NA ----> NA

Intron 1 GTAAGGATGC ... TTTTGTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	11.43	93	12.5	12
A2	17.74	51	0.5	11
A3	16.67	70	11.5	14
A4	12.31	57	10	8
A5	17.95	32	3.5	7
A6	18.61	293	44	67
A7	18.24	372	52.5	83
A8	19.57	333	38	81
A9	17.34	348	52.5	73
A10	21.28	222	32	60

>TRINITY_DN36066_c0_g1_i2 from sample A6 / Example spliced isoform

TTCATTTTCAAAATAAAATTAAAGAGTCCCGCCCTGCCCTCCGCTCCCCTGTCTCTATAACTGTCCCGATATAGTTCGTTATTCGTCATTTAACTTCGTTATTCGTCATTTAACTGGGATTTGGCGGTGGATTGAGTTGCGTGCTCAATTTGTCCAATCCGAAATTGAAATTGAAATCCATATCCCACCACAAGAACAGC
AACGATTGATTGAGTATGGCAGATTACTACGACATCGACCACATTCTCATGGAGGAGGAACCGGTGTCTGTAGTGTTTCGGGTGGGCGCAAACGGAGCGGGCCTTTTGGATCCCGGATCTGAAAATAACAATGTAGAAGCTGGTGCAAAGGTGGAGTTGCCCTTCTGGTTGGCTCAGGATCTGTGTACTAGAGAAGCCGT
CTCGATCAATAACCCAACATTCTATAACCACAGGATTAGGAAGGAAATGCAAGCTGATCCTGCATGTGTCAACCTCAGAAGTCGATGCCCCTACTTCTATGAATTAGGATGCAAACTTGCACCTTTAGTATCAGATAGAAGCCTTGGTTCCTTCCTTCTTTACACATTGCGTGGGCGTTTCAAAGACATTCTTTGCAAAG
CTCATAGCATAGCTTTTTCTGCGACATCAAAGTTCTTGCAGCTTCTTACAAGGGAAGAAAGCCAACTGTTTGATGCAGCTTATACTTCAATGAAAGGTTTCAAGAAGTGGCGCCTTGAGGGCCCAAGATTGGAGAAGGCATCCATTCTAGGGCGCAAAAGAAGACGGGAATAGTCTTTACATTCCCCCTGATATATAAAC
TGCTCTTCTCTTGACTCAGAAATAGCATCAACTGAAAATGAACTAACCTGCTATTCTGGGTCTTGTAACACTGGGAAATTGCTCTTGGTTGATGTAAGTGTGACAGGAAGGTTTCCCCAAACCAGGATCCGGATAACAATAATTGTGGACTTAACTCAAAATATAGTAAAGATAACTTCTGTTTATGGGGATTGCACAGA
TGGGAAGTAAAGCTAAAATTGCTCTGCACACAAATTTGTTTGAGTCTGCTGTTCCCTGTCAAACAAATGGAAACAATGCTAATGGCAGCAAATGCTGGTGCACTGAACTTCATTCTACTTACCTTCCTGCTGTCTATATTTAAATTTTTGCCATGATATTTTCTTTTCCAATGTTAGAAATCCCAGATGCTTTGAGCGAT
AATGTGTTTATAGTTGCAAAAACTGTACTAACACAGTTTTCAGTTTTCATAATGATGAGAGAAGAAGCCCATGGAATAGTTTTG

>TRINITY_DN36066_c0_g1_i1 from sample A6 / Example unspliced isoform:

TCTTACAAGGGAAGAAAGCCAACgtaaggatgcataaacagccatgaatgcttttcataattttaatttgtcttgttcacttttgtcctaacattttaaggatgaaggagataatggaccctaggtaaattaaaatagacaaagaaaccacgtggttttgtgaaaaagggcatatatatttcttgatggcagatatatgt
atctcgacctttgcatttgattggccttggtctctgttcagtgtctctctggcactagaatagaatctcttttgagttattagttcggagcctagaggcttgcaatttatgcatttcgttgttttgtgcagTGTTTGATGCAGCTTATACTTCAATGAAAGGTTTCAAGAAGTGGCGCCTTGAGGGCCCAAGATTGGAGA
AGGCATCCATTCTAGGGCGCAAAAGAAGACGGGAATAGTCTTTACATTCCCCCTGATATATAAACTGCTCTTCTCTTGACTCAGAAATAGCATCAACTGAAAATGAACTAACCTGCTATTCTGGGTCTTGTAACACTGGGAAATTGCTCTTGGTTGATGTAAGTGTGACAGGAAGGTTTCCCCAAACCAGGATCCGGATA
ACAATAATTGTGGACTTAACTCAAAATATAGTAAAGATAACTTCTGTTTATGGGGATTGCACAGATGGGAAGTAAAGCTAAAATTGCTCTGCACACAAATTTGTTTGAGTCTGCTGTTCCCTGTCAAACAAATGGAAACAATGCTAATGGCAGCAAATGCTGGTGCACTGAACTTCATTCTACTTACCTTCCTGCTGTCT
ATATTTAAATTTTTGCCATGATATTTTCTTTTCCAATGTTAGAAATCCCAGATGCTTTGAGCGATAATGTGTTTATAGTTGCAAAAACTGTACTAACACAGTTTTCAGTTTTCATAATGATGAGAGAAGAAGCCCATGGAATAGTTTTG

Intron 2 GTATGCATCT ... ACGTGTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	33.33	90	2.5	45
A2	30.97	78	6.3	35
A3	27.27	88	3.5	33
A4	33.33	54	4.5	27
A5	38.75	49	2.3	31
A6	24.11	340	15.5	108
A7	27.76	419	23.9	161
A8	28.57	275	6.7	110
A9	27.05	426	16.2	158
A10	29.14	406	20.7	167

>TRINITY_DN106076_c0_g1_i2 from sample A2 / Example spliced isoform

GTCCCGCCCTGCCCTCCGCTCCCCTGTCTCTATAACTGTCCCGATATAGTTCGTTATTCGTCATTTAACTGGGATTTGGCGGTGGATTGAGTTGCGTGCTCAATTTGTCCAATACGAAATTGATATTGAAATCCATATCCCACCACAAGAACAGCAACGATTGATTGAGTATGGCAGATTACTACGACATCGACCACATT
CTCATGGAGGAGGAACCGGTGTCTGTAGTGTTTCGGGTGGGCGCAAACGGAGCGGGCCTTTTGGATCCCGGATCTGAAAATAACAATGTAGAAGCTGGTGCAAAGGTGGAGTTGCCCTTCTGGTTGGCTCAGGATCTGTGTACTAGAGAAGCCGTCTCGATCAATAACCCAACATTCTATAACCACAGGATTAGGAAGGA
AATGCAAGCTGATCCTGCATGTGTCAACCTCAGAAGTCGATGCCCCTACTTCTATGAATTAGGATGCAAACTTGCACCTTTAGTATCAGATAGAAGCCTTGGTTCCTTCCTTCTTTACACATTGCGTGGGCGTTTCAAAGACATTCTTTGCAAAGCTCATAGCATAGCTTTTTCTGCGACATCAAAGTTCTTGCAGCTTC
TTACAAGGGAAGAAAGCCAACTGTTTGATGCAGCTTATACTTCAATGAAAGGTTTCAAGAAGTGGCGCCTTGAGGGCCCAAGATTGGAGAAGGCATCCATTCTAGGGCGCAAAAGAAGACGGGAATAGTCTTTACATTCCCCCTGATATATAAACTGCTCTTCTCTTGACTCAGAAATAGCATCAACTGAAAATGAACTA
ACCTGCTATTCTGGGTCTTGTAACACTGGGAAATTGCTCTTGGTTGATGTAAGTGTGACAGGAAGGTTTCCCCAAACCAGGATCCGGATAACAATAATTGTGGACTTAACTCAAAATATAGTAAAGATAACTTCTGTTTATGGGGATTGCACAGATGGGAAGTAAAGCTAAAATTGCTCTGCACACAAATTTGTTAGAGT
CTGCTGTTCCCTGTCAAACAAATGGAAACAATGCTAATGGCAGCAAATGCTGGTGCACTGAACTTCATTCTACTTACCTTCCTGCTGTCTATATTTAAATTTTTGCCATGATATTTTCTTTTCCAATGTTAGAAATCCCAGATGCTTTGAGCGAA

>TRINITY_DN106076_c0_g1_i1 from sample A2 / Example unspliced isoform:

CCACATTCTCATGGAGGAGGAAgtatgcatctcactttagatatatataaattcactttcactgaataagggacgcattcgtttgttttatcaatttttgactgcttgatcgagatgagagtatgtgtgtggacgtgtgcagCCGGTGTCTGTAGTGTTTCGGGTGGGCGCAAACGGAGCGGGCCTTTTGGATCCCGGAT
CTGAAAATAACAATGTAGAAGCTGGTGCAAAGGTGGAGTTGCCCTTCTGGTTGGCTCAGGATCTGTGTACTAGAGAAGCCGTCTCGATCAATAACCCAACATTCTATAACCACAGGATTAGGAAGGAAATGCAAGCTGATCCTGCATGTGTCAACCTCAGAAGTCGATGCCCCTACTTCTATGAATTAGGATGCAAACTT
GCACCTTTAGTATCAGATAGAAGCCTTGGTTCCTTCCTTCTTTACACATTGCGTGGGCGTTTCAAAGACATTCTTTGCAAAGCTCATAGCATAGCTTTTTCTGCGACATCAAAGTTCTTGCAGCTTCTTACAAGGGAAGAAAGCCAACTGTTTGATGCAGCTTATACTTCAATGAAAGGTTTCAAGAAGTGGCGCCTTGA
GGGCCCAAGATTGGAGAAGGCATCCATTCTAGGGCGCAAAAGAAGACGGGAATAGTCTTTACATTCCCCCTGATATATAAACTGCTCTTCTCTTGACTCAGAAATAGCATCAACTGAAAATGAACTAACCTGCTATTCTGGGTCTTGTAACACTGGGAAATTGCTCTTGGTTGATGTAAGTGTGACAGGAAGGTTTCCCC
AAACCAGGATCCGGATAACAATAATTGTGGACTTAACTCAAAATATAGTAAAGATAACTTCTGTTTATGGGGATTGCACAGATGGGAAGTAAAGCTAAAATTGCTCTGCACACAAATTTGTTAGAGTCTGCTGTTCCCTGTCAAACAAATGGAAACAATGCTAATGGCAGCAAATGCTGGTGCACTGAACTTCATTCTAC
TTACCTTCCTGCTGTCTATATTTAAATTTTTGCCATGATATTTTCTTTTCCAATGTTAGAAATCCCAGATGCTTTGAGCGAA

Intron 3 GTAAGTTCTG ... TTTTTTTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	12.5	70	2	10
A2	20.74	57.3	0	15
A3	17.48	85	0	18
A4	18.28	76	1	17
A5	10.53	34	0	4
A6	15.09	394	0	70
A7	17.68	465.7	0	100
A8	18.02	332	1	73
A9	16.8	411	0	83
A10	16.92	314.3	0	64

>TRINITY_DN37445_c0_g1_i5 from sample A9 / Example spliced isoform

TTTCAAAATAAAATTAAAGAGTCCCGCCCTGCCCTCCGCTTCCCTGTCTCTATAACTGTCCCGATATAGTTCGTTATTCGTCATTTAACTTCGTTATTCGTCATTTAACTGGGATTTGGCGGTGGATTGAGTTGCGTGCTCAATTTGTCCAATCCGAAATTGAAATTGAAATCCATATCCCACCACAAGAACAGCAACGA
TTGATTGAGTATGGCAGATTACTACGACATCGACCACATTCTCATGGAGGAGGAACCGGTGTCTGTAGTGTTTCGGGTGGGCGCAAACGGAGCGGGCCTTTTGGATCCCGGATCTGAAAATAACAATGTAGAAGCTGGTGCAAAGGTGGAGTTGCCCTTCTGGTTGGCTCAGGATCTGTGTACTAGAGAAGCCGTCTCGA
TCAATAACCCAACATTCTATAACCACAGGATTAGGAAGGAAATGCAAGCTGATCCTGCATGTGTCAACCTCAGAAGTCGATGCCCCTACTTCTATGAATTAGGATGCAAACTTGCACCTTTAGTATCAGATAGAAGCCTTGGTTCCTTCCTTCTTTACACATTGCGTGGGCGTTTCAAAGACATTCTTTGCAAAGCTCAT
AGCATAGCTTTTTCTGCGACATCAAAGTTCTTGCAGCTTCTTACAAGGGAAGAAAGCCAACTGTTTGATGCAGCTTATACTTCAATGAAAGGTTTCAAGAAGTGGCGCCTTGAGGGCCCAAGATTGGAGAAGGCATCCATTCTAGGGCGCAAAAGAAGACGGGAATAGTCTTTACATTCCCCCTGATATATAAACTGCTC
TTCTCTTGACTCAGAAATAGCATCAACTGAAAATGAACTAACCTGCTATTCTGGGTCTTGTAACACTGGGAAATTGCTCTTGGTTGATGTAAGTGTGACAGGAAGGTTTCCCCAAACCAGGATCCGGATAACAATAATTGTGGACTTAACTCAAAATATAGTAAAGATAACTTCTGTTTATGGGGATTGCACAGATGGGA
AGTAAAGCTAAAATTGCTCTGCACACAAATTTGTTTGAGTCTGCTGTTCCCTGTCAAACAAATGGAAACAATGCTAATGGCAGCAAATGCTGGTGCACTGAACTTCATTCTACTTACCTTCCTGCTGTCTATATTTAAATTTTTGCCATGATATTTTCTTTTCCAATGTTAGAAATCCCAGATGCTTTGAGCGATAATGT
GTTTATAGTTGCAAAAACTGTACTAACACAGTTTTCAGTTTTCATGATGAGAGAAGAAGCCCATGGAATAGTTTTGACCCCAAGATGGTTGTCTGCACATCAAATACCGTGCTCATCTTAGTTGCCCGGTTCAAGCATTCTATTAGCCATTTAAACTGATTTGCAGGTCATTAATTTGGTACTAGATTTGAAATATCTTG
AA

>TRINITY_DN37445_c0_g1_i3 from sample A9 / Example unspliced isoform:

TTAGGATGCAAACTTGCACCTTTgtaagttctgtgtttctacttcctcttgtatatctagagtattatcgatatgcatgctaaacctttttttttttttttatgtttgtagctattgtttcaaatattttggtttgctgtgcatattactttctacagagtgcttaacaagctatatttgcataggcttttactccatga
atctaaaattttgtttcctcggaagttcaatcgaaagggccttatttcaggtgtccagatagtaaaatctgggcctgatgtaatttattttgacacagtgaaaccttgtgaagcgacctgatgatgatatatagaatgatgatgaaaattgtctttatttttaacccagttacataattttcatgcgttaattggttgta
tttaatgtagaaatctgaagaaaatgcttttgaattgttttttttagAGTATCAGATAGAAGCCTTGGTTCCTTCCTTCTTTACACATTGCGTGGGCGTTTCAAAGACATTCTTTGCAAAGCTCATAGCATAGCTTTTTCTGCGACATCAAAGTTCTTGCAGCTTCTTACAAGGGAAGAAAGCCAACGTAAGGATGCATA
AACAGCCATGAATGCTTTTCATAATTTTAATTTGTCTTGTTCACTTTTGTCCTAACATTTTAAGGATGAAGGAGATAATGGACCCTAGGTAAATTAAAATAGACAAAGAAACCACGTGGTTTTGTGAAAAAGGGCATATATATTTCTTGATGGCAGATATATGTATCTCGACATTTGCATTTGATTGGCCTTGGTCTCTG
TTCAGTGTCTCTCTGGCACTAGAATAGAATCTCTTTTGAGTTATTAGTTCGGAGCCTAGAGGCTTGCAATTTATGCATTTCGTTGTTTTGTGCAGTGTTTGATGCAGCTTATACTTCAATGAAAGGTTTCAAGAAGTGGCGCCTTGAGGGCCCAAGATTGGAGAAGGCATCCATTCTAGGGCGCAAAAGAAGACGGGAAT
AGTCTTTACATTCCCCCTGATATATAAACTGCTCTTCTCTTGACTCAGAAATAGCATCAACTGAAAATGAACTAACCTGCTATTCTGGGTCTTGTAACACTGGGAAATTGCTCTTGGTTGATGTAAGTGTGACAGGAAGGTTTCCCCAAACCAGGATCCGGATAACAATAATTGTGGACTTAACTCAAAATATAGTAAAG
ATAACTTCTGTTTATGGGGATTGCACAGATGGGAAGTAAAGCTAAAATTGCTCTGCACACAAATTTGTTTGAGTCTGCTGTTCCCTGTCAAACAAATGGAAACAATGCTAATGGCAGCAAATGCTGGTGCACTGAACTTCATTCTACTTACCTTCCTGCTGTCTATATTTAAATTTTTGCCATGATATTTTCTTTTCCAA
TGTTAGAAATCCCAGATGCTTTGAGCGATAATGTGTTTATAGTTGCAAAAACTGTACTAACACAGTTTTCAGTTTTCATGATGAGAGAAGAAGCCCATGGAATAGTTTTGACCCCAAGATGGTTGTCTGCACATCAAATACCGTGCTCATCTTAGTTGCCCGGTTCAAGCATTCTATTAGCCATTTAAACTGATTTGCAG
GTCATTAATTTGGTACTAGATTTGAAATATCTTGAA

Intron 4 GTAAGTTCTG ... TTTTTTTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	12.5	70	2	10
A2	20.74	57.3	5	15
A3	17.48	85	2	18
A4	18.28	76	4	17
A5	10.53	34	2	4
A6	15.09	394	7	70
A7	17.68	465.7	3	100
A8	18.02	332	6	73
A9	16.8	411	3	83
A10	16.92	314.3	2	64

>TRINITY_DN41716_c2_g3_i2 from sample A8 / Example spliced isoform

TAAAGAGTCCCGCCCTGCCCTCCGCTTCCCTGTCTCTATAACTGTCCCGATATAGTTCGTTATTCGTCATTTAACTGGGATTTGGCGGTGGATTGAGTTGCGTGCTCAATTTGTCCAATACGAAATTGATATTGAAATCCATATCCCACCACAAGAACAGCAACGATTGATTGAGTATGGCAGATTACTACGACATCGAC
CACATTCTCATGGAGGAGGAACCGGTGTCTGTAGTGTTTCGGGTGGGCGCAAACGGAGCGGGCCTTTTGGATCCCGGATCTGAAAATAACAATGTAGAAGCTGGTGCAAAGGTGGAGTTGCCCTTCTGGTTGGCTCAGGATCTGTGTACTAGAGAAGCCGTCTCGATCAATAACCCAACATTCTATAACCACAGGATTAG
GAAGGAAATGCAAGCTGATCCTGCATGTGTCAACCTCAGAAGTCGATGCCCCTACTTCTATGAATTAGGATGCAAACTTGCACCTTTAGTATCAGATAGAAGCCTTGGTTCCTTCCTTCTTTACACATTGCGTGGGCGTTTCAAAGACATTCTTTGCAAAGCTCATAGCATAGCTTTTTCTGCGACATCAAAGTTCTTGC
AGCTTCTTACAAGGGAAGAAAGCCAACTGTTTGATGCAGCTTATACTTCAATGAAAGGTTTCAAGAAGTGGCGCCTTGAGGGCCCAAGATTGGAGAAGGCATCCATTCTAGGGCGCAAAAGAAGACGGGAATAGTCTTTACATTCCCCCTGATATATAAACTGCTCTTCTCTTGACTCAGAAATAGCATCAACTGAAAAT
GAACTAACCTGCTATTCTGGGTCTTGTAACACTGGGAAATTGCTCTTGGTTGATGTAAGTGTGACAGGAAGGTTTCCCCAAACCAGGATCCGGATAACAATAATTGTGGACTTAACTCAAAATATAGTAAAGATAACTTCTGTTTATGGGGATTGCACAGATGGGAAGTAAAGCTAAAATTGCTCTGCACACAAATTTGT
TTGAGTCTGCTGTTCCCTGTCAAACAAATGGAAACAATGCTAATGGCAGCAAATGCTGGTGCACTGAACTTCATTCTACTTACCTTCCTGCTGTCTATATTTAAATTTTTGCCATGATATTTTCTTTTCCAATGTTAGAAATCCCAGATGCTTTGAGCGATAATGTGTTTATAGTTGCAAAAACTGTACTAACACAGTTT
TCAGTTTTCATAATGATGAGACAAGAAGCCCATGGAATAGTTTTGAGCCCA

>TRINITY_DN41716_c2_g3_i3 from sample A8 / Example unspliced isoform:

GGGAAAATCAATTCTGGAAAAAATCATAGTTGCACAAATTTATGCAATTTTAAATTGGGTTCTTTCAAGAATATATATTAAAACCCACAGGAGTGTGGTCTAATGGCAAGCGGCGAAGTGATTGGGTTTGTATTAATGTGGAGACCTGGGTTCAAAACCCTCTGTGGGTGTGGTTGTAAATATGTCCTTATAAATAAAAG
AAGTATTCTAAAAAAGAGAATTTATATAAAAAAGGAGTAAAGTTGGACTGTAATTTAGAACCAATAGCAAATTGTGCAATGTTGGATTCAAACATTAACTTTTGGGAAGATTCTAAAGCTAGCATTTTATTTGTGAAACCATTCTTATGAAGCTGGAAATTACAATGCAATGAAAATGCTAGTAATTTTTTACAAGCCAA
ACCTTTTGTGCATATAGCTGGGTTCTATGAGAACTGCTGATTGTATCCATTAATATATCTTGATTGTGGAGCAGGATTAGGAAGGAAATGCAAGCTGATCCTGCATGTGTCAACCTCAGAAGTCGATGCCCCTACTTCTATGAATTAGGATGCAAACTTGCACCTTTgtaagttctgtgtttctacttcctcttgtatat
ctagagtattatcgatatgcatgctaaaccttttttttttttttatgtttgtagctattgtttcaaatattttggtttgctgtgcatattactttctacagagtgcttaacaagctatatttgcataggcttttactccatgaatctaaaattttgtttcctcggaagttcaattgaaagggccttaaattcaggtgtcc
agatagtaaaatctgggcctgatgtaatttattttgacacagtgaaaccttgtgaagcgacctgatgatgatatatagaatgatgatgaaaattgtctttatttttaacccagttacataattttcatgcgttaattggttgtatttaatgtagaaatctgaagaaaatgcttttgaattgttttttttagAGTATCAGA
TAGAAGCCTTGGTTCCTTCCTTCTTTACACATTGCGTGGGCGTTTCAAAGACATTCTTTGCAAAGCTCATAGCATAGCTTTTTCTGCGACATCAAAGTTCTTGCAGCTTCTTACAAGGGAAGAAAGCCAACTGTTTGATGCAGCTTATACTTCAATGAAAGGTTTCAAGAAGTGGCGCCTTGAGGGCCCAAGATTGGAGA
AGGCATCCATTCTAGGGCGCAAAAGAAGACGGGAATAGTCTTTACATTCCCCCTGATATATAAACTGCTCTTCTCTTGACTCAGAAATAGCATCAACTGAAAATGAACTAACCTGCTATTCTGGGTCTTGTAACACTGGGAAATTGCTCTTGGTTGATGTAAGTGTGACAGGAAGGTTTCCCCAAACCAGGATCCGGATA
ACAATAATTGTGGACTTAACTCAAAATATAGTAAAGATAACTTCTGTTTATGGGGATTGCACAGATGGGAAGTAAAGCTAAAATTGCTCTGCACACAAATTTGTTTGAGTCTGCTGTTCCCTGTCAAACAAATGGAAACAATGCTAATGGCAGCAAATGCTGGTGCACTGAACTTCATTCTACTTACCTTCCTGCTGTCT
ATATTTAAATTTTTGCCATGATATTTTCTTTTCCAATGTTAGAAATCCCAGATGCTTTGAGCGATAATGTGTTTATAGTTGCAAAAACTGTACTAACACAGTTTTCAGTTTTCATAATGATGAGACAAGAAGCCCATGGAATAGTTTTGAGCCCA