sp|Q01899|HSP7M_PHAVU ----> Heat shock 70 kDa protein, mitochondrial

Intron 1 GTAATGAAAT ... TGTCTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	20.79	798	241	178
A2	20.41	626	199	122
A3	19.91	706	222	129
A4	19.82	623	184	124
A5	19.34	246	75	43
A6	19.58	310	93	58
A7	19.48	1143	351	202
A8	20.92	635	220	116
A9	19.9	968	300	181
A10	18.69	1275	382	204

>TRINITY_DN41522_c0_g1_i3 from sample A9 / Example spliced isoform

ACAAACTCAGGTAACGAATTAAAAAATATATGGCAAATTCTAGAAAACGGCCAGCGTGGCATAAACGTGGCAATTCGAGGTAAAGAACACCCTCACCGGCGCTAGCGGTTACCGCCATCCTCTGTGCGGTGCCGACATTCCCACTTGAGGTTTTGGAAGGTCTGGAAAATAAAGGGCTTAGATGCCATCTCTGCTCAGTG
CTGACATTCCTGTACGATCATCCATAAACCTTAGTAATTAGGTCTCCCGCCTAGATTTTCCTCCCACCGTTCGCTTATACTTCTGTTTGAATTCGTTTGGAGTGGATTAATGGCCTTAGCAGGCATCCTCAAGCGATCTCAGACCAAACAATATGCACTCGGCCTTGCACAGGCTGCTGTACAGAGGTATGAAGTCTCGT
GCGGAGCTTTGCCAATTACTCGCAGATGGACTGCCGTAGCAAGGGCTTTCAGTTCAAAGGGAGCCGGAAGTGATGTCATTGGAATTGATCTTGGCACCACAAACTCATGCGTGGCAGTCATGGAGGGGAAGCATCCAAAAGTAATTGAAAATTCAGAAGGTTCTCGTACAACACCATCAGTGGTTTCCTTCAATCAAAAA
GGAGAGCTACTGGTGGGCACCCCTGCAAAGCGTCAAGCAGTGACAAACCCAACTAACACATTGTTTGGAACCAAGCGTTTGATAGGAAGAAAGTTTGATGACCCACAAACACAGAAGGAGATGAAAATGGTCCCATATAAAATTGTTAGAGCTCCAAATGGTGATGCTTGGGTCGAAGCAAATGGACAGCAGTATTCGCC
TAGTCAAATTGGTGCATTTGTTTTGGGAAAAATGAAAGAAACTGCAGAATCTTATCTTGGGAGGAGTGTTGCAAATGCTGTTATAACTGTTCCAGCGTATTTTAATGATGCACAAAGGCAGGCAACAAAAGATGCAGGAAGAATTGCTGGGATGGAAGTGAAAAGAATAATCAATGAACCTACTGCTGCTGCTCTGTCAT
ACGGGATGAATAATAAGGAAGGTTTGGTGGCTGTTTTTGATCTCGGGGGAGGAACATTTGACATTTCTATCCTTGAAATATCAAATGGCGTGTTTGAGGTAAAGGCTACAAATGGTGATACTTTCTTGGGTGGTGAGGATTTTGATAATGCATTATTGCAGTATTTAGTGGACGAGTTCAAAAAAACTGAAGGCATCGAT
TTATCAAAAGATAGGCTTGCTGTGCAGAGGTTGCGAGAAGCTGCTGAGAAAGCTAAGATGGAGCTTTCTTCAACCACCTCGACAGATATTAATCTGCCTTTCATCACAGCAGATGCCTCTGGTGCAAAACATTTAAATATTCAATTGACTCGGTCGAAATTTGAAATGCTTGTGAATAATTTGATCGAAAGAACAAGGCA
ACCTTGTAAGGATTGTATGAAGGATGCCGGTGTGACTTCTAGAGAGTTAGATGAAGTATTATTGGTGGGAGGAATGACTAGGGTGCCGAAGGTTCAACAATTAGTTGCTGAATTGTTTGGTAAGGAGCCAAGCAAAGGTGTTAATCCGGACGAGGCAGTAGCAATGGGTGCTGCCATACAGGGTGGCATCCTCAAGGGTG
ATGTAAAGGAGTTACTCCTGCTTGATGTCACTCCATTGTCTCTTGGAATAGAAACTCTTGGCGGAGTAGCTACCAAGCTTATCATTAGGAATACAACTATACCAACCAAGAAGAGTCAAGTGTTCTCAACTGCAGCTGACTGTCAGACACAGGTTGGAATTAAAGTACTTCAAGGAGAACGTGAAATGGCGGCTGACAAC
AAAATTCTCGGTCAGTTTGACCTTGTTGGCATTCCTCCATCTCCACGTGGTCTTCCCCAAATAGAAGTTACCTTTGATATTGATGCAAATGGCATAGTGAATGTATCTGCACGTGATAAGGCCACTGGTAAGGAACAAGCTATTACAATTCACCCATCCGGAGGACTTTCAGAGGCTGATATACAGAATATGGTTAGAGA
TGCTGAGATGTATGCCCAAAAAGATCAAGAAAGAAAGAAATTGATTGAGGCAAAGAACCAGGCAGACAACAGCATATATTCAGTGGAAAAAAGTTTGAATGAGTACAAGGATAAACTGCCGGCAAATGTAGTTAGTGAAATAGAATCTGCAGTAGCTGACCTGAAGAAAGCTATTGAGGGTGAGGACACAGATCAAATAT
TGGCCAAGATTGAAGCAGCGACTAAAGCATCCGTACAAATAGGCCAGCATCTGCAGCAACAATCTGGTGGGTCATCTGGCACCACTGGAACTGCTAAAGGGGGGGACCAAGCACCTGAAGCAGAGTATGAGGAGGTCAAGAAGTGAAAAATAACACGCCAGTGAGAGGGATCTGAGCCGAGGACATTAGGATGAGGAACT
CGTGTGTTAATTTCCTTTGCTAGAGCAGTTTGTGGCTTGGTGCTGTATGTTTTGTAGAAAGTTAGCAGCAGTGTTTGAAGAGGTCAAGAAGTGAAAAATAACACGCCAGTGAGAGGGATCTGAGCCGAGGACATTAGGATGAGGAACTCGTGTGTTAATTTCCTTTGCTAGAGCAGTTTGTGGCTTGGTGCTGTATGTTT
TGTAGAAAGTTAGCAGCAGTGTACAATGAATTTTCGAAGGTGTTACATTATTTACAGTACTCGTGAAATGGTATGATTTGTACAAATAATACACAGGTGAATCTTATAGTGCAAATTGACAGGTTAGGATGGCATATTTTCATGCCCTTTTTTGTTGAATTATTGTGGAAAAGCTTAGCATACTTCACATAGGATTTGGA
CTGTTATCTGATTTGTCTGATTGCTTGGAAACGTAAATAGTTTGTTTTGGGTGGTAACACATGGTAATGGTCTTTCCGTCTGTTTACCTCAATTAATTCAATGTTCAATGTGTAATTTTCAAAAACTAAAT

>TRINITY_DN41522_c0_g1_i4 from sample A9 / Example unspliced isoform:

ACAAACTCAGGTAACGAATTAAAAAATATATGGCAAATTCTAGAAAACGGCCAGCGTGGCATAAACGTGGCAATTCGAGGTAAAGAACACCCTCACCGGCGCTAGCGGTTACCGCCATCCTCTGTGCGGTGCCGACATTCCCACTTGAGGTTTTGGAAGGTCTGGAAAATAAAGGGCTTAGATGCCATCTCTGCTCAGTG
CTGACATTCCTGTACGATCATCCATAAACCTTAGTAATTAGGTCTCCCGCCTAGATTTTCCTCCCACCGTTCGCTTATACTTCTGTTTGAATTCGTTTGGAGTGGATTAATGGCCTTAGCAGGCATCCTCAAGCGATCTCAGACCAAACAATATGCACTCGGCCTTGCACAGGCTGCTGTACAGAGGTATGAAGTCTCGT
GCGGAGCTTTGCCAATTACTCGCAGATGGACTGCCGTAGCAAGGGCTTTCAGTTCAAAGGGAGCCGGAAGTGATGTCATTGGAATTGATCTTGGCACCACAAACTCATGCGTGGCAGTCATGGAGGGGAAGCATCCAAAAGTAATTGAAAATTCAGAAGGTTCTCGTACAACACCATCAGTGGTTTCCTTCAATCAAAAA
GGAGAGCTACTGGTGGGCACCCCTGCAAAGCGTCAAGCAGTGACAAACCCAACTAACACATTGTTTGGAACCAAGCGTTTGATAGGAAGAAAGTTTGATGACCCACAAACACAGAAGGAGATGAAAATGGTCCCATATAAAATTGTTAGAGCTCCAAATGGTGATGCTTGGGTCGAAGCAAATGGACAGCAGTATTCGCC
TAGTCAAATTGGTGCATTTGTTTTGGGAAAAATGAAAGAAACTGCAGAATCTTATCTTGGGAGGAGTGTTGCAAATGCTGTTATAACTGTTCCAGCGTATTTTAATGATGCACAAAGGCAGGCAACAAAAGATGCAGGAAGAATTGCTGGGATGGAAGTGAAAAGAATAATCAATGAACCTACTGCTGCTGCTCTGTCAT
ACGGGATGAATAATAAGGAAGGTTTGGTGGCTGTTTTTGATCTCGGGGGAGGAACATTTGACATTTCTATCCTTGAAATATCAAATGGCGTGTTTGAGgtaatgaaataaatgctaagaaagaatttgcagtagctcaattgtcacatgctgcttctggtcccaaacctgttatcacttctctcatttgaaagctttcta
ctgtcttgcagGTAAAGGCTACAAATGGTGATACTTTCTTGGGTGGTGAGGATTTTGATAATGCATTATTGCAGTATTTAGTGGACGAGTTCAAAAAAACTGAAGGCATCGATTTATCAAAAGATAGGCTTGCTGTGCAGAGGTTGCGAGAAGCTGCTGAGAAAGCTAAGATGGAGCTTTCTTCAACCACCTCGACAGAT
ATTAATCTGCCTTTCATCACAGCAGATGCCTCTGGTGCAAAACATTTAAATATTCAATTGACTCGGTCGAAATTTGAAATGCTTGTGAATAATTTGATCGAAAGAACAAGGCAACCTTGTAAGGATTGTATGAAGGATGCCGGTGTGACTTCTAGAGAGTTAGATGAAGTATTATTGGTGGGAGGAATGACTAGGGTGCC
GAAGGTTCAACAATTAGTTGCTGAATTGTTTGGTAAGGAGCCAAGCAAAGGTGTTAATCCGGACGAGGCAGTAGCAATGGGTGCTGCCATACAGGGTGGCATCCTCAAGGGTGATGTAAAGGAGTTACTCCTGCTTGATGTCACTCCATTGTCTCTTGGAATAGAAACTCTTGGCGGAGTAGCTACCAAGCTTATCATTA
GGAATACAACTATACCAACCAAGAAGAGTCAAGTGTTCTCAACTGCAGCTGACTGTCAGACACAGGTTGGAATTAAAGTACTTCAAGGAGAACGTGAAATGGCGGCTGACAACAAAATTCTCGGTCAGTTTGACCTTGTTGGCATTCCTCCATCTCCACGTGGTCTTCCCCAAATAGAAGTTACCTTTGA

Intron 2 GTTTCAAACC ... TGAAACGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	10.75	274	0	33
A2	10.13	213	0	24
A3	9.71	279	3	30
A4	10.45	257	0	30
A5	13.75	138	2	22
A6	14.09	128	0	21
A7	9.35	417	0	43
A8	16.99	171	0	35
A9	11.88	319	0	43
A10	10.08	446	0	50

>TRINITY_DN103483_c0_g2_i1 from sample A5 / Example spliced isoform

GTTAAACGGACACGTTGATTTATCAACCTGCGCTCGGATCAATGTCCCGGACTGAAAACTTAATGTCGGAGACAGAATAATAAAAATAAGATACCTTCACCATGCAATTATGTGACAAACACAGGTAACGAATTAAAAAATATATGGCAAATTCTAGAAAACGGCCAGCGTGGCATAAACGTGGCAATTCGAGGTAAAGA
ACACCCTCACCGGCGCTAGCGGTTACCGCCATCCTCTGTGCGGTGCCGACATTCCCACTTGAGGTTTTGGAAGGTCTGGAAAATAAAGGGCTTAGATGCCATCTCTGCTCAGTGCTGACATTCCTGTACGATCATCCATAAACCTTAGTAATTAGGTCTCCCGCCTAGATTTTCCTCCCACCGTTCGCTTATACTTCTGT
TTGAATTCGTTTGGAGTGGATTAATGGCCTTAGCAGGCATCCTCAAGCGATCTCAGACCAAACAATATGCACTCGGCCTTGCACAGGCTGCTGTACAGAGGTATGAAGTCTCGTGCGGAGCTTTGCCAATTGCTCGCAGATGGACTGCCGTAGCAAGGGCTTTCAGTTCAAAGGGAGCCGGAAGTGATGTCATTGGAATT
GATCTTGGCACCACAAACTCATGCGTGGCAGTCATGGAGGGGAAGCATCCAAAAGTAATTGAAAATTCAGAAGGTTCTCGTACAACACCATCAGTGGTTTCCTTCAATCAAAAAGGAGAGCTACTGGTGGGCACCCCTGCAAAGCGTCAAGCAGTGACAAACCCAACTAACACATTGTTTGGAACCAAGCGTTTGATAGG
AAGAAAGTTTGATGACCCACAAACACAGAAGGAGATGAAAATGGTCCCATATAAAATTGTTAGAGCTCCAAATGGTGATGCTTGGGTCGAAGCAAATGGACAGCAGTATTCGCCTAGTCAAATTGGTGCATTTGTTTTGGGAAAAATGAAAGAAACTGCAGAATCTTATCTTGGGAGGAGTGTTGCAAATGCTGTTATAA
CTGTTCCAGCGTATTTTAATGATGCACAAAGGCAGGCAACAAAAGATGCAGGAAGAATTGCTGGGATGGAAGTGAAAAGAATAATCAATGAACCTACTGCTGCTGCTCTGTCATACGGGATGAATAATAAGGAAGGTTTGGTGGCTGTTTTTGATCTCGGGGGAGGAACATTTGACATTTCTATCCTTGAAATATCAAAT
GGCGTGTTTGAGGTAAAGGCTACAAATGGTGATACTTTCTTGGGTGGTGAGGATTTTGATAATGCATTATTGCAGTATTTAGTGGACGAGTTCAAAAAAACTGAAGGCATCGATTTATCAAAAGATAGGCTTGCTGTGCAGAGGTTGCGAGAAGCTGCTGAGAAAGCTAAGATGGAGCTTTCTTCAACCACCTCGACAGA
TATTAATCTGCCTTTCATCACAGCAGATGCCTCTGGTGCAAAACATTTAAATATTCAATTGACTCGGTCGAAATTTGAAATGCTTGTGAATAATTTGATCGAAAGAACAAGGCAACCTTGTAAGGATTGTATGAAGGATGCCGGTGTGACTTCTAGAGAGTTAGATGAAGTATTATTGGTGGGAGGAATGACTAGGGTGC
CGAAGGTTCAACAATTAGTTGCTGAATTGTTTGGTAAGGAGCCAAGCAAAGGTGTTAATCCGGACGAGGCAGTAGCAATGGGTGCTGCCATACAGGGTGGCATCCTCAAGGGTGATGTAAAGGAGTTACTCCTGCTTGATGTCACTCCATTGTCTCTTGGAATAGAAACTCTTGGCGGAGTAGCTACCAAGCTTATCATT
AGGAATACAACTATACCAACCAAGAAGAGTCAAGTGTTCTCAACTGCAGCTGACGGTCAGACACAGGTTGGAATTAAAGTACTTCAAGGAGAACGTGAAATGGCGGCTGACAACAAAATTCTCGGTCAGTTTGACCTTGTTGGCATTCCTCCATCTCCACGTGGTCTTCCCCAAATAGAAGTTACCTTTGATATTGATGC
AAATGGCATAGTGAATGTATCTGCACGTGATAAGGCCACTGGTAAGGAACAAGCTATTACAATTCACCCATCCGGAGGACTTTCAGAGGCTGATATACAGAATATGGTTAGAGATGCTGAGATGTATGCCCAAAAAGATCAAGAAAGAAAGAAATTGATTGAGGCAAAGAACCAGGCAGACAACAGCATATATTCAGTGG
AAAAAAGTTTGAATGAGTACAAGGATAAACTGCCGGCAAATGTAGTTAGTGAAATAGAATCTGCAGTAGCTGACCTGAAGAAAGCTATTGAGGGTGAGGACACAGATCAAATATTGGCCAAGATTGAAGCAGCGACTAAAGCATCCGTACAAATAGGCCAGCATCTGCAGCAACAATCTGGTGGGTCATCTGGCACCACT
GGAACTGCTAAAGGGGGGGACCAAGCACCTGAAGCAGAGTATGAGGAGGTCAAGAAGTGAAAAATAACACGCCAGTGAGAGGGATCTGAGCCGAGGACATTAGGATGAGGAACTCGTGTGTTAATTTCCTTTGCTAGAGCAGTTTGTGGCTTGGTGCTGTATCTTTTGTAGAAAGTTAGCAGCAGTGTACAATGAATTTT
CGAAGGTGTTACATTATTTACAGTACTCGTGAAATGGTATGATTTGTACAAATAATACACAGGTGAATCTTATAGTGCAAATTGACAGGTTAGGATGGCATATTTTCATGCCCTTTTTTGTTGAATTATTGTGGAAAAGCTTAGCATACTTCACATAGGATTTGGACTGTTATCTGATTTGTCTGATTGCTTGGAAACGT
T

>TRINITY_DN103483_c0_g2_i4 from sample A5 / Example unspliced isoform:

ATATGCACTCGGCCTTGCACAGgtttcaaaccgtcgccgtattttagcttcaattttgtatttgtgtttcgttagctcaattacgggaacactaacacctgccagggggatatacaatgtgtatgtggtttcttgaaacgcagGCTGCTGTACAGAGGTATGAAGTCTCGTGCGGAGCTTTGCCAATTGCTCGCAGATGG
ACTGCCGTAGCAAGGGCTTTCAGTTCAAAGGGAGCCGGAAGTGATGTCATTGGAATTGATCTTGGCACCACAAACTCATGCGTGGCAGTCATGGAGGGGAAGCATCCAAAAGTAATTGAAAATTCAGAAGGTTCTCGTACAACACCATCAGTGGTTTCCTTCAATCAAAAAGGAGAGCTACTGGTGGGCACCCCTGCAAA
GCGTCAAGCAGTGACAAACCCAACTAACACATTGTTTGGAACCAAGCGTTTGATAGGAAGAAAGTTTGATGACCCACAAACACAGAAGGAGATGAAAATGGTCCCATATAAAATTGTTAGAGCTCCAAATGGTGATGCTTGGGTCGAAGCAAATGGACAGCAGTATTCGCCTAGTCAAATTGGTGCATTTGTTTTGGGAA
AAATGAAAGAAACTGCAGAATCTTATCTTGGGAGGAGTGTTGCAAATGCTGTTATAACTGTTCCAGCGTATTTTAATGATGCACAAAGGCAGGCAACAAAAGATGCAGGAAGAATTGCTGGGATGGAAGTGAAAAGAATAATCAATGAACCTACTGCTGCTGCTCTGTCATACGGGATGAATAATAAGGAAGGTTTGGTG
GCTGTTTTTGATCTCGGGGGAGGAACATTTGACATTTCTATCCTTGAAATATCAAATGGCGTGTTTGAGGTAAAGGCTACAAATGGTGATACTTTCTTGGGTGGTGAGGATTTTGATAATGCATTATTGCAGTATTTAGTGGACGAGTTCAAAAAAACTGAAGGCATCGATTTATCAAAAGATAGGCTTGCTGTGCAGAG
GTTGCGAGAAGCTGCTGAGAAAGCTAAGATGGAGCTTTCTTCAACCACCTCGACAGATATTAATCTGCCTTTCATCACAGCAGATGCCTCTGGTGCAAAACATTTAAATATTCAATTGACTCGGTCGAAATTTGAAATGCTTGTGAATAATTTGATCGAAAGAACAAGGCAACCTTGTAAGGATTGTATGAAGGATGCCG
GTGTGACTTCTAGAGAGTTAGATGAAGTATTATTGGTGGGAGGAATGACTAGGGTGCCGAAGGTTCAACAATTAGTTGCTGAATTGTTTGGTAAGGAGCCAAGCAAAGGTGTTAATCCGGACGAGGCAGTAGCAATGGGTGCTGCCATACAGGGTGGCATCCTCAAGGGTGATGTAAAGGAGTTACTCCTGCTTGATGTC
ACTCCATTGTCTCTTGGAATAGAAACTCTTGGCGGAGTAGCTACCAAGCTTATCATTAGGAATACAACTATACCAACCAAGAAGAGTCAAGTGTTCTCAACTGCAGCTGACGGTCAGACACAGGTTGGAATTAAAGTACTTCAAGGAGAACGTGAAATGGCGGCTGACAACAAAATTCTCGGTCAGTTTGACCTTGTTGG
CATTCCTCCATCTCCACGTGGTCTTCCCCAAATAGAAGTTACCTTTGATATTGATGCAAATGGCATAGTGAATGTATCTGCACGTGATAAGGCCACTGGTAAGGAACAAGCTATTACAATTCACCCATCCGGAGGACTTTCAGAGGCTGATATACAGAATATGGTTAGAGATGCTGAGATGTATGCCCAAAAAGATCAAG
AAAGAAAGAAATTGATTGAGGCAAAGAACCAGGCAGACAACAGCATATATTCAGTGGAAAAAAGTTTGAATGAGTACAAGGATAAACTGCCGGCAAATGTAGTTAGTGAAATAGAATCTGCAGTAGCTGACCTGAAGAAAGCTATTGAGGGTGAGGACACAGATCAAATATTGGCCAAGATTGAAGCAGCGACTAAAGCA
TCCGTACAAATAGGCCAGCATCTGCAGCAACAATCTGGTGGGTCATCTGGCACCACTGGAACTGCTAAAGGGGGGGACCAAGCACCTGAAGCAGAGTATGAGGAGGTCAAGAAGTGAAAAATAACACGCCAGTGAGAGGGATCTGAGCCGAGGACATTAGGATGAGGAACTCGTGTGTTAATTTCCTTTGCTAGAGCAGT
TTGTGGCTTGGTGCTGTATCTTTTGTAGAAAGTTAGCAGCAGTGTACAATGAATTTTCGAAGGTGTTACATTATTTACAGTACTCGTGAAATGGTATGATTTGTACAAATAATACACAGGTGAATCTTATAGTGCAAATTGACAGGTTAGGATGGCATATTTTCATGCCCTTTTTTGTTGAATTATTGTGGAAAAGCTTA
GCATACTTCACATAGGATTTGGACTGTTATCTGATTTGTCTGATTGCTTGGAAACGTT

Intron 3 GTCGGTCTTC ... TCTTGTTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	32.66	470	36.7	228
A2	30.29	446.6	25.3	194
A3	26.36	472.1	20.1	169
A4	29.69	378.9	25.1	160
A5	29.28	215	13	89
A6	25.69	216.9	17	75
A7	28.99	744.7	58.6	304
A8	28.67	321	20.4	129
A9	25.98	584.1	54.9	205
A10	28.95	760.7	52.3	310

>TRINITY_DN125607_c2_g1_i2 from sample A1 / Example spliced isoform

ACGCCGTTGGCTCCTAAGGCATAGGAACCCAGGTGAACGTCACCGCACACAGCGTCAATCAAAACCCTGAAAAAAACCCAATTTAAAAAATTCACACGTTAATTCAATTGTGAAGAACTTTGGTTAAACGGACACGTTGATTTATCAACCTGCGCTCGGATCAATGTCCCGGACTGAAAACTTAATGTCGGAGACAGAAT
AATAAAAATAAGATACCTTCACCATGCAATTATGTGACAAACACAGGTAACGAATTAAAAAATATATGGCAAATTCTAGAAAACGGCCAGCGTGGCATAAACGTGGCAATTCGAGGTAAAGAACACCCTCACCGGCGCTAGCGGTTACCGCCATCCTCTGTGCGGTGCCGACATTCCCACTTGAGGTTTTGGAAGGTCTG
GAAAATAAAGGGCTTAGATGCCATCTCTGCTCAGTGCTGACATTCCTGTACGATCATCCATAAACCTTAGTAATTAGGTCTCCCGCCTAGATTTTCCTCCCACCGTTCGCTTATACTTCTGTTTGAATTCGTTTGGAGTGGATTAATGGCCTTAGCAGGCATCCTCAAGCGATCTCAGACCAAACAATATGCACTCGGCC
TTGCACAGGCTGCTGTACAGAGGTATGAAGTCTCGTGCGGAGCTTTGCCAATTACTCGCAGATGGACTGCCGTAGCAAGGGCTTTCAGTTCAAAGGGAGCCGGAAGTGATGTCATTGGAATTGATCTTGGCACCACAAACTCATGCGTGGCAGTCATGGAGGGGAAGCATCCAAAAGTAATTGAAAATTCAGAAGGTTCT
CGTACAACACCATCAGTGGTTTCCTTCAATCAAAAAGGAGAGCTACTGGTGGGCACCCCTGCAAAGCGTCAAGCAGTGACAAACCCAACTAACACATTGTTTGGAACCAAGCGTTTGATAGGAAGAAAGTTTGATGACCCACAAACACAGAAGGAGATGAAAATGGTCCCATATAAAATTGTTAGAGCTCCAAATGGTGA
TGCTTGGGTCGAAGCAAATGGACAGCAGTATTCGCCTAGTCAAATTGGTGCATTTGTTTTGGGAAAAATGAAAGAAACTGCAGAATCTTATCTTGGGAGGAGTGTTGCAAATGCTGTTATAACTGTTCCAGCGTATTTTAATGATGCACAAAGGCAGGCAACAAAAGATGCAGGAAGAATTGCTGGGATGGAAGTGAAAA
GAATAATCAATGAACCTACTGCTGCTGCTCTGTCATACGGGATGAATAATAAGGAAGGTTTGGTGGCTGTTTTTGATCTCGGGGGAGGAACATTTGACATTTCTATCCTTGAAATATCAAATGGCGTGTTTGAGGTAAAGGCTACAAATGGTGATACTTTCTTGGGTGGTGAGGATTTTGATAATGCATTATTGCAGTAT
TTAGTGGACGAGTTCAAAAAAACTGAAGGCATCGATTTATCAAAAGATAGGCTTGCTGTGCAGAGGTTGCGAGAAGCTGCTGAGAAAGCTAAGATGGAGCTTTCTTCAACCACCTCGACAGATATTAATCTGCCTTTCATCACAGCAGATGCCTCTGGTGCAAAACATTTAAATATTCAATTGACTCGGTCGAAATTTGA
AATGCTTGTGAATAATTTGATCGAAAGAACAAGGCAACCTTGTAAGGATTGTATGAAGGATGCCGGTGTGACTTCTAGAGAGTTAGATGAAGTATTATTGGTGGGAGGAATGACTAGGGTGCCGAAGGTTCAACAATTAGTTGCTGAATTGTTTGGTAAGGAGCCAAGCAAAGGTGTTAATCCGGACGAGGCAGTAGCAA
TGGGTGCTGCCATACAGGGTGGCATCCTCAAGGGTGATGTAAAGGAGTTACTCCTGCTTGATGTCACTCCATTGTCTCTTGGAATAGAAACTCTTGGCGGAGTAGCTACCAAGCTTATCATTAGGAATACAACTATACCAACCAAGAAGAGTCAAGTGTTCTCAACTGCAGCTGACTGTCAGACACAGGTTGGAATTAAA
GTACTTCAAGGAGAACGTGAAATGGCGGCTGACAACAAAATTCTCGGTCAGTTTGACCTTGTTGGCATTCCTCCATCTCCACGTGGTCTTCCCCAAATAGAAGTTACCTTTGATATTGATGCAAATGGCATAGTGAATGTATCTGCACGTGATAAGGCCACTGGTAAGGAACAAGCTATTACAATTCACCCATCCGGAGG
ACTTTCAGAGGCTGATATACAGAATATGGTTAGAGATGCTGAGATGTATGCCCAAAAAGATCAAGAAAGAAAGAAATTGATTGAGGCAAAGAACCAGGCAGACAACAGCATATATTCAGTGGAAAAAAGTTTGAATGAGTACAAGGATAAACTGCCGGCAAATGTAGTTAGTGAAATAGAATCTGCAGTAGCTGACCTGA
AGAAAGCTATTGAGGGTGAGGACACAGATCAAATATTGGCCAAGATTGAAGCAGCGACTAAAGCATCCGTACAAATAGGCCAGCATCTGCAGCAACAATCTGGTGGGTCATCTGGCACCACTGGAACTGCTAAAGGGGGGGACCAAGCACCTGAAGCAGAGTATGAGGAGGTCAAGAAGTGAAAAATAACACGCCAGTGA
GAGGGATCTGAGCCGAGGACATTAGGATGAGGAACTCGTGTGTTAATTTCCTTTGCTAGAGCAGTTTGTGGCTTGGTGCTGTATGTTTTGTAGAAAGTTAGCAGCAGTGTTTGAAGAGGTCAAGAAGTGAAAAATAACACGCCAGTGAGAGGGATCTGAGCCGAGGACATTAGGATGAGGAACTCGTGTGTTAATTTCCT
TTGCTAGAGCAGTTTGTGGCTTGGTGCTGTATGTTTTGTAGAAAGTTAGCAGCAGTGTACAATGAATTTTCGAAGGTGTTACATTATTTACAGTACTCGTGAAATGGTATGATTTGTACAAATAATACACAGGTGAATCTTATAGTGCAAATTGACAGGTTAGGATGGCATATTTTCATGCCCTTTTTTGTTGAATTATT
GTGGAAAAGCTTAGCATACTTCACATAGGATTTGGACTGTTATCTGATTTGTCTGATTGCTTGGAAACGTAAATAGTTTGTTTTGGGTGGA

>TRINITY_DN125607_c2_g1_i3 from sample A1 / Example unspliced isoform:

GCTTCAATTAAAAAAGGGAAAATTGAATTCTCACCAGCTAGCCATTAGACATACTCTTCTTCCATGTGATAGATGCATTCGGCAGAACAAACTTGGTCATCTGTACTAATTTGTCATATTTTGTTTCCTACAGTTCAAAGGGAGCCGGAAGTGATGTCATTGGAATTGATCTTGGCACCACAAACTCATGCGTGGCAGTC
ATGGAGGGGAAGgtcggtcttcaatttgtattgtacttaaaatctgttaatatttgaaaaacaaaaactatagttatgctatggggtatacatgcaaatgtgcagtttcatggtattgaatatctttaatgaagtataaatgaagctatcaaagaatgcctgtttttgtttgatcatttcacatcagtgagtcatctttt
gctcttgtttagCATCCAAAAGTAATTGAAAATTCAGAAGGTTCTCGTACAACACCATCAGTGGTTTCCTTCAATCAAAAAGGAGAGCTACTGGTGGGCACCCCTGCAAAGCGTCAAGCAGTGACAAACCCAACTAACACATTGTTTGGAACCAAGCGTTTGATAGGAAGAAAGTTTGATGACCCACAAACACAGAAGGA
GATGAAAATGGTCCCATATAAAATTGTTAGAGCTCCAAATGGTGATGCTTGGGTCGAAGCAAATGGACAGCAGTATTCGCCTAGTCAAATTGGTGCATTTGTTTTGGGAAAAATGAAAGAAACTGCAGAATCTTATCTTGGGAGGAGTGTTGCAAATGCTGTTATAACTGTTCCAGCGTATTTTAATGATGCACAAAGGC
AGGCAACAAAAGATGCAGGAAGAATTGCTGGGATGGAAGTGAAAAGAATAATCAATGAACCTACTGCTGCTGCTCTGTCATACGGGATGAATAATAAGGAAGGTTTGGTGGCTGTTTTTGATCTCGGGGGAGGAACATTTGACATTTCTATCCTTGAAATATCAAATGGCGTGTTTGAGGTAAAGGCTACAAATGGTGAT
ACTTTCTTGGGTGGTGAGGATTTTGATAATGCATTATTGCAGTATTTAGTGGACGAGTTCAAAAAAACTGAAGGCATCGATTTATCAAAAGATAGGCTTGCTGTGCAGAGGTTGCGAGAAGCTGCTGAGAAAGCTAAGATGGAGCTTTCTTCAACCACCTCGACAGATATTAATCTGCCTTTCATCACAGCAGATGCCTC
TGGTGCAAAACATTTAAATATTCAATTGACTCGGTCGAAATTTGAAATGCTTGTGAATAATTTGATCGAAAGAACAAGGCAACCTTGTAAGGATTGTATGAAGGATGCCGGTGTGACTTCTAGAGAGTTAGATGAAGTATTATTGGTGGGAGGAATGACTAGGGTGCCGAAGGTTCAACAATTAGTTGCTGAATTGTTTG
GTAAGGAGCCAAGCAAAGGTGTTAATCCGGACGAGGCAGTAGCAATGGGTGCTGCCATACAGGGTGGCATCCTCAAGGGTGATGTAAAGGAGTTACTCCTGCTTGATGTCACTCCATTGTCTCTTGGAATAGAAACTCTTGGCGGAGTAGCTACCAAGCTTATCATTAGGAATACAACTATACCAACCAAGAAGAGTCAA
GTGTTCTCAACTGCAGCTGACTGTCAGACACAGGTTGGAATTAAAGTACTTCAAGGAGAACGTGAAATGGCGGCTGACAACAAAATTCTCGGTCAGTTTGACCTTGTTGGCATTCCTCCATCTCCACGTGGTCTTCCCCAAATAGAAGTTACCTTTGATATTGATGCAAATGGCATAGTGAATGTATCTGCACGTGATAA
GGCCACTGGTAAGGAACAAGCTATTACAATTCACCCATCCGGAGGACTTTCAGAGGCTGATATACAGAATATGGTTAGAGATGCTGAGATGTATGCCCAAAAAGATCAAGAAAGAAAGAAATTGATTGAGGCAAAGAACCAGGCAGACAACAGCATATATTCAGTGGAAAAAAGTTTGAATGAGTACAAGGATAAACTGC
CGGCAAATGTAGTTAGTGAAATAGAATCTGCAGTAGCTGACCTGAAGAAAGCTATTGAGGGTGAGGACACAGATCAAATATTGGCCAAGATTGAAGCAGCGACTAAAGCATCCGTACAAATAGGCCAGCATCTGCAGCAACAATCTGGTGGGTCATCTGGCACCACTGGAACTGCTAAAGGGGGGGACCAAGCACCTGAA
GCAGAGTATGAGGAGGTCAAGAAGTGAAAAATAACACGCCAGTGAGAGGGATCTGAGCCGAGGACATTAGGATGAGGAACTCGTGTGTTAATTTCCTTTGCTAGAGCAGTTTGTGGCTTGGTGCTGTATGTTTTGTAGAAAGTTAGCAGCAGTGTTTGAAGAGGTCAAGAAGTGAAAAATAACACGCCAGTGAGAGGGAT
CTGAGCCGAGGACATTAGGATGAGGAACTCGTGTGTTAATTTCCTTTGCTAGAGCAGTTTGTGGCTTGGTGCTGTATGTTTTGTAGAAAGTTAGCAGCAGTGTACAATGAATTTTCGAAGGTGTTACATTATTTACAGTACTCGTGAAATGGTATGATTTGTACAAATAATACACAGGTGAATCTTATAGTGCAAATTGA
CAGGTTAGGATGGCATATTTTCATGCCCTTTTTTGTTGAATTATTGTGGAAAAGCTTAGCATACTTCACATAGGATTTGGACTGTTATCTGATTTGTCTGATTGCTTGGAAACGTAAATAGTTTGTTTTGGGTGGA

Intron 4 GTAATTTACT ... TTCAATGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	25	51	17	17
A2	23.44	49	18	12
A3	28.21	28	10	12
A4	32.26	21	11	9
A5	33.33	10	6	4
A6	29.63	95	47	33
A7	27.2	194	90	55
A8	29.03	319	165	96
A9	27.71	253	126	68
A10	32.92	109	63	44

>TRINITY_DN43133_c0_g2_i4 from sample A6 / Example spliced isoform

GCAGGATTGGATGTTAAAAGAATCATCAATGAGCCAACTGCAGCTGCCCTCTCCTATGGCATGAATGAAAAGGAGGGTCTGGTTGCTGTCTTTGATCTTGGTGGGGGCACTTTCGATGTGTCAGTCCTTGAAATATCCAATGGTGTATTCGAGGTCAAGGCCACAAATGGTGATACTTTCTTGGGTGGTGAGGATTTTGA
TAATGCTATGCTCCAGTATTTAGTTGGCGAGTTCAAAAAGACAGAAAAAATTGACCTGTCCACGGATAAGCTAGCTTTGCAAAGGCTTCGTGAGGCTGCAGAGAAAGCTAAGGTGGAGCTGTCATCTTCTTCTCAGACAGAGATTAATCTACCATTTATCACGGCAGATGCATCTGGTGCAAGGCATTTGAATGTGACAA
TAACTCGTTCAAAATTTGAAATGCTAGTAAATCACTTAATCGAGAGAACAAGAATCCCTTGCAAAAATTGTCTAAAGGATGCAGGGATTACCGCATCGGAAGTGGATGAAGTTATTCTTGTGGGAGGAATGTCCCGGGTTCCAAGGGTTCAAGAGATTGTCACTGAGATTTTTGGAAAGATGCCAAGTAAAGGTGTTAAT
CCAGACGAGGCTGTGGCATTGGGTGCTGCCATCCAAGGTGGAATTCTGCGGGGTGATGTAAAGGAACTGCTTTTACTGGATGTGACTCCTCTTTCTATTGGATTAGAAACACTTGGTGGGGTTTTCACTAGGTTGATAAGCAGAAATACAACAATCCCTACGAAAAAGAGTCAGATATTCTCAACTGCTGCAGATGGTCA
AACTCAGGTTGGTATAAGGGTATTCCAAGGAGAGCGTGAAATGGCTGCAGACAATAAGCTTCTGGGTGAGTTTCAGCTTGTTGGTGTTCCACCAGCTCCTAGAGGTGTTCCCCAAATAGAAGTTACCTTTGACATTGATGCAAACGGTATAGTGACTGTATCTGCTCGTGACAAATCCACTGGCAAGGAGCAACAAATTA
CTATAAAATCATCTGGAGGGCTTTCTGACGATGAAATTCAGAAGATGGTGAAGGAAGCTGAGATGCATGCCCAAAAGGATCTGGAGAAGAAACAGCTCATTGATGCTAGAAACCACGCAGATAGCATGATATACAGTGTAGAGAAGAGCTTAAGTGACTACAAGGACAAGATTCCTGCAGATGTAGTCACCGAAATTGAA
TCAGCAGTGGCTGATTTGAAGAAAACCATGGCCAGTGATGATTTGGATATGATCAAAGCAAAAACTGAGGCTGTAAGTCAAGCATCCATGAAAATAGGACAGCATATGCATCAGCAATCTGGTGGGTCATCTTCTTCTGGTTCAGAAGGAGGAACAGAGGCACCTGAAGCTGAATATGAGGAGATGAGGAAATGATAAAA
ACTAAATTGATAGTTGCAAAATACATGTATGATTGGCTAAGATTATTTAGATCATTTTTTTGGTTTAGGCTAGTAGGAGCAATTTTGAAAAAATTAAACAGCTTGAACCATTTGGAAGGTTTGCTGTTTTAGAAGGCACGTCTCTGACCAGAAAAGGGTTGTCCTTTGGTAGAGCTGTAGTTGAAAACATAGTGGCAGGA
GACTGTACTAATCTGCGACACTGACATAGATGAAGCCTACCGAGGAGGAATTTGCTCATCAGCTGCATCAACTTGGAGCAGGAAGAGTGGGATCAGTTTAATTTTCTGTAGTCTGGAAATGCCCAGCAATCTAGGCTCTTGTCTGAACTTCACAATTTCGTTTGTTAATTTTCTCTCCAAATTATCTGATTTAAAACTTG
AACCAGAAAGTTATTATTTGAAATCTTGAAAACAATTAAAAAAGGAAAAAAAACAGAACATTATAA

>TRINITY_DN43133_c0_g2_i2 from sample A6 / Example unspliced isoform:

GCAGGATTGGATGTTAAAAGAATCATCAATGAGCCAACTGCAGCTGCCCTCTCCTATGGCATGAATGAAAAGGAGGGTCTGGTTGCTGTCTTTGATCTTGGTGGGGGCACTTTCGATGTGTCAGTCCTTGAAATATCCAATGGTGTATTCGAGGTCAAGGCCACAAATGGTGATACTTTCTTGGGTGGTGAGGATTTTGA
TAATGCTATGCTCCAGTATTTAGTTGGCGAGTTCAAAAAGACAGAAAAAATTGACCTGTCCACGGATAAGCTAGCTTTGCAAAGGCTTCGTGAGGCTGCAGAGAAAGCTAAGGTGGAGCTGTCATCTTCTTCTCAGACAGAGATTAATCTACCATTTATCACGGCAGATGCATCTGGTGCAAGGCATTTGAATGTGACAA
TAACTCGTTCAAAATTTGAAATGCTAGTAAATCACTTAATCGAGAGAACAAGAATCCCTTGCAAAAATTGTCTAAAGGATGCAGGGATTACCGCATCGGAAGTGGATGAAGTTATTCTTGTGGGAGGAATGTCCCGGGTTCCAAGGGTTCAAGAGATTGTCACTGAGATTTTTGGAAAGATGCCAAGTAAAGGTGTTAAT
CCAGACGAGGCTGTGGCATTGGGTGCTGCCATCCAAGGTGGAATTCTGCGGGGTGATGTAAAGGAACTGCTTTTACTGGATGTGACTCCTCTTTCTATTGGATTAGAAACACTTGGTGGGGTTTTCACTAGGTTGATAAGCAGAAATACAACAATCCCTACGAAAAAGAGTCAGATATTCTCAACTGCTGCAGATGGTCA
AACTCAGGTTGGTATAAGGGTATTCCAAGGAGAGCGTGAAATGGCTGCAGACAATAAGCTTCTGGGTGAGTTTCAGCTTGTTGGTGTTCCACCAGCTCCTAGAGGTGTTCCCCAAATAGAAGTTACCTTTGACATTGATGCAAACGGTATAGTGACTGTATCTGCTCGTGACAAATCCACTGGCAAGGAGCAACAAATTA
CTATAAAATCATCTGGAGGGCTTTCTGACGATGAAATTCAGAAGATGGTGAAGGAAGCTGAGATGCATGCCCAAAAGGATCTGGAGAAGAAACAGCTCATTGATGCTAGAAACCACGCAGATAGCATGATATACAGTGTAGAGAAGAGCTTAAGTGACTACAAGGACAAGATTCCTGCAGATGTAGTCACCGAAATTGAA
TCAGCAGTGGCTGATTTGAAGAAAACCATGGCCAGTGATGATTTGGATATGATCAAAGCAAAAACTGAGGCTGTAAGTCAAGCATCCATGAAAATAGGACAGCATATGCATCAGCAATCTGGTGGGTCATCTTCTTCTGGTTCAGAAGGAGGAACAGAGGCACCTGAAGCTGAATATGAGGAGATGAGGAAATGATAAAA
ACTAAATTGATAGTTGCAAAATACATGTATGATTGGCTAAGATTATTTAGATCATTTTTTTGGTTTAGGCTAGTAGGAGCAATTTTGAAAAAATTAAACAGCTTGAACCATTTGGAAGGTTTGCTGTTTTAGAAGGCACGTCTCTGACCAGAAAAGGGTTGTCCTTTGGTAGAGCTGTAGTTGAAAACATAGTGGCAGGA
GACTGTACTAATCTGCGgtaatttacttgttctaaagctaaaatttgtgttttgtgtgatttgtttccttcacaaatcaattattcttatgatcgattcaatgcagACACTGACATAGATGAAGCCTACCGAGGAGGAATTTGCTCATCAGCTGCATCAACTTGGAGCAGGAAGAGTGGGATCAGTTTAATTTTCTGTAG
TCTGGAAATGCCCAGCAATCTAGGCTCTTGTCTGAACTTCACAATTTCGTTTGTTAATTTTCTCTCCAAATTATCTGATTTAAAACTTGAACCAGAAAGTTATTATTTGAAATCTTGAAAACAATTAAAAAAGGAAAAAAAACAGAACATTATAA