCATTTTGCTCGTCATCAAGATAGAAGGAAACAAGCAGATAATTCTGATGGTTCTAATGAGTCAGCTTCTATAATTAAAGACGACAATATTAAATCAGAAAAAGTGAGGGTGCCAGGCAGTGCAGGGAAAAGGAACAAGGATACGGAAATTGTGCCATCTGCTGAAAGAGGAAAGAGAAAGGGTGG
GGAAAAGCATGGTATCAAAGACTTGAAAACCCCAGCCAGTTCTGGTGATAAAGCAAAACGGCAACATCGAAGAAACTAGTGCCTGTGAAATTTCAGCATTTTTCCTGTCAGTTACAAGCTGTGTATCACACGACATTGGCCATTGTGAATGCAATAAGTGGAGATCAATTGTTTCGAATTCAAATGTTCTCACCAGTTGG
TTGAATAAGCAATCGCGAGGCGTCATTGCCAATTATGTACAGGTTGCCTGTTCCAGTTTTCAAATGAGTACACATTGTTCTCTATCAATTTTCAAATATTTAAATCCTTTCTTTCGTCCAGTTGTTTTTTTCATTTGGCAGGATTATTGTGTCAAAATTATCTAAAACCTTTCTAAATGTACTTTTACCTCAAGTAGACA
AATATCATCTCAGATTTCTTTTTCTCAAGGTGCCAGATATTGAGCATGGATTACAAAGAAAATTCAACTGTTTTTTGGAATTCTATGCTGATTATTTTTGACAGATCCAAGTAGTAGCACATTTGGTCCGGATTTACTGCAAACTAGTGACAGCCGGGGAAATCTGAGCAAGGAAACATTATCTGTGAAATGTCTCCCTG
GTCTGTATGGATACTCCGCTCTGAAAGTACTTAGAATAATAAGATCCCAACACTCGGTGCAGTTCTCCAAAACCCTGAGTAAGCTGTTAGGATGGTGCAGCAGGGCGGGGAAGATTTAGAGGCACAATAGATGCATATCCTTCACTAGTCACGAGAACACAAAGGAAAATGAGCTGCTGCACATTATTTTCACTTTATTT
AGGAATTGCGTTTCTATTACTTCCATATGTTCTCATATTTTAGTGGGGGGCATGCAGGGAGTGACTGGGTACGATCTAATTGTACTGTATACGTATTTGTTTAATGCTGAGGCAAATGTACCTTTAGCCGTACAACTCAGAAATGAACTATTTCTTTTCAAGACTGCTGTTAATGGCTGCTCAGTGCTCAGTATTCTTTA
TTTATCCCAGCAATTTTATAGTATTGAAAGCTTCAAAAAAA
>TRINITY_DN115215_c1_g2_i4 from sample A2 / Example unspliced isoform:GTGACAGTGGGGTTGGGGAATACTTGGAACCTTAGCCATGTTTGTGCTTTGGGCTCGGTCGATTTTATTTTTTATATATAAAACAGACCGCATTTGGCTGTCCTGGCTAACGTTGGCGGGCAGGCAAGGTCGTCTGCATACATTCACTATCTCGACTGCGCACAACTCCGAGGCGTTATCAGCCGCCGCATCATCATCAG
TCAATCAATAATGgtgatacgtttcctttactaaaataacaaacaattgagagggaattggttgcagatgaatagtggacagtcttgaagtaaacctgagttacgacctttcatatagaaaaatggtaagaaataggggtcagaaggctactaatggcccaaagaaggatacaaagaaagttgagaactcaaatcaacaa
tctaacttggcgaatggagaggcctctgggacatcagtgactatgagtcactcaaagagcaagagctctggttcatcatcccaccacttggcacaggcgaggataaactctcagaaatctgagattcaagaaagtgtgtcaaatggagaggaaaatgagtctacagcagctcctgcaactggagacaatcacgttgagtc
agataagcctgaattgcaaatgaatgtggacaaaaaaactagcaggtctgctaccaaagttggcaagagtacatctgcagctgggaaaaaatacatattgaggtcattgtccaatagtgtccgggttcttagatcaagagaaaataaaaccccaaaggctcttcctaaaactgaaatccattccatggaaattagtgcag
agcaaagcaaacaaaagcgaaaaaagcacaagaagaaaataaatgttgtacaggacgaactctctcgaaccagaaagcgcataaaatatttattgcttcgaattggttttgagcagaacatgattgatgcatattctagtgaaggatggaaagggcaaagTCAAGAAAAGATTAGGCCAGAAAAGGAGCTTCAGAAGGCT
GCATCAAAGATACTGCATTGCAAGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATATCATCCTCTGTGATGGTGCTTGTGA
TCGTGGCTTTCATCAGAAATGCCTGGAACCTCCTTTGGAAACTGCAAATATTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGTCGGAG
ATGAGAACCCCTTTGATTTGGAAGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACAGCTCT
GAGGTTTCCTCAGAAGACAACTCGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAGAAGCT
TCATGATGAGATGTTTGGACATGCTGCTTCTGATGAAGAGAGTATGAGTGAAGATGATGAAGAGTGGGGACCTAGAAAGCGGCTGAGAAAAGGGAAGCAATTCGATACGGAACAAGATGTTTCTAGTGAGCCAGAATTAATGCAGCTCAATAAAGTCTCAGTGCTGAAGAAAAAAGGGAAGGGACACGATGCCAACTCCC
CAGAAGATACCAAACTATCAAAGTTGAATTTATGGAGAAAAGATGATGTCAAGAAAGAAAATGAAGACTGCAAAATTAAAAAGAAAGCGAAGAAGAATGAAGAAGGTGGTCCTCAAGAAGATGTTGCTCCATCAGAATTTAAGGCATCCGCAAAAGAAAATATTAGTCAGCAGGAGCTACTTGGAAGTCCACCAGTTTCA
GCAAAGCAAAAAGGATTTTCTAGGTTACCTACTCCTGCAATTGAGAAGTTTCGTGTAGTTTTTGGTGAGAATCACTTTCCATCGCGGTTTATAAAGGAGGGTTTAGCAAAGGAATTTGACATCTCCTTCAAGCAGGTAGACAAATGGTTTGACAATGCACGCCATTTTGCTCGTCATCAAGATAGAAGGAAACAAGCAGA
TAATTCTGATGGTTCTAATGAGTCAGCTTCTATAATTAAAGACGACAATATTAAATCAGAAAAAGTGAGGGTGCCAGGCAGTGCAGGGAAAAGGAACAAGGATACGGAAATTGTGCCATCTGCTGAAAGAGGAAAGAGAAAGGGTGGGGAAAAGCATGGTATCAAAGACTTGAAAACCCCAGCCAGTTCTGGTGATAAAG
CAAAACGGCAACATCGAAGAAACTAGTGCCTGTGAAATTTCAGCATTTTTCCTGTCAGTTACAAGCTGTGTATCACACGACATTGGCCATTGTGAATGCAATAAGTGGAGATCAATTGTTTCGAATTCAAATGTTCTCACCAGTTGGTTGAATAAGCAATCGCGAGGCGTCATTGCCAATTATGTACAGGTTGCCTGTTC
CAGTTTTCAAATGAGTACACATTGTTCTCTATCAATTTTCAAATATTTAAATCCTTTCTTTCGTCCAGTTGTTTTTTTCATTTGGCAGGATTATTGTGTCAAAATTATCTAAAACCTTTCTAAATGTACTTTTACCTCAAGTAGACAAATATCATCTCAGATTTCTTTTTCTCAAGGTGCCAGATATTGAGCATGGATTA
CAAAGAAAATTCAACTGTTTTTTGGAATTCTATGCTGATTATTTTTGACAGATCCAAGTAGTAGCACATTTGGTCCGGATTTACTGCAAACTAGTGACAGCCGGGGAAATCTGAGCAAGGAAACATTATCTGTGAAATGTCTCCCTGGTCTGTATGGATACTCCGCTCTGAAAGTACTTAGAATAATAAGATCCCAACAC
TCGGTGCAGTTCTCCAAAACCCTGAGTAAGCTGTTAGGATGGTGCAGCAGGGCGGGGAAGATTTAGAGGCACAATAGATGCATATCCTTCACTAGTCACGAGAACACAAAGGAAAATGAGCTGCTGCACATTATTTTCACTTTATTTAGGAATTGCGTTTCTATTACTTCCATATGTTCTCATATTTTAGTGGGGGGCAT
GCAGGGAGTGACTGGGTACGATCTAATTGTACTGTATACGTATTTGTTTAATGCTGAGGCAAATGTACCTTTAGCCGTACAACTCAGAAATGAACTATTTCTTTTCAAGACTGCTGTTAATGGCTGCTCAGTGCTCAGTATTCTTTATTTATCCCAGCAATTTTATAGTATTGAAAGCTTCAAAAAAA
Intron 4 GTGAGTTCCC ... TTATGTGCAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 40.52 | 69 | 10.4 | 47 |
| A2 | 33.67 | 71 | 15.3 | 36 |
| A3 | 38.37 | 57.8 | 12.3 | 36 |
| A4 | 38.86 | 42.6 | 13.9 | 27 |
| A5 | 32.5 | 27 | 13.4 | 13 |
| A6 | 38.44 | 20.8 | 5.1 | 13 |
| A7 | 31.35 | 107.3 | 13.9 | 49 |
| A8 | 37.82 | 74 | 10 | 45 |
| A9 | 37.5 | 70 | 6.3 | 42 |
| A10 | 37.59 | 94.7 | 7.3 | 57 |
>TRINITY_DN122978_c0_g3_i12 from sample A1 / Example spliced isoformCTTGGAACCTTAGCCATGTTTGTGCTTTGGGCTCGGTCGATTTTATTTTTTATATATAAAACAGACCGCATTTGGCTGTCCTGGCTAACGTTGGCGGGCAGGCAAGGTCGTCTGCATACATTCACTATCTCGACTGCGCACAACTCCGAGGCGTTATCAGCCGCCGCATCATCATCAGTCAATCAATAATGGTGATACGT
TTCCTTTACTAAAATAACAAACAATTGAGAGGGAATTGGTTGCAGATGAATAGTGGACAGTCTTGAAGTAAACCTGAGTTACGACCTTTCATATAGAAAAATGGTAAGAAATAGGGGTCAGAAGGCTACTAATGGCCCAAAGAAGGATACAAAGAAAGTTGAGAACTCAAATCAACAATCTAACTTGGCGAATGGAGAGG
CCTCTGGGACATCAGCGACTATGAGTCACTCAAAGAGCAAGAGCTCTGGTTCATCATCCCACCACTTGGCACAGGCGAGGATAAACTCTCAGAAATCTGAGATTCAAGAAAGTGTGTCAAATGGAGAGGAAAATGAGTCTACAGCAGCTCCTGCAACTGGAGACAATCACGTTGAGTCAGATAAGCCTGAATTGCAAATG
AATGTGGACAAAAAAACTAGCAGGTCTGCTACCAAAGTTGGCAAGAGTACATCTGCAGCTGGGAAAAAATACATATTGAGGTCATTGTCCAATAGTGTCCGGGTTCTTAGATCAAGAGAAAATAAAACCCCAAAGGCTCTTCCTAAAACTGAAATCCATTCCATGGAAATTAGTGCAGAGCAAAGCAAACAAAAGCGAAA
AAAGCACAAGAAGAAAATAAATGTTGTACAGGACGAACTCTCTCGAACCAGAAAGCGCATAAAATATTTATTGCTTCGAATTGGTTTTGAGCAGAACATGATTGATGCATATTCTAGTGAAGGATGGAAAGGGCAAAGTCAAGAAAAGATTAGGCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCA
AGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATATCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGC
CTGGAACCTCCTTTGGAAACTGCAAATATTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGTCGGAGATGAGAACCCCTTTGATTTGGA
AGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACAGCTCTGAGGTTTCCTCAGAAGACAACT
CGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAGAAGCTTCATGATGTAAGTTGTTTCCTC
TTTATCTACCAAGATGCTCGTGTAGTATGACACTACATTTTCAGACAAAGTCTCTGATTTACCACTAATGCACC
>TRINITY_DN122978_c0_g3_i10 from sample A1 / Example unspliced isoform:CTTGGAACCTTAGCCATGTTTGTGCTTTGGGCTCGGTCGATTTTATTTTTTATATATAAAACAGACCGCATTTGGCTGTCCTGGCTAACGTTGGCGGGCAGGCAAGGTCGTCTGCATACATTCACTATCTCGACTGCGCACAACTCCGAGGCGTTATCAGCCGCCGCATCATCATCAGTCAATCAATAATGGTGATACGT
TTCCTTTACTAAAATAACAAACAATTGAGAGGGAATTGGTTGCAGATGAATAGTGGACAGTCTTGAAGTAAACCTGAGTTACGACCTTTCATATAGAAAAATGGTAAGAAATAGGGGTCAGAAGGCTACTAATGGCCCAAAGAAGGATACAAAGAAAGTTGAGAACTCAAATCAACAATCTAACTTGGCGAATGGAGAGG
CCTCTGGGACATCAGCGACTATGAGTCACTCAAAGAGCAAGAGCTCTGGTTCATCATCCCACCACTTGGCACAGGCGAGGATAAACTCTCAGAAATCTGAGATTCAAGAAAGTGTGTCAAATGGAGAGGAAAATGAGTCTACAGCAGCTCCTGCAACTGGAGACAATCACGTTGAGTCAGATAAGCCTGAATTGCAAATG
AATGTGGACAAAAAAACTAGCAGGTCTGCTACCAAAGTTGGCAAGAGTACATCTGCAGCTGGGAAAAAATACATATTGAGGTCATTGTCCAATAGTGTCCGGGTTCTTAGATCAAGAGAAAATAAAACCCCAAAGGCTCTTCCTAAAACTGAAATCCATTCCATGGAAATTAGTGCAGAGCAAAGCAAACAAAAGCGAAA
AAAGCACAAGAAGAAAATAAATGTTGTACAGGACGAACTCTCTCGAACCAGAAAGCGCATAAAATATTTATTGCTTCGAATTGGTTTTGAGCAGAACATGATTGATGCATATTCTAGTGAAGGATGGAAAGGGCAAAGTCAAGAAAAGATTAGGCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCA
AGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATATCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGC
CTGGAACCTCCTTTGGAAACTGCAAATATTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGgtgagttcccaatagatttgaatagaaaaccttgaatggaatttcagttcagaaaagtg
agaggtatgtattttagcagttgtaaatttgcctcatgctaaatttctatttaaagatctatcttgtgttccaattggcattgcacagacagtgttatgtttttgcactttccatttaagcgaagcaaatttctgagttttagttttaagttttaggttaatgcactttatgtgcagAAAGTTTTTGCTGAGGCAGTTGT
AAGCACAGTCGGAGATGAGAACCCCTTTGATTTGGAAGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAA
GTGATGACAGCTCTGAGGTTTCCTCAGAAGACAACTCGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATC
GACTACAAGAAGCTTCATGATGAGATGTTTGGACATGCTGCTTCTGATGAAGAGAGTATGAGTGAAGATGATGAAGAGTGGGGACCTAGAAAGCGGCTGAGAAAAGGGAAGCAATTCGATACGGAACAAGATGTTTCTAGTGAGCCAGAATTAATGCAGCTCAATAAAGTCTCAGTGCTGAAGAAAAAAGGGAAGGGACA
CGATGCCAACTCCCCAGAAGATACCAAACTATCAAAGTTGAATTTATGGAGAAAAGATGATGTCAAGAAAGAAAATGAAGACTGCAAAATTAAAAAGAAAGCGAAGAAGAATGAAGAAGGTGGTCCTCAAGAAGATGTTGCTCCATCAGAATTTAAGGCATCCGCAAAAGAAAATATTAGTCAGCAGGAGCTACTTGGAA
GTCCACCAGTTTCAGCAAAGCAAAAAGGATTTTCTAGGTTACCTACTCCTGCAATTGAGAAGTTTCGTGTAGTTTTTGGTGAGAATCACTTTCCATCGCGGTTTATAAAGGAGGGTTTAGCAAAGGAATTTGACATCTCCTTCAAGCAGGTAGACAAATGGTTTGACAATGCACGCCATTTTGCTCGTCATCAAGATAGA
AGGAAACAAGCAGATAATTCTGATGGTTCTAATGAGTCAGCTTCTATAATTAAAGACGACAATATTAAATCAGAAAAAGTGAGGGTGCCAGGCAGTGCAGGGAAAAGGAACAAGGATACGGAAATTGTGCCATCTGCTGAAAGAGGAAAGAGAAAGGGTGGGGAAAAGCATGGTATCAAAGACTTGAAAACCCCAGCCAG
TTCTGGTGATAAAGCAAAACGGCAACATCGAAGAAACTAGTGCCTGTGAAATTTCAGCATTTTTCCTGTCAGTTACAAGCTGTGTATCACACGACATTGGCCATTGTGAATGCAATAAGTGGAGATCAATTGTTTCGAATTCAAATGTTCTCACCAGTTGGTTGAATAAGCAATCGCGAGGCGTCATTGCCAATTATGTA
CAGGTTGCCTGTTCCAGTTTTCAAATGAGTACACATTGTTCTCTATCAATTTTCAAATATTTAAATCCTTTCTTTCGTCCAGTTGTTTTTTTCATTTGGCAGGATTATTGTGTCAAAATTATCTAAAACCTTTCTAAATGTACTTTTACCTCAAGTAGACAAATATCATCTCAGATTTCTTTTTCTCAAGGTGCCAGATA
TTGAGCATGGATTACAAAGAAAATTCAACTGTTTTTTGGAATTCTATGCTGATTATTTTTGACAGATCCAAGTAGTAGCACATTTGGTCCGGATTTACTGCAAACTAGTGACAGCCGGGGAAATCTGAGCAAGGAAACATTATCTGTGAAATGTCTCCCTGGTCTGTATGGATACTCCGCTCTGAAAGTACTTAGAATAA
TAAGATCCCAACACTCGGTGCAGTTCTCCAAAACCCTGAGTAAGCTGTTAGGATGGTGCAGCAGGGCGGGGAAGATTTAGAGGCACAATAGATGCATATCCTTCACTAGTCACGAGAACACAAAGGAAAATGAGCTGCTGCACATTATTTTCACTTTATTTAGGAATTGCGTTTCTATTACTTCCATATGTTCTCATATT
TTAGTGGGGGGCATGCAGGGAGTGACTGGGTACGATCTAATTGTACTGTATACGTATTTGTTTAATGCTGAGGCAAATGTACCTTTAGCCGTACAACTCAGAAATGAACTATTTCTTTTCAAGACTGCTGTTAATGGCTGCTCAGTGCTCAGTATTCTTTATTTATCCCAGCAATTTTATAGTATTGAAAGCTTCATTTT
GGGACCAGTAAAATGTATTTTTTCACTGTCTAATGCCACAAGCACTGCAC
Intron 5 GTAATCTTTT ... TCTATTCCAG
| Sample | Retention score (%) | Exon junction reads | 5'ss reads | 3'ss reads |
| A1 | 12.14 | 93 | 23 | 2.7 |
| A2 | 18.05 | 68 | 19 | 11 |
| A3 | 23.99 | 47 | 19 | 10.7 |
| A4 | 19.24 | 51 | 18 | 6.3 |
| A5 | 16.92 | 27 | 7 | 4 |
| A6 | 10.09 | 11 | 0 | 2.5 |
| A7 | 12.73 | 56 | 7 | 9.4 |
| A8 | 10.24 | 57 | 8 | 5 |
| A9 | 14.81 | 70 | 21 | 3.3 |
| A10 | 13.4 | 76 | 19 | 4.6 |
>TRINITY_DN104820_c0_g3_i6 from sample A4 / Example spliced isoformCTTGGAACCTTAGCCATGTTTGTGCTTTGGGCTCGGTCGATTTTATTTTTTATATATAAAACAGACCGCATTTGGCTGTCCTGGCTAACGTTGGCGGGCAGGCAAGGTCGTCTGCATACATTCACTATCTCGACTGCGCACAACTCCGAGGCGTTATCAGCCGCCGCATCATCATCAGTCAATCAATAATGGTGATACGT
TTCCTTTACTAAAATAACAAACAATTGAGAGGGAATTGGTTGCAGATGAATAGTGGACAGTCTTGAAGTAAACCTGAGTTACGACCTTTCATATAGAAAAATGGTAAGAAATAGGGGTCAGAAGGCTACTAATGGCCCAAAGAAGGATACAAAGAAAGTTGAGAACTCAAATCAACAATCTAACTTGGCGAATGGAGAGG
CCTCTGGGACATCAGCGACTATGAGTCACTCAAAGAGCAAGAGCTCTGGTTCATCATCCCACCACTTGGCACAGGCGAGGATAAACTCTCAGAAATCTGAGATTCAAGAAAGTGTGTCAAATGGAGAGGAAAATGAGTCTACAGCAGCTCCTGCAACTGGAGACAATCACGTTGAGTCAGATAAGCCTGAATTGCAAATG
AATGTGGACAAAAAAACTAGCAGGTCTGCTACCAAAGTTGGCAAGAGTACATCTGCAGCTGGGAAAAAATACATATTGAGGTCATTGTCCAATAGTGTCCGGGTTCTTAGATCAAGAGAAAATAAAACCCCAAAGGCTCTTCCTAAAACTGAAATCCATTCCATGGAAATTAGTGCAGAGCAAAGCAAACAAAAGCGAAA
AAAGCACAAGAAGAAAATAAATGTTGTACAGGACGAACTCTCTCGAACCAGAAAGCGCATAAAATATTTATTGCTTCGAATTGGTTTTGAGCAGAACATGATTGATGCATATTCTAGTGAAGGATGGAAAGGGCAAAGTCAAGAAAAGATTAGGCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCA
AGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATATCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGC
CTGGAACCTCCTTTGGAAACTGCAAATATTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGTCGGAGATGAGAACCCCTTTGATTTGGA
AGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACAGCTCTGAGGTTTCCTCAGAAGACAACT
CGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAGAAGCTTCATGATTCAAGAAAAGATTAG
GCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCAAGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATA
TCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGCCTGGAACCTCCTTTGGAAACTGCAAATAGTAATCTTTTAGCTCTAGTCTTATCTTGTAACTTGTTGGGTTGATCTTGAAAATTAATATGGCAGAAAAGTTGAAACTGATTTTTTATGGAGTTTTTATTGTTTTCACTGAAATTTACATTCAGT
GTGGACTTCTCTATTCCAGTTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGGTTAATGCACTTTATGTGCAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGTCGGAGATGAGAACCC
CTTTGATTTGGAAGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACAGCTCTGAGGTTTCCT
CAGAAGACAACTCGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAGAAGCTTCATGATGAG
ATGTTTGGACATGCTGCTTCTGATGAAGAGAGTATGAGTGAAGATGATGAAGAGTGGGGACCTAGAAAGCGGCTGAGAAAAGGGAAGCAATTCGATACGGAACAAGATGTTTCTAGTGAGCCAGAATTAATGCAGCTCAATAAAGTCTCAGTGCTGAAGAAAAAAGGGAAGGGACACGATGCCAACTCCCCAGAAGATAC
CAAACTATCAAAGTTGAATTTATGGAGAAAAGATGATGTCAAGAAAGAAAATGAAGACTGCAAAATTAAAAAGAAAGCGAAGAAGAATGAAGAAGGTGGTCCTCAAGAAGATGTTGCTCCATCAGAATTTAAGGCATCCGCAAAAGAAAATATTAGTCAGCAGGAGCTACTTGGAAGTCCACCAGTTTCAGCAAAGCAAA
A
>TRINITY_DN104820_c0_g3_i3 from sample A4 / Example unspliced isoform:CTTGGAACCTTAGCCATGTTTGTGCTTTGGGCTCGGTCGATTTTATTTTTTATATATAAAACAGACCGCATTTGGCTGTCCTGGCTAACGTTGGCGGGCAGGCAAGGTCGTCTGCATACATTCACTATCTCGACTGCGCACAACTCCGAGGCGTTATCAGCCGCCGCATCATCATCAGTCAATCAATAATGGTGATACGT
TTCCTTTACTAAAATAACAAACAATTGAGAGGGAATTGGTTGCAGATGAATAGTGGACAGTCTTGAAGTAAACCTGAGTTACGACCTTTCATATAGAAAAATGGTAAGAAATAGGGGTCAGAAGGCTACTAATGGCCCAAAGAAGGATACAAAGAAAGTTGAGAACTCAAATCAACAATCTAACTTGGCGAATGGAGAGG
CCTCTGGGACATCAGCGACTATGAGTCACTCAAAGAGCAAGAGCTCTGGTTCATCATCCCACCACTTGGCACAGGCGAGGATAAACTCTCAGAAATCTGAGATTCAAGAAAGTGTGTCAAATGGAGAGGAAAATGAGTCTACAGCAGCTCCTGCAACTGGAGACAATCACGTTGAGTCAGATAAGCCTGAATTGCAAATG
AATGTGGACAAAAAAACTAGCAGGTCTGCTACCAAAGTTGGCAAGAGTACATCTGCAGCTGGGAAAAAATACATATTGAGGTCATTGTCCAATAGTGTCCGGGTTCTTAGATCAAGAGAAAATAAAACCCCAAAGGCTCTTCCTAAAACTGAAATCCATTCCATGGAAATTAGTGCAGAGCAAAGCAAACAAAAGCGAAA
AAAGCACAAGAAGAAAATAAATGTTGTACAGGACGAACTCTCTCGAACCAGAAAGCGCATAAAATATTTATTGCTTCGAATTGGTTTTGAGCAGAACATGATTGATGCATATTCTAGTGAAGGATGGAAAGGGCAAAGTCAAGAAAAGATTAGGCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCA
AGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATATCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGC
CTGGAACCTCCTTTGGAAACTGCAAATATTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGTCGGAGATGAGAACCCCTTTGATTTGGA
AGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACAGCTCTGAGGTTTCCTCAGAAGACAACT
CGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAGAAGCTTCATGATTCAAGAAAAGATTAG
GCCAGAAAAGGAGCTTCAGAAGGCTGCATCAAAGATACTGCATTGCAAGCTTGCAATTCGTGAAGCTTTCCATCATCTTGATTCTTTGTGTTTGGAGGGTAGTCTTCAAGAATCTGCCTTTGATTCTGAAGGGCAGATCAACAGCGAGGATATTTTCTGCGCAAAGTGTGGGTCAAAAGACTTGGTTCCTGATAATGATA
TCATCCTCTGTGATGGTGCTTGTGATCGTGGCTTTCATCAGAAATGCCTGGAACCTCCTTTGGAAACTGCAAATAgtaatcttttagctctagtcttatcttgtaacttgttgggttgatcttgaaaattaatatggcagaaaagttgaaactgattttttatggagtttttattgttttcactgaaatttacattcagt
gtggacttctctattccagTTCCTCCTGAAGACGAGGGTTGGCTCTGTCCAGAGTGTGACTGCAAACTTGACTGCTTTCATTTAGTCAATGATTACTTTGGAACAACTTTTGAACTTGGGGATAGCTGGGAGGTGAGTTCCCAATAGATTTGAATAGAAAACCTTGAATGGAATTTCAGTTCAGAAAAGTGAGAGGTATG
TATTTTAGCAGTTGTAAATTTGCCTCATGCTAAATTTCTATTTAAAGATCTATCTTGTGTTCCAATTGGCATTGCACAGACAGTGTTATGTTTTTGCACTTTCCATTTAAGCGAAGCAAATTTCTGAGTTTTAGTTTTAAGTTTTAGGTTAATGCACTTTATGTGCAGAAAGTTTTTGCTGAGGCAGTTGTAAGCACAGT
CGGAGATGAGAACCCCTTTGATTTGGAAGGCATGCCATCTGATGATTCAGAAGATGATGATTATGACCCTGAAGGTCCAGAAAAGCCTGATAGTAACAAGCAGGAAGAGGGTTCAAGTTCTGAAGAAGCCAGCAGCACAAGTGATGCGGAGAATTCAAATAAATCAAGCAGTGATGATGAAGGTTCTGAAAGTGATGACA
GCTCTGAGGTTTCCTCAGAAGACAACTCGAAGCATTTCAGTGAGCACTTGGCAGATTCAGGAAAAGGAAAGTCAAAAATTGCAACAGGCAAGAAGTGTTTGGAAAGTTCCGAGTTACCTGTAATATCAGATCTAGATGAGAATGGTAATATTGCTTCCTCAGTTTCAGGGAAAAGGCATCGTCAAGACATCGACTACAAG
AAGCTTCATGATGAGATGTTTGGACATGCTGCTTCTGATGAAGAGAGTATGAGTGAAGATGATGAAGAGTGGGGACCTAGAAAGCGGCTGAGAAAAGGGAAGCAATTCGATACGGAACAAGATGTTTCTAGTGAGCCAGAATTAATGCAGCTCAATAAAGTCTCAGTGCTGAAGAAAAAAGGGAAGGGACACGATGCCAA
CTCCCCAGAAGATACCAAACTATCAAAGTTGAATTTATGGAGAAAAGATGATGTCAAGAAAGAAAATGAAGACTGCAAAATTAAAAAGAAAGCGAAGAAGAATGAAGAAGGTGGTCCTCAAGAAGATGTTGCTCCATCAGAATTTAAGGCATCCGCAAAAGAAAATATTAGTCAGCAGGAGCTACTTGGAAGTCCACCAG
TTTCAGCAAAGCAAAA