NA ----> NA

Intron 1 GTATCAATAA ... GCTTGCTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	57.14	9	15	9
A2	58.62	6	14	3
A3	60	8	13	11
A4	50	6	10	2
A5	77.78	1	4	3
A6	51.9	19	26	15
A7	44.83	40	43	22
A8	47.06	36	36	28
A9	54.6	37	55	34
A10	36.2	52	37	22

>TRINITY_DN41276_c0_g1_i5 from sample A6 / Example spliced isoform

ACATCATCCATCATATTGCGATCGACATGGCCAACATCAATTCATAGCCAACATCAATTTAAAAGTTAACAGGAAAAGGCAGGCGCAGACTAACAATTCCCCCAAAGAAGCCACATGATGATTTCAGTTCTTCCAGGTTACCCATAGACAGGCCCAGTTAATCCTTACCTTTGTTAATTTCGGCCACGAAAGTCTTAAGA
GACGAACCAGGCCAGAAGGATTGCATTTGGGTGATCGGAATGCCAGTCTAAGATCCACAATTTGAATCGTTTCAGCATTCAGGCTTACGTTGTTTTCAGAATCCGTCGTCCGAGGAAACATCAGTAGGACATGATCAGCATAACGGTATTGTACACTTGAATATTAAAGATGGTGGAGACAATGGGACGAGCTACAGTAT
TGGGCAGCCGAGCATCCCACCACTCCTTCGGCCCCCAAGGTTGACTGCTGCAGACCAAGCTTTTATTTTCCTCAGTTTGATAGCATGCACGACAACAGTGGCATTTGTAAGCTTGATTTTTACTGCCATTCCAACATTAATTGCCATGAGAAGAGCAGCATTATCTCTGGAAAAGCTAGCAGATACAGCACGAGAAGAAC
TTCCTGGAACAATGGCAGCCATCAGGCTTTCAGGGATGGAAATTAGCGATCTTACACTTGAACTAAGTGACTTAAGTCAGGAGATCTCAGAGGGCGTCAGGAAGTCAGCACAAGCTGTCCAAGCAGCAGAAGTAGGGATTCGTCGCATTGGTGTTTTAGCATCTTCCAAGGCAATTTCAATGCTGCAAGAGCGTGCAAAT
CTACCTGTGGTCACCATAAAACCAGCTATGACAAGTGCTGCGGAGACAACTTCACATGTAGTTCAACGTGCACGAAGGGCAATATTGCATGTCATTTCACTACCCACCAACATTTCGAGTCCCAAAAAAGACAAATCAGAAATGTGATGCGGAAATGCAACAATAAATGCTATCTTCATGGAACTCTTGTTTATGATTTT
GGAAATAAGCAGCAACTTTGTGTAATATTATGGGAGATCAAAATAATATCTTCTTTGCAGTTCCAGCTGTTGTAGGTGAAATATAATCACTCTTATGGGAATTCACTGTCGAAAACATGCACAATTTTCTTAAGAGCTCTCATATATGGAGATACATCCTTGGAGAAAGTGTTGGCTGCAATAGAAATGAAATTTCGAAT
GCCACGCTATGCATGGATGAGTGGACTTGAAGAATGCAAATATAAGAACTACCTCTGTTTACATGGAGGGAGATAGGAAGTACAACTGCTACCAGATTCTTTGAAAATAACACGTTTTTACTAGTATTCTTCTAAATTGATTGATCCACACTTTGTAAACTCTGTTTACCTGATGAATTCTATATTTACAATGAATGGAA
CATGGTATGTCAAT

>TRINITY_DN41276_c0_g1_i6 from sample A6 / Example unspliced isoform:

ACATCATCCATCATATTGCGATCGACATGGCCAACATCAATTCATAGCCAACATCAATTTAAAAGTTAACAGGAAAAGGCAGGCGCAGACTAACAATTCCCCCAAAGAAGCCACATGATGATTTCAGTTCTTCCAGGTTACCCATAGACAGGCCCAGTTAATCCTTACCTTTGTTAATTTCGGCCACGAAAGTCTTAAGA
GACGAACCAGGCCAGAAGGATTGCATTTGGGTGATCGGAATGCCAGTCTAAGATCCACAATTTGAATCGTTTCAGCATTCAGgtatcaataaatgaacaatctgtatgcaccgagacgcggttaaggccgaactccgattttgcattggaatatcgtttccattgaaagcccgccatgatcacagccatttccatcattt
caggcccacccccaagctgtgtccccataaattctcggaccaattccttaataaaatgcggcacagcaggactgcttcttcctaccaattcccgtgataatccgagatgcgcaaccccccttagaaaaataaatagatttggaacccctttttattcgaagggaagtaatgcttgcttagGCTTACGTTGTTTTCAGAAT
CCGTCGTCCGAGGAAACATCAGTAGGACATGATCAGCATAACGGTATTGTACACTTGAATATTAAAGATGGTGGAGACAATGGGACGAGCTACAGTATTGGGCAGCCGAGCATCCCACCACTCCTTCGGCCCCCAAGGTTGACTGCTGCAGACCAAGCTTTTATTTTCCTCAGTTTGATAGCATGCACGACAACAGTGGC
ATTTGTAAGCTTGATTTTTACTGCCATTCCAACATTAATTTCCTCTCAATCAATGATGTGGTTCTCAATGCTTGTTAGGCCATGAGAAGAGCAGCATTATCTCTGGAAAAGCTAGCAGATACAGCACGAGAAGAACTTCCTGGAACAATGGCAGCCATCAGGCTTTCAGGGATGGAAATTAGCGATCTTACACTTGAACT
AAGTGACTTAAGTCAGGAGATCTCAGAGGGCGTCAGGAAGTCAGCACAAGCTGTCCAAGCAGCAGAAGTAGGGATTCGTCGCATTGGTGTTTTAGCATCTTCCAAGGCAATTTCAATGCTGCAAGAGCGTGCAAATCTACCTGTGGTCACCATAAAACCAGCTATGACAAGTGCTGCGGAGACAACTTCACATGTAGTTC
AACGTGCACGAAGGGCAATATTGCATGTCATTTCACTACCCACCAACATTTCGAGTCCCAAAAAAGACAAATCAGAAATGTGATGCGGAAATGCAACAATAAATGCTATCTTCATGGAACTCTTGTTTATGATTTTGGAAATAAGCAGCAACTTTGTGTAATATTATGGGAGATCAAAATAATATCTTCTTTGCAGTTCC
AGCTGTTGTAGGTGAAATATAATCACTCTTATGGGAATTCACTGTCGAAAACATGCACAATTTTCTTAAGAGCTCTCATATATGGAGATACATCCTTGGAGAAAGTGTTGGCTGCAATAGAAATGAAATTTCGAATGCCACGCTATGCATGGATGAGTGGACTTGAAGAATGCAAATATAAGAACTACCTCTGTTTACAT
GGAGGGAGATAGGAAGTACAACTGCTACCAGATTCTTTGAAAATAACACGTTTTTACTAGTATTCTTCTAAATTGATTGATCCACACTTTGTAAACTCTGTTTACCTGATGAATTCTATATTTACAATGAATGGAACATGGTATGTCAAT

Intron 2 GTATCAATAA ... TTGTTTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	59.26	8	15	8.3
A2	58.62	6	14	3
A3	58.14	9	13	12
A4	50	7	10	4
A5	75	1	4	2
A6	50	22	26	18
A7	43.33	51	43	35
A8	47.3	39	36	34
A9	53.85	40.7	55	40
A10	36.84	54	37	26

>TRINITY_DN115558_c0_g2_i1 from sample A1 / Example spliced isoform

CCCATTTTACCGTATAAAAATAAAAAGCATACACATCATCCATCATATTGCGATCGACATGGCCAACATCAATTCATAGCCAACATCAATTTAAAAGTTAACAGGAAAAGGCAGGCGCAGACTAACAATTCCCCCAAAGAAGCCACATGATGATTTCAGTTCTTCCAGGTTACCCATAGACAGGCCCAGTTAATCCTTAC
CTTTGTTAATTTCGGCCACGAAAGTCTTAAGAGACGAACCAGGCCAGAAGGATTGCATTTGGGTGATCGGAATGCCAGTCTAAGATCCACAATTTGAATCGTTTCAGCATTCAGAATCCGTCGTCCGAGGAAACATCAGTAGGACATGATCAGCATAACGGTATTGTACACTTGAATATTAAAGATGGTGGAGACAATGG
GACGAGCTACAGTATTGGGCAGCCGAGCATCCCACCACTCCTTCGGCCCCCAAGGTTGACTGCTGCAGACCAAGCTTTTATTTTCCTCAGTTTGATAGCATGCACGACAACAGTGGCATTTGTAAGCTTGATTTTTACTGCCATTCCAACATTAATTGCCATGAGAAGAGCAGCATTATCTCTGGAAAAGCTAGCAGATA
CAGCACGAGAAGAACTTCCTGGAACAATGGCAGCCATCAGGCTTTCAGGGATGGAAATTAGCGATCTTACACTTGAACTAAGTGACTTAAGTCAGGAGATCTCAGAGGGCGTCAGGAAGTCAGCACAAGCTGTCCAAGCAGCAGAAGTAGGGATTCGTCGCATTGGTGTTTTAGCATCTTCCAAGGCAATTTCAATGCTG
CAAGAGCGTGCAAATCTACCTGTGGTCACCATAAAACCAGCTATGACAAGTGCTGCGGAGACAACTTCACATGTAGTTCAACGTGCACGAAGGGCAATATTGCATGTCATTTCACTACCCACCAACATTTCGAGTCCCAAAAAAGACAAATCAGAAATGTGATGCGGAAATGCAACAATAAATGCTATCTTCATGGAACT
CTTGTTTATGATTTTGGAAATAAGCAGCAACTTTGTGTAATATTATGGGAGATCAAAATAATATCTTCTTTGCAGTTCCAGCTGTTGTAGGTGAAATATAATCACTCTTATGGGAATTCACTGTCGAAAACATGCACAATTTTCTTAAGAGCTCTCATATATGGAGATACATCCTTGGAGAAAGTGTTGGCTGCAATAGA
AATGAAATTTCGAATGCCACGCTATGCATGGATGAGTGGACTTGAAGAATGCAAATATAAGAACTACCTCTGTTTACATGGAGGGAGATAGGAAGTACAACTGCTACCAGATTCTTTGAAAATAACACGTTTTTACTAGTATTCTTCTAAATTGATTGATCCACACTTTGTAAACTCTGTTTACCTGATGAATTCTATAT
TTACAATGAATGGAACATGGTATGTCAAT

>TRINITY_DN115558_c0_g2_i5 from sample A1 / Example unspliced isoform:

CCCATTTTACCGTATAAAAATAAAAAGCATACACATCATCCATCATATTGCGATCGACATGGCCAACATCAATTCATAGCCAACATCAATTTAAAAGTTAACAGGAAAAGGCAGGCGCAGACTAACAATTCCCCCAAAGAAGCCACATGATGATTTCAGTTCTTCCAGGTTACCCATAGACAGGCCCAGTTAATCCTTAC
CTTTGTTAATTTCGGCCACGAAAGTCTTAAGAGACGAACCAGGCCAGAAGGATTGCATTTGGGTGATCGGAATGCCAGTCTAAGATCCACAATTTGAATCGTTTCAGCATTCAGgtatcaataaatgaacaatctgtatgcaccgagacgcggttaaggccgaactccgattttgcattggaatatcgtttccattgaaa
gcccgccatgatcacagccatttccatcatttcaggcccacccccaagctgtgtccccataaattctcggaccaattccttaataaaatgcggcacagcaggactgcttcttcctaccaattcccgtgataatccgagatgcgcaaccccccttagaaaaataaatagatttggaacccctttttattcgaagggaagta
atgctcgcttaggcttccgttgttttcagAATCCGTCGTCCGAGGAAACATCAGTAGGACATGATCAGCATAACGGTATTGTACACTTGAATATTAAAGATGGTGGAGACAATGGGACGAGCTACAGTATTGGGCAGCCGAGCATCCCACCACTCCTTCGGCCCCCAAGGTTGACTGCTGCAGACCAAGCTTTTATTTTC
CTCAGTTTGATAGCATGCACGACAACAGTGGCATTTGTAAGCTTGATTTTTACTGCCATTCCAACATTAATTGCCATGAGAAGAGCAGCATTATCTCTGGAAAAGCTAGCAGATACAGCACGAGAAGAACTTCCTGGAACAATGGCAGCCATCAGGCTTTCAGGGATGGAAATTAGCGATCTTACACTTGAACTAAGTGA
CTTAAGTCAGGAGATCTCAGAGGGCGTCAGGAAGTCAGCACAAGCTGTCCAAGCAGCAGAAGTAGGGATTCGTCGCATTGGTGTTTTAGCATCTTCCAAGGCAATTTCAATGCTGCAAGAGCGTGCAAATCTACCTGTGGTCACCATAAAACCAGCTATGACAAGTGCTGCGGAGACAACTTCACATGTAGTTCAACGTG
CACGAAGGGCAATATTGCATGTCATTTCACTACCCACCAACATTTCGAGTCCCAAAAAAGACAAATCAGAAATGTGATGCGGAAATGCAACAATAAATGCTATCTTCATGGAACTCTTGTTTATGATTTTGGAAATAAGCAGCAACTTTGTGTAATATTATGGGAGATCAAAATAATATCTTCTTTGCAGTTCCAGCTGT
TGTAGGTGAAATATAATCACTCTTATGGGAATTCACTGTCGAAAACATGCACAATTTTCTTAAGAGCTCTCATATATGGAGATACATCCTTGGAGAAAGTGTTGGCTGCAATAGAAATGAAATTTCGAATGCCACGCTATGCATGGATGAGTGGACTTGAAGAATGCAAATATAAGAACTACCTCTGTTTACATGGAGGG
AGATAGGAAGTACAACTGCTACCAGATTCTTTGAAAATAACACGTTTTTACTAGTATTCTTCTAAATTGATTGATCCACACTTTGTAAACTCTGTTTACCTGATGAATTCTATATTTACAATGAATGGAACATGGTATGTCAAT