NA ----> NA

Intron 1 GTAAATGGAG ... TGTGTAACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	41.14	71.5	50	9
A2	34.69	54	28.5	14.5
A3	41.27	83	58	19
A4	41.28	38.5	27	11
A5	41.11	43	30	13
A6	33.81	128	63.5	26
A7	40.16	335	224	54.5
A8	37.97	329.5	200.5	56
A9	36.34	252.5	143	40.5
A10	41.31	285	200	40

>TRINITY_DN131576_c1_g2_i9 from sample A1 / Example spliced isoform

TGGCAAAATCACGAGGAGCGACATTTGCTATTATTGCTGGGAGAAGAAAAGATATAGAGGAGCCGAGCAGATAGAGGGTTTGTAAGATGGAGAGGTGGGAAGATTACAGTGTCTGCAATTATGGCAAATTCACGAGGATCCTCAGCAGATAGAGAGGAGCCGAGAAGATATACTAGACAGATATAGGGTTTGCAATTATG
GGAGAAGAAGGTTGAGGAGCCGAGAAGATATAGCAGAAAGATAGATAGTGTCTGCAATTATGGGAGAAGAAGGTTGAAGGTTGAATGATTTTTGGTTTGATTATGGTTTTGGATTTATGTTTTTCTCTTCAGAGCATGGCCATGCGTATTTGGTTTTATCTTTCATTCTGTGTTGATTTTTTTTCCTTTCCTTTTTTTAT
AATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTGGGCTCTGTTTTTATAATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTCGGCTCTGTTTTGAGTCTGGTTGGTTTGGGATCTAGAGGGAGGATGAAGGATTAAAATCCCAGAAGAAGTTGGCATCACTGGGTGGCCAACTGCAAAGGCGTAGAAGAGCCAGAG
CCACAAGACCAAGACCAAGAGCCAGAGCAGAAATCTCAGTTGCGGCGGAGTTTCAGGGTTGGAGCTGAATGAAAGCTTCAAGTTAGTTTTGGGAGTGCATAAGTAAAGATAGAAAGCATTTTTGATGTGAACAGAAGAAAAAAATGTAACAGGTGAATGAAGGCTACAGGTTATTTTTGGGAGTGCTGCATAAGAAAGAC
AAAGAACTTTGCAGGAGACTTTTGAGAGTGCTGCATAAGTAAAGACAAAGAACTTTGCAGGAGACTGATTATAGAAAGTGTAATTATATTTCCTTAAATGTAAAAACTCAAAAAATATATTATTAATAAAATTATTATTTTTCTAGGGAAGGGGTGGTGTGCCCCTTCCCAAATCCTTAAAGATAGCCAGCAAGGGTTAG
CTATCTTTGAG

>TRINITY_DN131576_c1_g2_i4 from sample A1 / Example unspliced isoform:

AGAAGGTTGAGGAGCCGAGAAGATATAGCAGAAAGATAGATAGTGTCTGCAATTATGGGAGAAGAAGGTTGAGGAGCCGAGAAGATATAGCAGAAAGATAGATAGTGTCTGCAATTATGGGAGAAGAAGGTTGAAGGTTGAATGATTTTTGGTTTGATTATGGTTTTGGATTTATGTTTTTCTCTTCAGAGCATGGCCAT
GCGTATTTGGTTTTATCTTTCATTCTGTGTTGATTTTTTTTCCTTTCCTTTTTTTATAATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTGGGCTCTGTTTTTATAATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTCGGCTCTGTTTTGAGTCTGGTTGGTTTGGGATCTAGAGGGAGGATGAAGGATTAAAAT
CCCAGAAGAAGTTGGCATCACTGGGTGGCCAACTGCAAAGGCGTAGAAGAGCCAGAGCCACAAGACCAAGACCAAGAGCCAGAGCAGAAATCTCAGTTGCGGCGGAGTTTCAGGGTTGGAGCTGAATGAAAGCTTCAAGTTAGTTTTGGGAGTGCATAAGTAAAGATAGAAAGCATTTTTGATGTGAACAGAAGAAAAAA
ATGTAACAGgtaaatggagagtgcaagttatatttgaaactgtattgacagaattaatatttgagagataagaaaaatgtaaacaattatctatttttatggcattttaaatttattgttattattattaaaaattaaatttgtgttataattttaatatatttttggtgtgtaacagGTGAATGAAGGCTACAGGTTAT
TTTTGGGAGTGCTGCATAAGAAAGACAAAGAACTTTGCAGGAGACTTTTGAGAGTGCTGCATAAGTAAAGACAAAGAACTTTGCAGGAGACTGATTATAGAAAGTGTAATTATATTTCCTTAAATGTAAAAACTCAAAAAATATATTATTAATAAAATTATTATTTTTCTAGGGAAGGGGTGGTGTGCCCCTTCCCAAAT
CCTTAAAGATAGCCAGCAAGGGTTAGCTATCTTTGAG

Intron 2 GTTTGTGATG ... CGGATTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	18.11	168.6	37	24.1
A2	10.83	134.3	16.2	8.7
A3	14.85	168.6	29.3	13.7
A4	14.58	83.3	14.2	13
A5	19.69	65.6	16	13.9
A6	8.31	257.6	23.2	9.5
A7	7.43	638.1	50.8	35.3
A8	9.76	636.4	68.3	27.9
A9	7.69	400.1	33	27.4
A10	7.14	523.1	40	16.3

>TRINITY_DN131576_c1_g2_i8 from sample A1 / Example spliced isoform

TGGCAAAATCACGAGGAGCGACATTTGCTATTATTGCTGGGAGAAGAAAAGATATAGAGGAGCCGAGCAGATAGAGGGTTTGTAAGATGGAGAGGTGGGAAGATTACAGTGTCTGCAATTATGGCAAATTCACGAGGATCCTCAGCAGATAGAGAGGAGCCGAGAAGATATACTAGACAGATAGAGGGTTTGCCAAATGT
AGATGATAGATATATAGAGGGTTTGCAATTATGGGAGAAGGTTGAGGAGCCGAGAAGATATAGCAGAAAGATAGATAGTGTCTGCAATTATGGGAGAAGAAGGTTGAAGGTTGAATGATTTTTGGTTTGATTATGGTTTTGGATTTATGTTTTTCTCTTCAGAGCATGGCCATGCGTATTTGGTTTTATCTTTCATTCTG
TGTTGATTTTTTTTCCTTTCCTTTTTTTATAATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTGGGCTCTGTTTTTATAATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTCGGCTCTGTTTTGAGTCTGGTTGGTTTGGGATATACAGGGAGGATGAAGGATTAAAATCCCAGAAGAAGTTGGCATCACTGGGTG
GCCAACTGCAAAGGCGTAGAAGAGCCAGAGCCACAAGACCAAGACCAAGAGCCAGAGCAGAAATCTCAGTTGCGGCGGAATTTCAGGGTTGGAGGTGAATGAAGGCTACAGGTTATTTTTGGGAGTGCTGCATAAGAAAGACAAAGAACTTTGCAGGAGACTTTTGAGAGTGCTGCATAAGTAAAGACAAAGAACTTTGC
AGGAGACTGATTATAGAAAGTGTAATTATATTTCTTTAAATGTAATTTTTTTTAATGTAAAAACTCAAAAAATATATTATTAATAAAATTATTATTTTTCTAGGGAAGGGGTGGTGTGCCCCTTCCCAAATCCTTAAAGATAGCCAGCAAGGGTTAGCTATCTTTGAG

>TRINITY_DN131576_c1_g2_i15 from sample A1 / Example unspliced isoform:

TGGCAAAATCACGAGGAGCGACATTTGCTATTATTGCTGGGAGAAGAAAAGATATAGAGGAGCCGAGCAGATAGAGGGTTTGTAAGATGGAGAGGTGGGAAGATTACAGTGTCTGCAATTATGGCAAATTCACGAGGATCCTCAGCAGATAGAGAGGAGCCGAGAAGATATACTAGACAGATAGAGGGTTTGCCAAATGT
AGATGATAGATATATAGAGGGTTTGCAATTATGGGAGAAGGTTGAGGAGCCGAGAAGATATAGCAGAAAGATAGATAGTGTCTGCAATTATGGGAGAAGAAGGTTGAAGGTTGAATGATTTTTGGTTTGATTATGGTTTTGGATTTATGTTTTTCTCTTCAGAGCATGGCCATGCGTATTTGGTTTTATCTTTCATTCTG
TGTTGATTTTTTTTCCTTTCCTTTTTTTATAATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTGGGCTCTGTTTTTATAATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTCGGCTCTGTTTTGAGTCTGGTTGGTTTGGGATATACAGGGAGGATGAAGGATTAAAATCCCAGAAGAAGTTGGCATCACTGGGTG
GCCAACTGCAAAGGCGTAGAAGgtttgtgatgtttaaatttctggatggacatttaatatatatatattgcattatttcatcatgtaatgttttgtcccggattgcagAGCCAGAGCCACAAGACCAAGACCAAGAGCCAGAGCAGAAATCTCAGTTGCGGCGGAATTTCAGGGTTGGAGGTGAATGAAGGCTACAGGTT
ATTTTTGGGAGTGCTGCATAAGAAAGACAAAGAACTTTGCAGGAGACTTTTGAGAGTGCTGCATAAGTAAAGACAAAGAACTTTGCAGGAGACTGATTATAGAAAGTGTAATTATATTTCCTTAAATGTAAAAACTCAAAAAATATATTATTAATAAAATTATTATTTTTCTAGGGAAGGGGTGGTGTGCCCCTTCCCAA
ATCCTTAAAGATAGCCAGCAAGGGTTAGCTATCTTTGAG

Intron 3 GTTTGTGATG ... CGGATTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	17.42	171	18	36
A2	11.96	133	3	18
A3	10.49	170.7	9	20
A4	15.95	84.3	6	16
A5	21.54	65.7	10	18
A6	6.84	259.3	0	19
A7	9.85	643	0	70
A8	8.64	637	0	60
A9	11.33	401.3	2	51
A10	6.1	524.7	0	34

>TRINITY_DN108722_c1_g1_i4 from sample A5 / Example spliced isoform

ACGAGGAGCGACATTTGCTATTATTGCTGGGAGAAGAAAAGATATAGAGGAGCCGAGCAGATAGAGGGTTTGTAAGATGGAGAGGTGGGAAGATTACAGTGTCTGCAATTATGGCAAATTCACGAGGATCCTCAGCAGATAGAGAGGAGCCGAGAAGATATACTAGACAGATAGAGGGTTTGCCAAATGTAGATGATAGA
TATATAGAGGGTTTGCAATTATGGGAGAAGGTTGAGGAGCCGAGAAGATATAGCAGAAAGATAGATAGTGTCTGCAATTATGGGAGAAGAAGGTTGAAGGTTGAATAATTTTTGTGGTTTGATTATGGTTTTGGATTTATGTTTTTCTCTTCAGAGCATGGCCATGCGTATTTGGTTTTATGTTTCATTCTGTGTTGATT
TTTTTTCCTTTCCTTTTTTTATAATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTGGGCTCTGTTTTTATAATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTCGGCTCTGTTTTGAGTCTGGTTGGTTTGGGATATACAGGGAGGATGAAGGATTAAAATCCCAGAAGAAGTTGGCATCACTGGGTGGCCAACTG
CAAAGGCGTAGAAGAGCCAGAGCCACAAGACCAAGACCAAGAGCCAGAGCAGAAATCTCAGTTGCGGCGGAATTTCAGGGTTGGAGGTGAATGAAGGCTACAGGTTATTTTTGGGAGTGCTGCATAAGAAAGACAAAGAACTTTGCAGGAGACTTTTGAGAGTGCTGCATAAGTAAAGACAAAGAACTTTGCAGTAGACT
AATTATAGAAAGTGTAATTATATTTCCTTAAATGTAAAAACTCAAAAAATATATTATTAATAAAATTATTATTTTTCTAGGGAAGGGGTGGTGTGCCCCTTCCCAAATCCTTAAAGATAGCCAGCAAGGGTTAGCTATCT

>TRINITY_DN108722_c1_g1_i5 from sample A5 / Example unspliced isoform:

ATACAGGGAGGATGAAGGATTAAAATCCCAGAAGAAGTTGGCATCACTGGGTGGCCAACTGCAAAGGCGTAGAAGgtttgtgatgtttaaatttctggatggacatttaatatatatattgcattatttcatcatgtaatgttttgtcccggattgcagAGCCAGAGCCACAAGACCAAGACCAAGAGCCAGAGCAGAAA
TCTCAGTTGCGGCGGAGTTTCAGGGTTGGAGCTGAATGAAAGCTTCAAGTTAGTTTTGGGAGTGCATAAGTAAAGATAGAAAGCATTTTTGATGTGAACAGAAGAAAAAAATGTAACAGGTGAATGAAGAGTGCAAGTTATATTTGAAACTGTATTGACAGAATTAATATTTGAGAGATAAGAAAAATGTAAACAATTAT
CTATTTTTATGGCATTTTAAATTTATTGTTATTATTATTAAAAATTAAATTTGTGTTATAATTTTAATATATTTTTGGTGTGTAACAGGTGAATGAAGGCTACAGGTTATTTTTGGGAGTGCTGCATAAGTAAAGACAAAGAACTTTGCAGTAGACTAATTATAGAAAGTGTAATTATATTTCCTTAAATGTAAAAACTC
AAAAAATATATTATTAATAAAATTATTATTTTTCTAGGGAAGGGGTGGTGTGCCCCTTCCCAAATCCTTAAAGATAGCCAGCAAGGGTTAGCTATCT

Intron 4 GTAGACAATT ... TGTGTAACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	10.53	17	3	1
A2	11.11	12	3	0
A3	9.52	19	2	2
A4	28.21	14	7	4
A5	5	19	2	0
A6	0	31	0	0
A7	0.84	59	1	0
A8	3.57	81	3	3
A9	0	66	0	0
A10	0	59	0	0

>TRINITY_DN103856_c3_g1_i3 from sample A4 / Example spliced isoform

GATTTATGTTTTTCTCTTCAGAGCATGGCCATGCGTATTTGGTTTTATCTTTCATTCTGTGTTGATTTTTTTTCCTTTCCTTTTTTTATAATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTGGGCTCTGTTTTTATAATTCTTTTATTTTCGTTTTGGGTTTTGCTTTGTTCGGCTCTGTTTTGAGTCTGGTTGGTT
TGGGATATACAGGGAGGATGAAGGATTAAAATCCCAGAAGAAGTTGGCATCACTGGGTGGCCAACTGCAAAGGCGTAGAAGAGCCAGAGCCACAAGACCAAGACCAAGAGCCAGAGCAGAAATCTCAGTTGCGGCGGAGTTTCAGGGTTGGAGGCTGAAAAAAAACAGTTGGATGAAGAGTGCAAGTGTTCGACATAATT
AATATTTTCAGATAAATATAAGAAAAATCTGAATGAAAGCTTCAAGTTAGTTTTGGGAGTGCATAAGTAAAGATAGAAAGCATTTTTGATGTGAACAGATGAAAAAAATGTAACAGGTGAATGAAGGCTACAGGTTATTTTTGGGAGTGCTGCATAAGGAACGAAACTTTACTGCGGGCTTAACTCAACCTTTTGGTGAG
GGGAAGAAGAGTGCAGTGATTGAACATGGACATGCATTTGAATATTTTCATCGATCCTTCAGAGAAGGCTTCGAACCAACAAAAAACTGATTTTTTTGGCTTGGAATACATACTATTATTTTTTGCCACTTTAGGGGCCAGTTGAGGTCCTTGTTACTTTGGTGATGATGGCTCAAAGGAGCAGCTCATTTTTTATATAG
CTTTATTGTTGGATACTAGGATACTATTTCAGAAAGGCATATCAAATGCTTTCTACAATATGTAATTTGATTATTTATAATAAAATTACGCTTTTTTCCAAGAAATATATATATATATATATCCTTTAATACAAAATAATACATTTTATTTCTCATATATATATTTTAGGACATAAGAGTAGTTGTAGGTGC

>TRINITY_DN103856_c3_g1_i9 from sample A4 / Example unspliced isoform:

GTCGGTTTTTATCTATTTCAATAGAATCATTTAATTTTGAATGTTATTCCATTTCTATCAACATGATGTTCAATTTTTATTATAAATTTAACATATTTTTTTATGTGTAATAGGCTGAAAAAAAACAGTTGGATGAAGAGTGCAAGTGTTCGACATAATTAATATTTTCAGATAAATATAAGAAAAATgtagacaattat
ttatttttattacattttaaatttattattattattattattagaaattaaatttgtattatgattttaacatatttttggtgtgtaacagCTGAATGAAAGCTTCAAGTTAT