NA ----> NA

Intron 1 GTAAGTTCCG ... CACTTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	20	12	0	3
A2	26.67	11	0	4
A3	20	12	0	3
A4	0	4	0	0
A5	0	2	0	0
A6	13.79	25	0	4
A7	25.3	62	0	21
A8	21.74	72	0	20
A9	18.29	67	0	15
A10	24.19	47	2	15

>TRINITY_DN41813_c0_g1_i2 from sample A10 / Example spliced isoform

CTCCCATTTCTATTAAATGTCCCTTTTTGACATCTCACAATCTTCTCAAATGTGAACAGATGTTATTCTATGGTCTGCTTTAAATTCACAAAACGGCCGCATAGAATAAGTTACATGTAGGTTCAGTGCAGTCACACAGGAGAGGGATGATCCCATAGCCATGGAGTTGGAGATGAGAAGCAAGCGTTTCTTTTTAGCAA
TTCTGGTTTTCATTATGTTACACACAGCTGCTGCAGATGATGATGACTTCGGAATGTGCAAAATAATGAATTGTGGGAAGGGTACCTGCAACAACAAATCTTCTTCAGAATTGATCGATCTCGTTCCCGCGTGCGAATGCGATCCGGGATGGAAGCAGCCTTCCATTGCTGGGGTTTCGCTCTCCTTCCTTCCATGCGTT
ATACCCAACTGTACCTTTGAAGCCGACTGTGGTGGGAAAGCCCCCTCCTCAGCTCCCTCACCGGCCAATCCTCCATCAAGCAGTTCTTCAGTCGACCTTCTGAATGCATGCAAATTGGGGATTCCCGTGTGCGGAGAGGGCACCTGTGTCTTCGAATCCATGTTCAGCTACAGATGTAACTGCAATGAGGGATATGAAAA
TCTTCTCAATATGACAGCAGGCCCCTGCTTCAGACAATGTTCGATCGGTGCAGACTGTTCGCAGCTTGGGTTTAGCGTGGGCGGGAATGGAAGCCGAGCGGCAGCCCCTCAGTCTCCAACAGCAGCCCCTCAGTCATCCAAAGGTTTTATGGAAGATATTCCTTACTTGATCAGCATTGCAATCGCATTAACGATCCATT
TTTTCCCATTCCTCTTGGAATAAACAATTCTTGGTTGGGATTAGCAGCTACAGGTTGCATGGTTTTTCCTGTGCGTCTGTTTGGACTCCATACATAAGAATACCATACCGCTACAGCTAGTTTTATGGGCACCGCTACAGCTTTTTGGTTTACACAGAATTACATAAAAGGGTGGAATATGCTGCTTTGCTTGGAGAGTA
GGCAAAATACAAATGAATGCCACTCTGCTTGTACAGTAAGCAACAATGAGGTGTTCACCTTGCTGAATATATTTGCTATTATCCCCTTCAATATGGACACTTGCATTGTATCAGAGTGAAGCCGAGGATTTCAAAAACCCTCACATTTCAAACTTAAGACTGATAGTTGTATGGTATTAAATTGATATGAGTAAAAGGTT
TCATCAAGATAGTG

>TRINITY_DN41813_c0_g1_i3 from sample A10 / Example unspliced isoform:

TTCTTCAGTCGACCTTCTGAATGgtaagttccgtcgctaatttctgttcacgccatttaatcaatccgtgcagcttaatcaaatcactttgcagCATGCAAATTGGGGATTCCCGTGTGCGGAGAGGGCACCTGTGTCTTCGAATCCATGTTCAGCTACAGATGTAACTGCAATGAGGGATATGAAAATCTTCTCAATAT
GACAGCAGGCCCCTGCTTCAGACAATGTTCGATCGGTGCAGACTGTTCGCAGCTTGGGTTTAGCGTGGGCGGGAATGGAAGCCGAGCGGCAGCCCCTCAGTCTCCAACAGCAGCCCCTCAGTCATCCAAAGGTTTTATGGAAGATATTCCTTACTTGATCAGCATTGCAATCGCATTAACGATCCATTTTTTCCCATTCC
TCTTGGAATAAACAATTCTTGGTTGGGATTAGCAGCTACAGGTTGCATGGTTTTTCCTGTGCGTCTGTTTGGACTCCATACATAAGAATACCATACCGCTACAGCTAGTTTTATGGGCACCGCTACAGCTTTTTGGTTTACACAGAATTACATAAAAGGGTGGAATATGCTGCTTTGCTTGGAGAGTAGGCAAAATACAA
ATGAATGCCACTCTGCTTGTACAGTAAGCAACAATGAGGTGTTCACCTTGCTGAATATATTTGCTATTATCCCCTTCAATATGGACACTTGCATTGTATCAGAGTGAAGCCGAGGATTTCAAAAACCCTCACATTTCAAACTTAAGACTGATAGTTGTATGGTATTAAATTGATATGAGTAAAAGGTTTCATCAAGATAG
TG

Intron 2 GTAGTTGTTA ... TATGATGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	26.32	14	2	8
A2	17.6	22	5	4.4
A3	15.38	11	1	3
A4	27.66	17	0	13
A5	8.33	11	2	0
A6	25.65	68.4	16.4	30.8
A7	29.55	91.8	34.6	42.4
A8	21.42	128	23.6	46.2
A9	22.35	108.4	27.4	35
A10	25.65	71	27	22

>TRINITY_DN37387_c0_g2_i2 from sample A6 / Example spliced isoform

TCTCTCTCTCTTTTTCAATTTTTTGTGTGGATTTCGTGCACAGCGTGACATGCCGTGTTCGATTCCCGTTACCATGCAGGAATGTGCAAAATAATGAATTGTGGGAAGGGTACCTGCAACAACAAATCTTCTTCAGAATTGATCGATCTCGTTCCCGCGTGCGAATGCGATCCGGGATGGAAGCAGCCTTCCATTGCTGG
GGTTTCGCTCTCCTTCCTTCCATGCGTTATACCCAACTGTACCTTTGAAGCCGACTGTGGTGGGAAAGCCCCCTCCTCAGCTCCCTCACCGGCCAATCCTCCATCAAGCAGTTCTTCAGTCGACCTTCTGAATGCTTGCAAATTGGGGATTCCCGTGTGCGGAGAGGGCACCTGTGTCTTCGAATCCATGTTCAGCTACA
GATGTAACTGCAATGAGGGATATGAAAATCTTCTCAATATGACAGCAGGCCCCTGCTTCAGACAATGTTCGATCGGTGCAGACTGTTCGCAGCTTGGGTTTAGCGTGGGCGGGAATGGAAGCCGAGCGGCAGCCCCTCAGTCTCCAACCGCAGCCCCTCAGTCATCCAAAGGTTTTATGGAAGATATTCCTTACTTGATC
AGCATTGCAATCGCATTAACGATCCATTTTTTCCCATTCCTCTTGGAATAAACAATTCTTGGTTGGGATTAGCAGCTACAGGTTGCATGGTTTTTCCTGTGCGTCTGTTTGGACTCCATACATAAGAATACCATACCGCTACAGCTAGTTTTATGGGCACCGTTACAGCTTTTTGGTTTACGCAGAATTACATAAAAGGG
TGGAATATGCTGCTTTGCTTGGAGAGTAGGCAAAATACAAATGAATGCCACTCTGCTTGTACAGTAAGCAACAATGAGGTGTTCACCTTGCTGAATATATTTGCTATTATCCCCTTCAATATGGACACTTGCATTGTATCAGAGTGAAGCCGAGGATTTCAAAAACCCTCACATTTCAAACTTAAGACTGATAGTTGTAT
GGTATTAAATTGATATGAGTAAAAGGTTTCATCAAGAT

>TRINITY_DN37387_c0_g2_i3 from sample A6 / Example unspliced isoform:

AGATGTTATTCTATGGTCTGCTTTAAATTCACAAAACGGCCGCATAGAATAAGTTACATGTAGGTTCAGTGCAGTCACACAGGAGAGGGATGATCCCATAGCCATGGAGTTGGAGATGAGAAGCAAGCGTTTCTTTTTAGCAATTCTGGTTTTCATTATGTTACACACAGCTGCTGCAGATGATGATGACTTCGGAATGT
GCAAAATAATGAATTGTGGGAAGGGTACCTGCAACAACAAATCTTCTTCAGAATTGATCGATCTCGTTCCCGCGTGCGAATGCGATCCGGGATGGAAGCAGCCTTCCATTGCTGGGGTTTCGCTCTCCTTCCTTCCATGCGTTATACCCAACTGTACCTTTGAAGCCGACTGTGGTGGGAAAGCCCCCTCCTCAGCTCCC
TCACCGGCCAATCCTCCATCAAGCAGTTCTTCAGTCGACCTTCTGAATGCTTGCAAATTGGGGATTCCCGTGTGCGGAGAGGGCACCTGTGTCTTCGAATCCATGTTCAGCTACAGATGTAACTGCAATGAGGGATATGAAAATCTTCTCAATATGACAGCAGGCCCCTGCTTCAGACAATGTTCGATCGGTGCAGACTG
TTCGCAGCTTGGGTTTAGCGTGGGCGGGAATGGAAGCCGAGCGGCAGCCCCTCAGTCTCCAACCGCAGCCCCTCAGTCATCCAAAGGTTTTATGGAAGATATTCCTTACTTGATCAGCATTGCAATCGCATTAACGATCCATTTTTTCCCATTCCTCTTGGAATAAACAATTCTTGGTTGGGATTAGgtagttgttattt
cttactgaactaaattggatctgtgtcacatacagcatttgcaggcttagatgttggttgtgattgtgttttcgatatgatgcagCAGCTACAGGTTGCATGGTTTTTCCTGTGCGTCTGTTTGGACTCCATACATAAGAATACCATACCGCTACAGCTAGTTTTATGGGCACCGTTACAGCTTTTTGGTTTACGCAGAA
TTACATAAAAGGGTGGAATATGCTGCTTTGCTTGGAGAGTAGGCAAAATACAAATGAATGCCACTCTGCTTGTACAGTAAGCAACAATGAGGTGTTCACCTTGCTGAATATATTTGCTATTATCCCCTTCAATATGGACACTTGCATTGTATCAGAGTGAAGCCGAGGATTTCAAAAACCCTCACATTTCAAACTTAAGA
CTGATAGTTGTATGGTATTAAATTGATATGAGTAAAAGGTTTCATCAAGAT

Intron 3 GTAAGTTGCC ... TTTTTCGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	0	19	0	0
A2	0	13	0	0
A3	16.67	15	0	3
A4	10	9	0	1
A5	25	6	0	2
A6	11.63	76	0	10
A7	14.17	103	1	17
A8	10.83	107	0	13
A9	10.28	96	0	11
A10	11.11	64	0	8

>TRINITY_DN39977_c0_g1_i3 from sample A7 / Example spliced isoform

CAGATGTTATTCTATGGTCTGCTTTAAATTCACAAAACGGCCGCATAGAATAAGTTACATGTAGGTTCAGTGCAGTCACACAGGAGAGGGATGATCCCATAGCCATGGAGTTGGAGATGAGAAGCAAGCGTTTCTTTTTAGCAATTCTGGTTTTCATTATGTTACACACAGCTGCTGCAGATGATGATGACTTCGGAATG
TGCAAAATAATGAATTGTGGGAAGGGTACCTGCAACAACAAATCTTCTTCAGAATTGATCGATCTCGTTCCCGCGTGCGAATGCGATCCGGGATGGAAGCAGCCTTCCATTGCTGGGGTTTCGCTCTCCTTCCTTCCATGCGTTATACCCAACTGTACCTTTGAAGCCGACTGTGGTGGGAAAGCCCCCTCCTCAGCTCC
CTCACCGGCCAATCCTCCATCAAGCAGTTCTTCAGTCGACCTTCTGAATGCATGCAAATTGGGGATTCCCGTGTGCGGAGAGGGCACCTGTGTCTTCGAATCCATGTTCAGCTACAGATGTAACTGCAATGAGGGATATGAAAATCTTCTCAATATGACAGCAGGCCCCTGCTTCAGACAATGTTCGATCGGTGCAGACT
GTTCGCAGCTTGGGTTTAGCGTGGGCGGGAATGGAAGCCGAGCGGCAGCCCCTCAGTCTCCAACAGCAGCCCCTCAGTCATCCAAAGGTTTTATGGAAGATATTCCTTACTTGATCAGCATTGCAATCGCATTAACGATCCATTTTTCCCCATTCCTCTTGGAATAAACAATTCTTGGTTGGGATTAGCAGCTACAGGTT
GCATGGTTTTTCCTGTGCGTCTGTTTGGACTCCATACATAAGAATACCATACCGCTACAGCTAGTTTTATGGGCACCGCTACAGCTTTTTGGTTTACACAGAATTACATAAAAGGGTGGAATATGCTGCTTTGCTTGGAGAGTAGGCAAAATACAAATGAATGCCACTCTGCTTGTACAGTAAGCAACAATGAGGTGTTC
ACCTTGCTGAATATATTTGCTATTATCCCCTTCAATATGGACACTTGCATTGTATCAGAGTGAAGCCGAGGATTTCAAAAACCCTCACATTTCAAACTTAAGACTGATAGTTGTATGGTATTAAATTGATATGAGTAAAAGGTTTCATCAAGATAGTGTTGTCAATTTTTTTTAAAATTTTTCAATGTTCAATGGTGTG

>TRINITY_DN39977_c0_g1_i1 from sample A7 / Example unspliced isoform:

CAGGCCCCTGCTTCAGACAATgtaagttgcccccctctaggttagtattcaaggtcaaaaggtcccttgttcgaatcccatgccgatttttccatatttttcgcagGTTCGATCGGTGCAGACTGTTCGCAGCTTGGGTTTAGCGTGGGCGGGAATGGAAGCCGAGCGGCAGCCCCTCAGTCTCCAACAGCAGCCCCTCA
GTCATCCAAAGGTTTTATGGAAGATATTCCTTACTTGATCAGCATTGCAATCGCATTAACGATCCATTTTTCCCCATTCCTCTTGGAATAAACAATTCTTGGTTGGGATTAGCAGCTACAGGTTGCATGGTTTTTCCTGTGCGTCTGTTTGGACTCCATACATAAGAATACCATACCGCTACAGCTAGTTTTATGGGCAC
CGCTACAGCTTTTTGGTTTACACAGAATTACATAAAAGGGTGGAATATGCTGCTTTGCTTGGAGAGTAGGCAAAATACAAATGAATGCCACTCTGCTTGTACAGTAAGCAACAATGAGGTGTTCACCTTGCTGAATATATTTGCTATTATCCCCTTCAATATGGACACTTGCATTGTATCAGAGTGAAGCCGAGGATTTC
AAAAACCCTCACATTTCAAACTTAAGACTGATAGTTGTATGGTATTAAATTGATATGAGTAAAAGGTTTCATCAAGATAGTGTTGTCAATTTTTTTTAAAATTTTTCAATGTTCAATGGTGTG

Intron 4 GTAGCACCAG ... TACCATGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	20.69	23	3	6
A2	20.23	21	0.7	5.3
A3	14.71	29	0.3	5
A4	8.7	21	3	2
A5	0	14	1	0
A6	13.89	93	6.3	15
A7	11.96	162	10	22
A8	15.46	82	4	15
A9	15.04	113	6	20
A10	13.87	118	6.7	19

>TRINITY_DN36879_c0_g1_i3 from sample A8 / Example spliced isoform

GTCTGTCCAAATGATGTAGCTACGCCTAACAATTCTCCCATTTCTATTAAATGTCCCTTTTTGACATCTCACAATCTTCTCAAATGTGAACAGATGTTATTCTATGGTCTGCTTTAAATTCACAAAACGGCCGCATAGAATAAGTTACATGTAGGTTCAGTGCAGTCACACAGGAGAGGGATGATCCCATAGCCATGGAG
TTGGAGATGAGAAGCAAGCGTTTCTTTTTAGCAATTCTGGTTTTCATTATGTTACACACAGCTGCTGCAGATGATGATGACTTCGGAATGTGCAAAATAATGAATTGTGGGAAGGGTACCTGCAACAACAAATCTTCTTCAGAATTGATCGATCTCGTTCCCGCGTGCGAATGCGATCCGGGATGGAAGCAGCCTTCCAT
TGCTGGGGTTTCGCTCTCCTTCCTTCCATGCGTTATACCCAACTGTACCTTTGAAGCCGACTGTGGTGGGAAAGCCCCCTCCTCAGCTCCCTCACCGGCCAATCCTCCATCAAGCAGTTCTTCAGTCGACCTTCTGAATGCATGCAAATTGGGGATTCCCGTGTGCGGAGAGGGCACCTGTGTCTTCGAATCCATGTTCA
GCTACAGATGTAACTGCAATGAGGGATATGAAAATCTTCTCAATATGACAGCAGGCCCCTGCTTCAGACAATGTTCGATCGGTGCAGACTGTTCGCAGCTTGGGTTTAGCGTGGGCGGGAATGGAAGCCGAGCGGCAGCCCCTCAGTCTCCAACCGCAGCCCCTCAGTCATCCAAAGGTTTTATGGAAGATATTCCTTAC
TTGATCAGCATTGCAATCGCATTAACGATCCATTTTTTCCCATTCCTCTTGGAATAAACAATTCTTGGTTGGGATTAGCAGCTACAGGTTGCATGGTTTTTCCTGTGCGTCTGTTTGGACTCCATACATAAGAATACCATACCGCTACAGCTAGTTTTATGGGCACCGTTACAGCTTTTTGGTTTACGCAGAATTACATA
AAAGGGTGGAATATGCTGCTTTGCTTGGAGAGTAGGCAAAATACAAATGAATGCCACTCTGCTTGTACAGTAAGCAACAATGAGGTGTTCACCTTGCTGAATATATTTGCTATTATCCCCTTCAATATGGACACTTGCATTGTATCAGAGTGAAGCCGAGGATTTCAAAAACCCTCACATTACAAACTTAAGACTGATAG
TTGTATGGTATTAAATTGATATGAGTAAAAGGTTTCATCAAGATAGTGTTGTCAATTTTTTTTAAAATTTTT

>TRINITY_DN36879_c0_g1_i1 from sample A8 / Example unspliced isoform:

GTCTGTCCAAATGATGTAGCTACGCCTAACAATTCTCCCATTTCTATTAAATGTCCCTTTTTGACATCTCACAATCTTCTCAAATGTGAACAGATGTTATTCTATGGTCTGCTTTAAATTCACAAAACGGCCGCATAGAATAAGTTACATGTAGGTTCAGTGCAGTCACACAGGAGAGGGATGATCCCATAGCCATGGAG
TTGGAGATGAGAAGCAAGCGTTTCTTTTTAGCAATTCTGGTTTTCATTATGTTACACACAGCTGCTGCAGATGATGATGACTTCGgtagcaccagatctctctctctctttttcaattttttgtgtggatttcgtgcacagcgtgacatgccgtgttcgattcccgttaccatgcagGAATGTGCAAAATAATGAATTGT
GGGAAGGGTACCTGCAACAACAAATCTTCTTCAGAATTGATCGATCTCGTTCCCGCGTGCGAATGCGATCCGGGATGGAAGCAGCCTTCCATTGCTGGGGTTTCGCTCTCCTTCCTTCCATGCGTTATACCCAACTGTACCTTTGAAGCCGACTGTGGTGGGAAAGCCCCCTCCTCAGCTCCCTCACCGGCCAATCCTCC
ATCAAGCAGTTCTTCAGTCGACCTTCTGAATGCATGCAAATTGGGGATTCCCGTGTGCGGAGAGGGCACCTGTGTCTTCGAATCCATGTTCAGCTACAGATGTAACTGCAATGAGGGATATGAAAATCTTCTCAATATGACAGCAGGCCCCTGCTTCAGACAATGTTCGATCGGTGCAGACTGTTCGCAGCTTGGGTTTA
GCGTGGGCGGGAATGGAAGCCGAGCGGCAGCCCCTCAGTCTCCAACCGCAGCCCCTCAGTCATCCAAAGGTTTTATGGAAGATATTCCTTACTTGATCAGCATTGCAATCGCATTAACGATCCATTTTTTCCCATTCCTCTTGGAATAAACAATTCTTGGTTGGGATTAGCAGCTACAGGTTGCATGGTTTTTCCTGTGC
GTCTGTTTGGACTCCATACATAAGAATACCATACCGCTACAGCTAGTTTTATGGGCACCGTTACAGCTTTTTGGTTTACGCAGAATTACATAAAAGGGTGGAATATGCTGCTTTGCTTGGAGAGTAGGCAAAATACAAATGAATGCCACTCTGCTTGTACAGTAAGCAACAATGAGGTGTTCACCTTGCTGAATATATTT
GCTATTATCCCCTTCAATATGGACACTTGCATTGTATCAGAGTGAAGCCGAGGATTTCAAAAACCCTCACATTACAAACTTAAGACTGATAGTTGTATGGTATTAAATTGATATGAGTAAAAGGTTTCATCAAGATAGTGTTGTCAATTTTTTTTAAAATTTTT