NA ----> NA

Intron 1 GTAAAAGTTT ... TCCGTTCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	12.06	113	15	16
A2	19.23	63	13	17
A3	19.11	91	16	27
A4	17.78	74	6	26
A5	24.27	39	8	17
A6	16.07	94	7	29
A7	19.66	190	32	61
A8	20.66	121	18	45
A9	19.17	234	32	79
A10	19.05	204	26	70

>TRINITY_DN99353_c0_g1_i4 from sample A5 / Example spliced isoform

CGACACAGTGGCCTCCACCGGCGGTGCGCACCGTTTTTTTTTTATCACGGAGGGTTCCAGTTGTAGGCTTCAAATCTTCTACGCCTCCCAAAACCCAAGATAGAGATCTGAGGAGCAAACCCAAGATAGAGATCTGAGGAGTTGATCATGATGTTGAAGCCCAGAGCATCTAATTATCATAAACTGCTACTGGAATTACG
CCGTCGGATCTCACATCCGACAGGCTTGTTCTTCTTCCTGGTTTTACTGCTTGCGCTACTCTGCAGCTTTTTCTTCTTCTTCAGACCCCGGTGTTTATTGCAGTCAGTCGTTCCGTGGAACGACCGCCCAACAGTAGCACAGTGGAGCAAGCAGTATACAGAGAGCGGTGCTGTGAAGCATGATGGATCATCCAAGCCCA
AGCCCAAGCCCAGGCCCAAGCCCAAGGCCAAGGCCAAACCCCAGCCCCAGCCCAAGCCCATGGATATGGCGATCGCGCCGCCTATTTCTCTTTCTGCGCCCAAACATACTCAGGTCAAGTCGCCCACTTATCCGCCCAGTGGAAATGGCAAGGTATTTAACTGTTCAGTTGGCAACGCGTGTAACAGCTGGCAGACTAAA
GAGGCTGTGAAGGAGAAGTGGGATCCTAAAGTAAGGGCTGCGTGCCCCAGTTACTTTGGATTTATTGAGGAGGATCTGAAGCCATGGCGGGAGAGTGGAATCACGCTGGACATGGTGGAGAGAGCTCGAAAGACGGCAAACTTCAGGCTGGTTATATTGAAAGGGCGGATGTACATACGAACATACACCAAGTCTTGGCA
GACAAGAGACGTGTTTACGATATGGGGTCTCATTCAGCTCATGGAAAAATACGGAGGGATGCTCCCGGATCTGGATCTCATGTTCGACTGCGTCGACTGGCCTGTCATAAAAGCCGATGCTTATGCCGATGCCAATGCCAATGCCACTGTCCGTCCTCCTCCCTTGTTTCGTTACTGTGGCGACGATAACACTCTCGACA
TTGCCTTTCCTGACTGGTCTTTCTGGGGTTGGTCTGAAGTCAATACTCGACCATGGGACGGCCTTTTGAATGACATCCGCAAAGGAGCCAAGAAGCTGAAATGGGAAGATAGAGATCCCACTGCATTCTGGAAGGGTAACCCATATGTGGCCAAAGTCAGAGAGGATCTTATGAAATGCAATCTTTCAGATTGGAATGCC
CGCCTTTACAACCAGGACTGGATCAAAGAATCAGGGCAAGGCTATAAACATTCCAAACTGTCCGATCAATGCCATCACAGATACAAGATATATGTTGAAGGCTCTGCCTGGTCAGTGAGCTTGAAGAATATTTTAGCCTGTGATTCTGAAACCCTTATGGTGAAACCGTTATACTATGACTTCTTTTCCAGGGCACTTAT
GCCCCTTGAACATTACTGGCCTGTTAGACTTGACAGAAAATGCGAGTCCATCAAGTTTGCCGTTGATTGGGGAAACAATCACTCAAACAAGGCAAAGGCCATTGGGGACGCTGGGAGCAGTTTCATGAGAAAGGAGCTGAAGATGTCGAATGTGTATGACTACATGTTCCATCTCCTCACGGAATACGCCAAGTTGTTGA
GATACAAACCAGTGATTCCAAAAGGAGCTAAGGAGGTATGTACTCAATCCATGTTGTGTTCCAGAAAGGATAGAGTTGAGAGAAGGTTCATGCGGGAGTCTATGGTGAAACGTCCAACTGAGACAGGACCATGCGATTTACACATTAATCATGGATTCGTCAAGGATTGGAATGAGAGAAAAGCTCAAGCAATTAAGCAA
GTTGAAGACATGGAAGAAAGAGCATGGCGTGATTTAAAAAGCATGGGGTAGATCATAATCATTCAAAATCCCGGCAGTTTGAAATTTGTGACAAGTCATTGAGTTATCTTGCCTAATATTTTTGAGGGCGTGGCAAACCCTTCGCGTTTTAGTGAGTCCTCCATGTATTTTTCAAGTCATATGCCTAGTTTACATAGTTG
ATGATACACTTGTTTTGGAATGCATTATATATTTTCTTACAAGTAAATAGCTTGTGATCTATATACCACAGGGCTGGGCTTTTGTCCAACAAAGAACAGGACGAGACATCTCGTGCCTCAACGAATGAATGTATATACATATATTACACTACCAGCACACACTCTAATAGGCCGCATTCAAATTCATTCACTTTGAGGTC
GATGCTGAGCTGCTAAAATTGATTTGAATTTAGATGAATTATTTTCCAAACTACCATCCTAATCCTCTTGAGCGTAGAGATTATAAAATTGATTTGAATTTAGATGAATTATTTTCCAAACTACCATCCTAATCCTCTTGAGCGTAGAGATTATAAAATTGATTTGAATTTAGATG

>TRINITY_DN99353_c0_g1_i7 from sample A5 / Example unspliced isoform:

CGACACAGTGGCCTCCACCGGCGGTGCGCACCGTTTTTTTTTTATCACGGAGGGTTCCAGTTGTAGGCTTCAAATCTTCTACGCCTCCCAAAACCCAAGATAGAGATCTGAGGAGCAAACCCAAGATAGAGATCTGAGGAGTTGATCATGATGTTGAAGCCCAGAGCATCTAATTATCATAAACTGCTACTGGAATTACG
CCGTCGGATCTCACATCCGACAGGCTTGTTCTTCTTCCTGGTTTTACTGCTTGCGCTACTCTGCAGCTTTTTCTTCTTCTTCAGACCCCGGTCAGTCGTTCCGTGGAACGACCGCCCAACAGTAGCACAGTGGAGCAAGCAGTATACAGAGAGCGGTGCTGTGAAGCATGATGGATCATCCAAGCCCAAGCCCAAGCCCA
GGCCCAAGCCCAAGGCCAAGGCCAAACCCCAGCCCCAGCCCAAGCCCATGGATATGGCGATCGCGCCGCCTATTTCTCTTTCTGCGCCCAAACATACTCAGGTCAAGTCGCCCACTTATCCGCCCAGTGGAAATGGCAAGGTATTTAACTGTTCAGTTGGCAACGCGTGTAACAGCTGGCAGACTAAAGAGGCTGTGAAG
GAGAAGTGGGATCCTAAAGTAAGGGCTGCGTGCCCCAGTTACTTTGGATTTATTGAGGAGGATCTGAAGCCATGGCGGGAGAGTGGAATCACGCTGGACATGGTGGAGAGAGCTCGAAAGACGGCAAACTTCAGGCTGGTTATATTGAAAGGGCGGATGTACATACGAACATACACCAAGTCTTGGCAGACAAGAGACGT
GTTTACGATATGGGGTCTCATTCAGCTCATGGAAAAATACGGAGGGATGCTCCCGGATCTGGATCTCATGTTCGACTGCGTCGACTGGCCTGTCATAAAAGCCGATGCTTATGCCGATGCCAATGCCAATGCCACTGTCCGTCCTCCTCCCTTGTTTCGTTACTGTGGCGACGATAACACTCTCGACATTGCCTTTCCTG
ACTGGTCTTTCTGGGGTTGgtaaaagtttcttcatcccctctgctctgctgtgctgttcatttgcatttttatattcttcttcttcatcatcttcagatctgaatagactcatcatattgtgctccgttccagGTCTGAAGTCAATACTCGACCATGGGACGGCCTTTTGAATGACATCCGCAAAGGAGCCAAGAAGCTG
AAATGGGAAGATAGAGATCCCACTGCATTCTGGAAGGGTAACCCATATGTGGCCAAAGTCAGAGAGGATCTTATGAAATGCAATCTTTCAGATTGGAATGCCCGCCTTTACAACCAGGACTGGATCAAAGAATCAGGGCAAGGCTATAAACATTCCAAACTGTCCGATCAATGCCATCACAGATACAAGATATATGTTGA
AGGCTCTGCCTGGTCAGTGAGCTTGAAGAATATTTTAGCCTGTGATTCTGAAACCCTTATGGTGAAACCGTTATACTATGACTTCTTTTCCAGGGCACTTATGCCCCTTGAACATTACTGGCCTGTTAGACTTGACAGAAAATGCGAGTCCATCAAGTTTGCCGTTGATTGGGGAAACAATCACTCAAACAAGGCAAAGG
CCATTGGGGACGCTGGGAGCAGTTTCATGAGAAAGGAGCTGAAGATGTCGAATGTGTATGACTACATGTTCCATCTCCTCACGGAATACGCCAAGTTGTTGAGATACAAACCAGTGATTCCAAAAGGAGCTAAGGAGGTATGTACTCAATCCATGTTGTGTTCCAGAAAGGATAGAGTTGAGAGAAGGTTCATGCGGGAG
TCTATGGTGAAACGTCCAACTGAGACAGGACCATGCGATTTACACATTAATCATGGATTCGTCAAGGATTGGAATGAGAGAAAAGCTCAAGCAATTAAGCAAGTTGAAGACATGGAAGAAAGAGCATGGCGTGATTTAAAAAGCATGGGGTAGATCATAATCATTCAAAATCCCGGCAGTTTGAAATTTGTGACAAGTCA
TTGAGTTATCTTGCCTAATATTTTTGAGGGCGTGGCAAACCCTTCGCGTTTTAGTGAGTCCTCCATGTATTTTTCAAGTCATATGCCTAGTTTACATAGTTGATGATACACTTGTTTTGGAATGCATTATATATTTTCTTACAAGTAAATAGCTTGTGATCTATATACCACAGGGCTGGGCTTTTGTCCAACAAAGAACA
GGACGAGACATCTCGTGCCTCAACGAATGAATGTATATACATATATTACACTACCAGCACACACTCTAATAGGCCGCATTCAAATTCATTCACTTTGAGGTCGATGCTGAGCTGCTAAAATTGATTTGAATTTAGATGAATTATTTTCCAAACTACCATCCTAATCCTCTTGAGCGTAGAGATTATAAAATTGATTTGAA
TTTAGATGAATTATTTTCCAAACTACCATCCTAATCCTCTTGAGCGTAGAGATTATAAAATTGATTTGAATTTAGATG

Intron 2 GTGGGTTTCT ... TTTATTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	16.28	36	12	2
A2	23.33	23	3	11
A3	21.95	16	6	3
A4	22.22	14	4	4
A5	42.22	13	11	8
A6	26.58	29	4	17
A7	26.85	79	13	45
A8	25.98	47	3	30
A9	27.75	82	25	38
A10	34.18	104	30	78

>TRINITY_DN107974_c13_g1_i1 from sample A3 / Example spliced isoform

GTTTTGTATGTGCGTTGTAGGCTGGAGCGACACAGTGGCCTCCACCGGCGGTGCGCACCGTTTTTTTTTTATCACGGAGGGTTCCAGTTGTAGGCTTCAAATCTTCTACGCCTCCCAAAACCCAAGATAGAGATCTGAGGAGCAAACCCAAGATAGAGATCTGAGGAGTTGATCATGATGTTGAAGCCCAGAGCATCTAA
TTATCATAAACTGCTACTGGAATTACGCCGTCGGATCTCACATCCGACAGGCTTGTTCTTCTTCCTGGTTTTACTGCTTGCGCTACTCTGCAGCTTTTTCTTCTTCTTCAGACCCCGGGTGGGTGTGGGTGCGCGATCAGTCGTTCCGTGGAACGACCGCCCAACAGTAGCACAGTGGAGCAAGCAGTATACAGAGAGCG
GTGCTGTGAAGCATGATGGATCATCCAAGCCCAAGCCCAAGCCCAGGCCCAAGCCCAAGGCCAAGGCCAAACCCCAGCCCCAGCCCAAGCCCATGGATATGGCGATCGCGCCGCCTATTTCTCTTTCTGCGCCCAAACATACTCAGGTCAAGTCGCCCACTTATCCGCCCAGTGGAAATGGCAAGGTATTTAACTGTTCA
GTTGGCAACGCGTGTAACAGCTGGCAGACTAAAGAGGCTGTGAAGGAGAAGTGGGATCCTAAAGTAAGGGCTGCGTGCCCCAGTTACTTTGGATTTATTGAGGAGGATCTGAAGCCATGGCGGGAGAGTGGAATCACGCTGGACATGGTGGAGAGAGCTCGAAAGACGGCAAACTTCAGGCTGGTTATATTGAAAGGGCG
GATGTACATACGAACATACACCAAGTCTTGGCAGACAAGAGACGTGTTTACGATATGGGGTCTCATTCAGCTCATGGAAAAATACGGAGGGATGCTCCCGGATCTGGATCTCATGTTCGACTGCGTCGACTGGCCTGTCATAAAAGCCGATGCTTATGCCGATGCTTATGCCGATGCCAATGCCAATGCCACTGTCCGTC
CTCCTCCCTTGTTTCGTTACTGTGGCGACGATAACACTCTCGACATTGCCTTTCCTGACTGGTCTTTCTGGGGTTGGTCTGAAGTCAATACTCGACCATGGGACGGCCTTTTGAATGACATCCGCAAAGGAGCCAAGAAGCTGAAATGGGAAGATAGAGATCCCACTGCATTCTGGAAGGGTAACCCATATGTGGCCAAA
GTCAGAGAGGATCTTATGAAATGCAATCTTTCAGATTGGAATGCCCGCCTTTACAACCAGGACTGGATCAAAGAATCAGGGCAAGGCTATAAACATTCCAAACTGTCCGATCAATGCCATCACAGATACAAGATATATGTTGAAGGCTCTGCCTGGTCAGTGAGCTTGAAGAATATTTTAGCCTGTGATTCTGAAACCCT
TATGGTGAAACCGTTATACTATGACTTCTTTTCCAGGGCACTTATGCCCCTTGAACATTACTGGCCTGTTAGACTTGACAGAAAATGCGAGTCCATCAAGTTTGCCGTTGATTGGGGAAACAATCACTCAAACAAGGCAAAGGCCATTGGGGACGCTGGGAGCAGTTTCATGAGAAAGGAGCTGAAGATGTCGAATGTGT
ATGACTACATGTTCCATCTCCTCACGGAATACGCCAAGTTGTTGAGATACAAACCAGTGATTCCAAAAGGAGCTAAGGAGGTATGTACTCAATCCATGTTGTGTTCCAGAAAGGATAGAGTTGAGAGAAGGTTCATGCGGGAGTCTATGGTGAAACGTCCAACTGAGACAGGACCATGCGATTTACACATTAATCATGGA
TTCGTCAAGGATTGGAATGAGAGAAAAGCTCAAGCAATTAAGCAAGTTGAAGACATGGAAGAAAGAGCATGGCGTGATTTAAAAAGCATGGGGTAGATCATAATCATTCAAAATCCCGGCAGTTTGAAATTTGTGACAAGTCATTGAGTTATCTTGCCTAATATTTTTGAGGGCGTGGCAAACCCTTCGCGTTTTAGTGA
GTCCTCCATGTATTTTTCAAGTCATATGCCTAGTTTACATAGTTGATGATACACTTGTTTTGGAATGCATTATATATTTTCTTACAAGTAAATAGCTTGTGATCTATATACCACAGGGCTGGGCTTTTGTCCAACAAAGAACAGGACGAGACATCTCGTGCCTCAACGAATGAATGTATATACATATATTACACTACCAG
CACACACTCTAATAGGCCGCATTCAAATTCATTCAAA

>TRINITY_DN107974_c13_g1_i2 from sample A3 / Example unspliced isoform:

GTTTTGTATGTGCGTTGTAGGCTGGAGCGACACAGTGGCCTCCACCGGCGGTGCGCACCGTTTTTTTTTTATCACGGAGGGTTCCAGTTGTAGGCTTCAAATCTTCTACGCCTCCCAAAACCCAAGATAGAGATCTGAGGAGCAAACCCAAGATAGAGATCTGAGGAGTTGATCATGATGTTGAAGCCCAGAGCATCTAA
TTATCATAAACTGCTACTGGAATTACGCCGTCGGATCTCACATCCGACAGGCTTGTTCTTCTTCCTGGTTTTACTGCTTGCGCTACTCTGCAGCTTTTTCTTCTTCTTCAGACCCCGGGTGGGTGTGGGTGCGCGAgtgggtttctgtttcttattatctttttgctcttcttcattataaaatctgcacaaagtcttct
tctgactcccaatctgacgacgcctagtgtttattgcagTCAGTCGTTCCGTGGAACGACCGCCCAACAGTAGCACAGTGGAGCAAGCAGTATACAGAGAGCGGTGCTGTGAAGCATGATGGATCATCCAAGCCCAAGCCCAAGCCCAGGCCCAAGCCCAAGGCCAAGGCCAAACCCCAGCCCCAGCCCAAGCCCATGGA
TATGGCGATCGCGCCGCCTATTTCTCTTTCTGCGCCCAAACATACTCAGGTCAAGTCGCCCACTTATCCGCCCAGTGGAAATGGCAAGGTATTTAACTGTTCAGTTGGCAACGCGTGTAACAGCTGGCAGACTAAAGAGGCTGTGAAGGAGAAGTGGGATCCTAAAGTAAGGGCTGCGTGCCCCAGTTACTTTGGATTTA
TTGAGGAGGATCTGAAGCCATGGCGGGAGAGTGGAATCACGCTGGACATGGTGGAGAGAGCTCGAAAGACGGCAAACTTCAGGCTGGTTATATTGAAAGGGCGGATGTACATACGAACATACACCAAGTCTTGGCAGACAAGAGACGTGTTTACGATATGGGGTCTCATTCAGCTCATGGAAAAATACGGAGGGATGCTC
CCGGATCTGGATCTCATGTTCGACTGCGTCGACTGGCCTGTCATAAAAGCCGATGCTTATGCCGATGCTTATGCCGATGCCAATGCCAATGCCACTGTCCGTCCTCCTCCCTTGTTTCGTTACTGTGGCGACGATAACACTCTCGACATTGCCTTTCCTGACTGGTCTTTCTGGGGTTGGTCTGAAGTCAATACTCGACC
ATGGGACGGCCTTTTGAATGACATCCGCAAAGGAGCCAAGAAGCTGAAATGGGAAGATAGAGATCCCACTGCATTCTGGAAGGGTAACCCATATGTGGCCAAAGTCAGAGAGGATCTTATGAAATGCAATCTTTCAGATTGGAATGCCCGCCTTTACAACCAGGACTGGATCAAAGAATCAGGGCAAGGCTATAAACATT
CCAAACTGTCCGATCAATGCCATCACAGATACAAGATATATGTTGAAGGCTCTGCCTGGTCAGTGAGCTTGAAGAATATTTTAGCCTGTGATTCTGAAACCCTTATGGTGAAACCGTTATACTATGACTTCTTTTCCAGGGCACTTATGCCCCTTGAACATTACTGGCCTGTTAGACTTGACAGAAAATGCGAGTCCATC
AAGTTTGCCGTTGATTGGGGAAACAATCACTCAAACAAGGCAAAGGCCATTGGGGACGCTGGGAGCAGTTTCATGAGAAAGGAGCTGAAGATGTCGAATGTGTATGACTACATGTTCCATCTCCTCACGGAATACGCCAAGTTGTTGAGATACAAACCAGTGATTCCAAAAGGAGCTAAGGAGGTATGTACTCAATCCAT
GTTGTGTTCCAGAAAGGATAGAGTTGAGAGAAGGTTCATGCGGGAGTCTATGGTGAAACGTCCAACTGAGACAGGACCATGCGATTTACACATTAATCATGGATTCGTCAAGGATTGGAATGAGAGAAAAGCTCAAGCAATTAAGCAAGTTGAAGACATGGAAGAAAGAGCATGGCGTGATTTAAAAAGCATGGGGTAGA
TCATAATCATTCAAAATCCCGGCAGTTTGAAATTTGTGACAAGTCATTGAGTTATCTTGCCTAATATTTTTGAGGGCGTGGCAAACCCTTCGCGTTTTAGTGAGTCCTCCATGTATTTTTCAAGTCATATGCCTAGTTTACATAGTTGATGATACACTTGTTTTGGAATGCATTATATATTTTCTTACAAGTAAATAGCT
TGTGATCTATATACCACAGGGCTGGGCTTTTGTCCAACAAAGAACAGGACGAGACATCTCGTGCCTCAACGAATGAATGTATATACATATATTACACTACCAGCACACACTCTAATAGGCCGCATTCAAATTCATTCAAA

Intron 3 GTGGGTGTGG ... TTTATTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	17.01	40	14.4	2
A2	25.33	28	8	11
A3	26.15	24	14	3
A4	25	15	6	4
A5	39.29	17	14	8
A6	26.44	32	6	17
A7	28.42	102	36	45
A8	27.15	55	11	30
A9	28.16	88	31	38
A10	32.98	128	48	78

>TRINITY_DN113027_c0_g1_i5 from sample A1 / Example spliced isoform

ACACTATTTGGTTTTGTATGTGCGTTGTAGGCTGGAGCGACACAGTGGCCTCCACCGGCGGTGCGCACCGTTTTTTTTTTATCACGGAGGGTTCCAGTTGTAGGCTTCAAATCTTCTACGCCTCCCAAAACCCAAGATAGAGATCTGAGGAGCAAACCCAAGATAGAGATCTGAGGAGTTGATCATGATGTTGAAGCCCA
GAGCATCTAATTATCATAAACTGCTACTGGAATTACGCCGTCGGATCTCACATCCGACAGGCTTGTTCTTCTTCCTGGTTTTACTGCTTGCGCTACTCTGCAGCTTTTTCTTCTTCTTCAGACCCCGGTCAGTCGTTCCGTGGAACGACCGCCCAACAGTAGCACAGTGGAGCAAGCAGTATACAGAGAGCGGTGCTGTG
AAGCATGATGGATCATCCAAGCCCAAGCCCAAGCCCAGGCCCAAGCCCAAGGCCAAGGCCAAACCCCAGCCCCAGCCCAAGCCCATGGATATGGCGATCGCGCCGCCTATTTCTCTTTCTGCGCCCAAACATACTCAGGTCAAGTCGCCCACTTATCCGCCCAGTGGAAATGGCAAGGTATTTAACTGTTCAGTTGGCAA
CGCGTGTAACAGCTGGCAGACTAAAGAGGCTGTGAAGGAGAAGTGGGATCCTAAAGTAAGGGCTGCGTGCCCCAGTTACTTTGGATTTATTGAGGAGGATCTGAAGCCATGGCGGGAGAGTGGAATCACGCTGGACATGGTGGAGAGAGCTCGAAAGACGGCAAACTTCAGGCTGGTTATATTGAAAGGGCGGATGTACA
TACGAACATACACCAAGTCTTGGCAGACAAGAGACGTGTTTACGATATGGGGTCTCATTCAGCTCATGGAAAAATACGGAGGGATGCTCCCGGATCTGGATCTCATGTTCGACTGCGTCGACTGGCCTGTCATAAAAGCCGATGCTTATGCCGATGCCAATGCCAATGCCACTGTCCGTCCTCCTCCCTTGTTTCGTTAC
TGTGGCGACGATAACACTCTCGACATTGCCTTTCCTGACTGGTCTTTCTGGGGTTGGTCTGAAGTCAATACTCGACCATGGGACGGCCTTTTGAATGACATCCGCAAAGGAGCCAAGAAGCTGAAATGGGAAGATAGAGATCCCACTGCATTCTGGAAGGGTAACCCATATGTGGCCAAAGTCAGAGAGGATCTTATGAA
ATGCAATCTTTCAGATTGGAATGCCCGCCTTTACAACCAGGACTGGATCAAAGAATCAGGGCAAGGCTATAAACATTCCAAACTGTCCGATCAATGCCATCACAGATACAAGATATATGTTGAAGGCTCTGCCTGGTCAGTGAGCTTGAAGAATATTTTAGCCTGTGATTCTGAAACCCTTATGGTGAAACCGTTATACT
ATGACTTCTTTTCCAGGGCACTTATGCCCCTTGAACATTACTGGCCTGTTAGACTTGACAGAAAATGCGAGTCCATCAAGTTTGCCGTTGATTGGGGAAACAATCACTCAAACAAGGCAAAGGCCATTGGGGACGCTGGGAGCAGTTTCATGAGAAAGGAGCTGAAGATGTCGAATGTGTATGACTACATGTTCCATCTC
CTCACGGAATACGCCAAGTTGTTGAGATACAAACCAGTGATTCCAAAAGGAGCTAAGGAGGTATGTACTCAATCCATGTTGTGTTCCAGAAAGGATAGAGTTGAGAGAAGGTTCATGCGGGAGTCTATGGTGAAACGTCCAACTGAGACAGGACCATGCGATTTACACATTAATCATGGATTCGTCAAGGATTGGAATGA
GAGAAAAGCTCAAGCAATTAAGCAAGTTGAAGACATGGAAGAAAGAGCATGGCGTGATTTAAAAAGCATGGGGTAGATCATAATCATTCAAAATCCCGGCAGTTTGAAATTTGTGACAAGTCATTGAGTTATCTTGCCTAATATTTTTGAGGGCGTGGCAAACCCTTCGCGTTTTAGTGAGTCCTCCATGTATTTTTCAA
GTCATATGCCTAGTTTACATAGTTGATGATACACTTGTTTTGGAATGCATTATATATTTTCTTACAAGTAAATAGCTTGTGATCTATATACCACAGGGCTGGGCTTTTGTCCAACAAAGAACAGGACGAGACATCTCGTGCCTCAACGAATGAATGTATATACATATATTACACTACCAGCACACACTCTAATAGGCCGC
ATTCAAATTCAT

>TRINITY_DN113027_c0_g1_i1 from sample A1 / Example unspliced isoform:

ACACTATTTGGTTTTGTATGTGCGTTGTAGGCTGGAGCGACACAGTGGCCTCCACCGGCGGTGCGCACCGTTTTTTTTTTATCACGGAGGGTTCCAGTTGTAGGCTTCAAATCTTCTACGCCTCCCAAAACCCAAGATAGAGATCTGAGGAGCAAACCCAAGATAGAGATCTGAGGAGTTGATCATGATGTTGAAGCCCA
GAGCATCTAATTATCATAAACTGCTACTGGAATTACGCCGTCGGATCTCACATCCGACAGGCTTGTTCTTCTTCCTGGTTTTACTGCTTGCGCTACTCTGCAGCTTTTTCTTCTTCTTCAGACCCCGGgtgggtgtgggtgcgcgagtgggtttctgtttcttattatctttttgctcttcttcattataaaatctgcac
aaagtcttcttctgactcccaatctgacgacgcctagtgtttattgcagTCAGTCGTTCCGTGGAACGACCGCCCAACAGTAGCACAGTGGAGCAAGCAGTATACAGAGAGCGGTGCTGTGAAGCATGATGGATCATCCAAGCCCAAGCCCAAGCCCAGGCCCAAGCCCAAGGCCAAGGCCAAACCCCAGCCCCAGCCCA
AGCCCATGGATATGGCGATCGCGCCGCCTATTTCTCTTTCTGCGCCCAAACATACTCAGGTCAAGTCGCCCACTTATCCGCCCAGTGGAAATGGCAAGGTATTTAACTGTTCAGTTGGCAACGCGTGTAACAGCTGGCAGACTAAAGAGGCTGTGAAGGAGAAGTGGGATCCTAAAGTAAGGGCTGCGTGCCCCAGTTAC
TTTGGATTTATTGAGGAGGATCTGAAGCCATGGCGGGAGAGTGGAATCACGCTGGACATGGTGGAGAGAGCTCGAAAGACGGCAAACTTCAGGCTGGTTATATTGAAAGGGCGGATGTACATACGAACATACACCAAGTCTTGGCAGACAAGAGACGTGTTTACGATATGGGGTCTCATTCAGCTCATGGAAAAATACGG
AGGGATGCTCCCGGATCTGGATCTCATGTTCGACTGCGTCGACTGGCCTGTCATAAAAGCCGATGCTTATGCCGATGCTTATGCCGATGCCAATGCCAATGCCACTGTCCGTCCTCCTCCCTTGTTTCGTTACTGTGGCGACGATAACACTCTCGACATTGCCTTTCCTGACTGGTCTTTCTGGGGTTGGTCTGAAGTCA
ATACTCGACCATGGGACGGCCTTTTGAATGACATCCGCAAAGGAGCCAAGAAGCTGAAATGGGAAGATAGAGATCCCACTGCATTCTGGAAGGGTAACCCATATGTGGCCAAAGTCAGAGAGGATCTTATGAAATGCAATCTTTCAGATTGGAATGCCCGCCTTTACAACCAGGACTGGATCAAAGAATCAGGGCAAGGC
TATAAACATTCCAAACTGTCCGATCAATGCCATCACAGATACAAGATATATGTTGAAGGCTCTGCCTGGTCAGTGAGCTTGAAGAATATTTTAGCCTGTGATTCTGAAACCCTTATGGTGAAACCGTTATACTATGACTTCTTTTCCAGGGCACTTATGCCCCTTGAACATTACTGGCCTGTTAGACTTGACAGAAAATG
CGAGTCCATCAAGTTTGCCGTTGATTGGGGAAACAATCACTCAAACAAGGCAAAGGCCATTGGGGACGCTGGGAGCAGTTTCATGAGAAAGGAGCTGAAGATGTCGAATGTGTATGACTACATGTTCCATCTCCTCACGGAATACGCCAAGTTGTTGAGATACAAACCAGTGATTCCAAAAGGAGCTAAGGAGGTATGTA
CTCAATCCATGTTGTGTTCCAGAAAGGATAGAGTTGAGAGAAGGTTCATGCGGGAGTCTATGGTGAAACGTCCAACTGAGACAGGACCATGCGATTTACACATTAATCATGGATTCGTCAAGGATTGGAATGAGAGAAAAGCTCAAGCAATTAAGCAAGTTGAAGACATGGAAGAAAGAGCATGGCGTGATTTAAAAAGC
ATGGGGTAGATCATAATCATTCAAAATCCCGGCAGTTTGAAATTTGTGACAAGTCATTGAGTTATCTTGCCTAATATTTTTGAGGGCGTGGCAAACCCTTCGCGTTTTAGTGAGTCCTCCATGTATTTTTCAAGTCATATGCCTAGTTTACATAGTTGATGATACACTTGTTTTGGAATGCATTATATATTTTCTTACAA
GTAAATAGCTTGTGATCTATATACCACAGGGCTGGGCTTTTGTCCAACAAAGAACAGGACGAGACATCTCGTGCCTCAACGAATGAATGTATATACATATATTACACTACCAGCACACACTCTAATAGGCCGCATTCAAATTCAT

Intron 4 GTGGGTGTGG ... CGACGCCTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	26.79	41	15	2
A2	21.62	29	8	0
A3	35.14	24	13	0
A4	30	14	6	1
A5	50	14	14	1
A6	15.15	28	5	0
A7	27.91	93	36	1
A8	18.33	49	11	0
A9	28.18	79	31	1
A10	29.61	107	45	4

>TRINITY_DN99353_c0_g1_i4 from sample A5 / Example spliced isoform

CGACACAGTGGCCTCCACCGGCGGTGCGCACCGTTTTTTTTTTATCACGGAGGGTTCCAGTTGTAGGCTTCAAATCTTCTACGCCTCCCAAAACCCAAGATAGAGATCTGAGGAGCAAACCCAAGATAGAGATCTGAGGAGTTGATCATGATGTTGAAGCCCAGAGCATCTAATTATCATAAACTGCTACTGGAATTACG
CCGTCGGATCTCACATCCGACAGGCTTGTTCTTCTTCCTGGTTTTACTGCTTGCGCTACTCTGCAGCTTTTTCTTCTTCTTCAGACCCCGGTGTTTATTGCAGTCAGTCGTTCCGTGGAACGACCGCCCAACAGTAGCACAGTGGAGCAAGCAGTATACAGAGAGCGGTGCTGTGAAGCATGATGGATCATCCAAGCCCA
AGCCCAAGCCCAGGCCCAAGCCCAAGGCCAAGGCCAAACCCCAGCCCCAGCCCAAGCCCATGGATATGGCGATCGCGCCGCCTATTTCTCTTTCTGCGCCCAAACATACTCAGGTCAAGTCGCCCACTTATCCGCCCAGTGGAAATGGCAAGGTATTTAACTGTTCAGTTGGCAACGCGTGTAACAGCTGGCAGACTAAA
GAGGCTGTGAAGGAGAAGTGGGATCCTAAAGTAAGGGCTGCGTGCCCCAGTTACTTTGGATTTATTGAGGAGGATCTGAAGCCATGGCGGGAGAGTGGAATCACGCTGGACATGGTGGAGAGAGCTCGAAAGACGGCAAACTTCAGGCTGGTTATATTGAAAGGGCGGATGTACATACGAACATACACCAAGTCTTGGCA
GACAAGAGACGTGTTTACGATATGGGGTCTCATTCAGCTCATGGAAAAATACGGAGGGATGCTCCCGGATCTGGATCTCATGTTCGACTGCGTCGACTGGCCTGTCATAAAAGCCGATGCTTATGCCGATGCCAATGCCAATGCCACTGTCCGTCCTCCTCCCTTGTTTCGTTACTGTGGCGACGATAACACTCTCGACA
TTGCCTTTCCTGACTGGTCTTTCTGGGGTTGGTCTGAAGTCAATACTCGACCATGGGACGGCCTTTTGAATGACATCCGCAAAGGAGCCAAGAAGCTGAAATGGGAAGATAGAGATCCCACTGCATTCTGGAAGGGTAACCCATATGTGGCCAAAGTCAGAGAGGATCTTATGAAATGCAATCTTTCAGATTGGAATGCC
CGCCTTTACAACCAGGACTGGATCAAAGAATCAGGGCAAGGCTATAAACATTCCAAACTGTCCGATCAATGCCATCACAGATACAAGATATATGTTGAAGGCTCTGCCTGGTCAGTGAGCTTGAAGAATATTTTAGCCTGTGATTCTGAAACCCTTATGGTGAAACCGTTATACTATGACTTCTTTTCCAGGGCACTTAT
GCCCCTTGAACATTACTGGCCTGTTAGACTTGACAGAAAATGCGAGTCCATCAAGTTTGCCGTTGATTGGGGAAACAATCACTCAAACAAGGCAAAGGCCATTGGGGACGCTGGGAGCAGTTTCATGAGAAAGGAGCTGAAGATGTCGAATGTGTATGACTACATGTTCCATCTCCTCACGGAATACGCCAAGTTGTTGA
GATACAAACCAGTGATTCCAAAAGGAGCTAAGGAGGTATGTACTCAATCCATGTTGTGTTCCAGAAAGGATAGAGTTGAGAGAAGGTTCATGCGGGAGTCTATGGTGAAACGTCCAACTGAGACAGGACCATGCGATTTACACATTAATCATGGATTCGTCAAGGATTGGAATGAGAGAAAAGCTCAAGCAATTAAGCAA
GTTGAAGACATGGAAGAAAGAGCATGGCGTGATTTAAAAAGCATGGGGTAGATCATAATCATTCAAAATCCCGGCAGTTTGAAATTTGTGACAAGTCATTGAGTTATCTTGCCTAATATTTTTGAGGGCGTGGCAAACCCTTCGCGTTTTAGTGAGTCCTCCATGTATTTTTCAAGTCATATGCCTAGTTTACATAGTTG
ATGATACACTTGTTTTGGAATGCATTATATATTTTCTTACAAGTAAATAGCTTGTGATCTATATACCACAGGGCTGGGCTTTTGTCCAACAAAGAACAGGACGAGACATCTCGTGCCTCAACGAATGAATGTATATACATATATTACACTACCAGCACACACTCTAATAGGCCGCATTCAAATTCATTCACTTTGAGGTC
GATGCTGAGCTGCTAAAATTGATTTGAATTTAGATGAATTATTTTCCAAACTACCATCCTAATCCTCTTGAGCGTAGAGATTATAAAATTGATTTGAATTTAGATGAATTATTTTCCAAACTACCATCCTAATCCTCTTGAGCGTAGAGATTATAAAATTGATTTGAATTTAGATG

>TRINITY_DN99353_c0_g1_i1 from sample A5 / Example unspliced isoform:

CGACACAGTGGCCTCCACCGGCGGTGCGCACCGTTTTTTTTTTATCACGGAGGGTTCCAGTTGTAGGCTTCAAATCTTCTACGCCTCCCAAAACCCAAGATAGAGATCTGAGGAGCAAACCCAAGATAGAGATCTGAGGAGTTGATCATGATGTTGAAGCCCAGAGCATCTAATTATCATAAACTGCTACTGGAATTACG
CCGTCGGATCTCACATCCGACAGGCTTGTTCTTCTTCCTGGTTTTACTGCTTGCGCTACTCTGCAGCTTTTTCTTCTTCTTCAGACCCCGGgtgggtgtgggtgcgcgagtgggtttctgtttcttattatctttttgctcttcttcattataaaatctgcacaaagtcttcttctgactcccaatctgacgacgcctag


TGTTTATTGCAGT