NA ----> NA

Intron 1 GTGAGATTTA ... TTTAAAACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	60	14	8	21
A2	58.7	19	5	27
A3	62.96	10	3	17
A4	80	4	1	16
A5	57.14	9	4	12
A6	63.45	87	24	151
A7	58.67	81	14	115
A8	61.86	37	11	60
A9	68.54	56	17	122
A10	57.36	55	20	74

>TRINITY_DN36580_c0_g1_i3 from sample A7 / Example spliced isoform

AATGGGTGGTAAGCCCTCTTACACTCACCGGCAATACACTTGGGAATCCATCCGGGCCTATTCGTTTATCATAAAAAAAAAAACCAACATATGGTCTGGTTGCCCTTGCTCACGATACACACCAAACTTCGGCTACTACGAAGGCGTTTTTAACAAAAGATTACTCGAGATTTCAAGCATCGAAGACTTCATTGAACTGA
AGTTACAAGAGGGGCTTCGGAGTAAGTTTGAAAGAAGCCTTCATCAGAGAGTATCCATGGCCGCATGGCCATAGATATATGCGCCATTTAAAG

>TRINITY_DN36580_c0_g1_i2 from sample A7 / Example unspliced isoform:

AATGGGTGGTAAGCCCTCTTACACTCACCGGCAATACACTTGGGAATCCATCCGGGCCTATTCGTTTATCATAAAAAAAAAAACCAACATATGGTCTGGTTGCCCTTGCTCACGATACACACCAAACTTCGGCTACTACGAAGGCgtgagatttaaaaaaatgaaccatacattttatgccaaaaatattaatacgagat
tcttcatttaaactttcaacccacaaactctttatcgaagcttgaaattctttctactgggatttaaaacagGTTTTTAACAAAAGATTACTCGAGATTTCAAGCATCGAAGACTTCATTGAACTGAAGTTACAAGAGGGGCTTCGGAGTAAGTTTGAAAGAAGCCTTCATCAGAGAGTATCCATGGCCGCATGGCCATA
GATATATGCGCCATTTAAAGCTCGACCAATTTTTGTTGCTGGCGTGCAAATTCTGTTGCTGCTGCTGTGTGCGACAGAAATCGTTCTATTTGTCCAAGGAGATTCAACTGTTCAGTATTGCCTACTGCTTCCACAGGCCTGATGCTAATGCTGCTGCAAAAGAATTCAAATATTTTCATCAAGACTGGTGTCTGCCTGGG
CAACAAAGGAATTTGGATGAAGATTGTTGCCCACCTGGGCCACAAAATCACTTGCCTGTAAATTGCTGCATGCCTGAAGTTGCTTGAAGCTGCTGGAAATCTCCTGAAATCCAACCAAATCTGCCTGAAGGCTGATTTATTACTGTACGTGTGTATCGAGTAGGTTGAAGGCTTGAAAAATTGAAGCTGAAGAACAACCA
GAGTTTTCTGAGGAAAAATTGGCTACAGATCTTCTGGAAGGATTCTATAACATCTGTGCATAGCGTTTCCCATCAGATATGGGCCGGAAAGGGAAAGGGTTGTATATAAATCCAAAGAAGTTTGGCCAAAATCGTCCACCTTGCACAGTAGAAATGGTATCATTTCTGTCTTGTTTGGCAATCAATCAAAATAATGATGA
TAAGTGTGTCAAGGAGAAGAACCTTTTGATGGCGTGTGTGGATGCACAGAGTGGTAAGAAGAAGAAGCCTTGGGGTACCATTAACTACCACCTACAAAGACTGAGCAAAGGAAAGAACTCATGAATAATTCTATTTATGAACTCCGGTAAATTGTGCATTTTACTAGGCCTTCATGACCACTTCTGGCTGTCAGTTTAGT
AAAATGCATTGCTGGAAGGTATCTTTTTATTTTGAGGTCTAGGTTGGTTTCAACCTGAGAGATTTTGATTTCTAAAGCTAGACTTTACCATTGGAGAGAACAATGTTCCTTGCTTGAAAGTAAAATCTGAGAAAGAATGTGGGGAATTTGATATTTTAATTCTTTACTCTTTAACCCATCTGTTTTAGAGATTTTTCACT
ACACTTCATTCCAATAATGTCCCTAGATTATTCATCTTTTTGCTTTATTGAATTTAAGCTTTCTTATATTGAATAGAATGTTCCTGACACACCATTCTGTTGTAAATGGAGCAATTTTCTGTTAAATCATTATGCCATTGATCCAATGTTGTCTCTGTTGTCTTGTTATTAGTAAGCATTGCAACCACCACTATTTTTCC
CTTGTAACCGTAGACTCCTGTTATCTAATTTAGTTGTTATTCACATCTTATACCGACCTGACAGCTATTGAATAAAGATTTATCAGATGTCCTGCAT

Intron 2 GTATGGATTT ... CATGTAACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	18.37	80	0	18
A2	13.24	59	1	9
A3	15.79	80	0	15
A4	18.18	81	0	18
A5	20.29	55	4	14
A6	20.99	1039	1	276
A7	20.93	631	0	167
A8	18.7	752	0	173
A9	20.2	648	1	164
A10	18.06	431	0	95

>TRINITY_DN91941_c0_g1_i1 from sample A5 / Example spliced isoform

ATTCGTTTATCATAAAAAAAAAAACCAACATATGGTCTGGTTGCCCTTGCTCACGATACACACCAAACTTCGGCTACTACGAAGGCGTGAGATTTAAAAAAAATGAACCATACATTTTATGCCAAAAATATTAATACGAGATTCTTCATTTAAACTTTCAACCCACAAACTCTTTATCGAAGCTTGAAATTCTTTCTACT
GGGATTTAAAACAGGTTTTTAACAAAAGATTACTCGAGATTTCAAGCATCGAAGACTTCATTGAACTGAAGTTACAAGAGGGGCTTCGGAGTAAGTTTGAAAGAAGCCTTCATCAGAGAGTATCCATGGCCGCATGGCCATAGATATATGCGCCATTTAAAGGAAAAATTGGCTACAGATCTTCTGGAAGGATTCTATAA
CATCTGTGCATAGCGTTTCCCATCAGATATGGGCCGGAAAGGGAAAGGGTTGTATATAAATCCAAAGAAGTTTGGCCAAAATCGTCCACCTTGCACAGTAGAAATGGTATCATTTCTGTCTTGTTTGGCAATCAATCAAAATAATGATGATAAGTGTGTCAAGGAGAAGAACCTTTTGATGGCGTGTGTGGATGCACAGA
GTGGTAAGAAGAAGAAGCCTTGGGGTACCATTAACTACCACCTACAAAGACTGAGCAAAGGAAAGAACTCATGAATAATTCTATTTATGAACTCCGGTAAATTGTGCATTTTACTAGGCCTTCATGACCACTTCTGGCTGTCAGTTTAGTAAAATGCATTGCTGGAAGGTATCTTTTTATTTTGAGGTCTAGGTTGGTTT
CAACCTGAGAGATTTTGATTTCTAAAGCTAGACTTTACCATTGGAGAGAACAATGTTCCTTGCTTGAAAGTAAAATCTGAGAAAGAATGTGGGGAATTTGATATTTTAATTCTTTACTCTTTAACCCATCTGTTTTAGAGATTTTTCACTACACTTCATTCCAATAATGTCCCTAGATTATTCATCTTTTTGCTTTATTG
AATTTAAGCTTTCTTATATTGAATAGAATGTTCCTGACACACCATTCTGTTGTAAAT

>TRINITY_DN91941_c0_g1_i2 from sample A5 / Example unspliced isoform:

GCGTGTGTGGATGCACAGgtatggattttatatatattttttcttttctgaagtcataatttctgtatttactacctattttaggactagggttcatttctaattctaattacatacatgtaacagAGTGGTAAGAAGAAGAAGCCTTGGGGTACCATTAACTACCACCTACAAAGACTGAGCAAAGGAAAGAACTCATG
AATAATTCTATTTATGAACTCCGGTAAATTGTGCATTTTACTAGGCCTTCATGACCACTTCTGGCTGTCAGTTTAGTAAAATGCATTGCTGGAAGGTATCTTTTTATTTTGAGGTCTAGGTTGGTTTCAACCTGAGAGATTTTGATTTCTAAAGCTAGACTTTACCATTGGAGAGAACAATGTTCCTTGCTTGAAAGTAA
AATCTGAGAAAGAATGTGGGGAATTTGATATTTTAATTCTTTACTCTTTAACCCATCTGTTTTAGAGATTTTTCACTACACTTCATTCCAATAATGTCCCTAGATTATTCATCTTTTTGCTTTATTGAATTTAAGCTTTCTTATATTGAATAGAATGTTCCTGACACACCATTCTGTTGTAAAT

Intron 3 GCCTGATGCT ... GTTTTCTGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	15.7	102	9	29
A2	12.08	131	7	29
A3	13.77	166	25	28
A4	14.6	117	14	26
A5	17.95	64	16	12
A6	10.64	1058	73	179
A7	10.48	819.5	62	130
A8	11.27	622	52	106
A9	12.16	874	85	157
A10	10.87	701	54	117

>TRINITY_DN35866_c0_g1_i2 from sample A9 / Example spliced isoform

CTTATGGATATGGGTGGTAAGCCCTCTTACACTCACCGGCAATACACTTGGGAATCCATCCGGGCCTATTCGTTTATCATAAAAAAAAAAACCAACATATGGTCTGGTTGCCCTTGCTCACGATACACACCAAACTTCGGCTACTACGAAGGCGTTTTTAACAAAAGATTACTCGAGATTTCAAGCATCGAAGACTTCAT
TGAACTGAAGTTACAAGAGGGGCTTCGGAGTAAGTTTGAAAGAAGCCTTCATCAGAGAGTATCCATGGCCGCATGGCCATAGATATATGCGCCATTTAAAGGAAAAATTGGCTACAGATCTTCTGGAAGGATTCTATAACATCTGTGCATAGCGTTTCCCATCAGATATGGGCCGGAAAGGGAAAGGGTTGTATATAAAT
CCAAAGAAGTTTGGCCAAAATCGTCCACCTTGCACAGTAGAAATGGTATCATTTCTGTCTTGTTTGGCAATCAATCAAAATAATGATGATAAGTGTGTCAAGGAGAAGAACCTTTTGATGGCGTGTGTGGATGCACAGAGTGGTAAGAAGAAGAAGCCTTGGGGTACCATTAACTACCACCTACAAAGACTGAGCAAAGG
AAAGAACTCATGAATAATTCTATTTATGAACTCCGGTAAATTGTGCATTTTACTAGGCCTTCATGACCACTTCTGGCTGTCAGTTTAGTAAAATGCATTGCTGGAAGGTATCTTTTTATTTTGAGGTCTAGGTTGGTTTCAACCTGAGAGATTTTGATTTCTAAAGCTAGACTTTACCATTGGAGAGAACAATGTTCCTT
GCTTGAAAGTAAAATCTGAGAAAGAATGTGGGGAATTTGATATTTTAATTCTTTACTCTTTAACCCATCTGTTTTAGAGATTTTTCACTACACTTCATTCCAATAATGTCCCTAGATTATTCATCTTTTTGCTTTATTGAATTTAAGCTTTCTTATATTGAATAGAATGTTCCTGACACACCATTCTGTTGTAAATGGAG
CAATTTTCTGTTAAATCATTATGCCATTGATCCAATGCTGTCTCTGTTGTCTTGTTATTAGTAAGCATTGCAACCACCACTATTTTTCCCTTGTAACCGTAGACTCCTGTTATCTAATTTAGTTGTTATTCACATCTTATACCGACCTGACAGCTATTGAATAAAGATTTATCAGATGTCCTGC

>TRINITY_DN35866_c0_g1_i1 from sample A9 / Example unspliced isoform:

CTTATGGATATGGGTGGTAAGCCCTCTTACACTCACCGGCAATACACTTGGGAATCCATCCGGGCCTATTCGTTTATCATAAAAAAAAAAACCAACATATGGTCTGGTTGCCCTTGCTCACGATACACACCAAACTTCGGCTACTACGAAGGCGTTTTTAACAAAAGATTACTCGAGATTTCAAGCATCGAAGACTTCAT
TGAACTGAAGTTACAAGAGGGGCTTCGGAGTAAGTTTGAAAGAAGCCTTCATCAGAGAGTATCCATGGCCGCATGGCCATAGATATATGCGCCATTTAAAGgcctgatgctaatgctgctgcaaaagaattcaaatattttcatcaagactggtgtctgcctgggcaacaaaggaatttggatgaagattgttgcccacc
tgggccacaaaatcacttgcctgtaaattgctgcatgcctgaagttgcttgaagctgctggaaatctcctgaaatccaaccaaatctgcctgaaggctgatttattactgtacgtgtgtatcgagtaggttgaaggcttgaaaaattgaagctgaagaacaaccagagttttctgagGAAAAATTGGCTACAGATCTTCT
GGAAGGATTCTATAACATCTGTGCATAGCGTTTCCCATCAGATATGGGCCGGAAAGGGAAAGGGTTGTATATAAATCCAAAGAAGTTTGGCCAAAATCGTCCACCTTGCACAGTAGAAATGGTATCATTTCTGTCTTGTTTGGCAATCAATCAAAATAATGATGATAAGTGTGTCAAGGAGAAGAACCTTTTGATGGCGT
GTGTGGATGCACAGAGTGGTAAGAAGAAGAAGCCTTGGGGTACCATTAACTACCACCTACAAAGACTGAGCAAAGGAAAGAACTCATGAATAATTCTATTTATGAACTCCGGTAAATTGTGCATTTTACTAGGCCTTCATGACCACTTCTGGCTGTCAGTTTAGTAAAATGCATTGCTGGAAGGTATCTTTTTATTTTGA
GGTCTAGGTTGGTTTCAACCTGAGAGATTTTGATTTCTAAAGCTAGACTTTACCATTGGAGAGAACAATGTTCCTTGCTTGAAAGTAAAATCTGAGAAAGAATGTGGGGAATTTGATATTTTAATTCTTTACTCTTTAACCCATCTGTTTTAGAGATTTTTCACTACACTTCATTCCAATAATGTCCCTAGATTATTCAT
CTTTTTGCTTTATTGAATTTAAGCTTTCTTATATTGAATAGAATGTTCCTGACACACCATTCTGTTGTAAATGGAGCAATTTTCTGTTAAATCATTATGCCATTGATCCAATGCTGTCTCTGTTGTCTTGTTATTAGTAAGCATTGCAACCACCACTATTTTTCCCTTGTAACCGTAGACTCCTGTTATCTAATTTAGTT
GTTATTCACATCTTATACCGACCTGACAGCTATTGAATAAAGATTTATCAGATGTCCTGC