NA ----> NA

Intron 1 GTTATGTGCA ... CCTTGTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	40	12	0	8
A2	62.5	3	2	5
A3	-1	0	0	0
A4	-1	0	0	0
A5	66.67	1	0	2
A6	41.67	21	0	15
A7	25.53	35	0	12
A8	29.55	31	0	13
A9	31.71	28	0	13
A10	36.67	19	3	11

>TRINITY_DN42924_c0_g1_i2 from sample A7 / Example spliced isoform

CTCCAAAGGCTTTTACATGCAAGGGCTTTAACGAACCAGAAAATGTTTTTTAGACCCAGCCCCCAAGATCCCGAGGAAAGGCCAATTTATTCCAATGAACGAGGCGAATTCCTTCGTTAGCCTTGTTGCCCGTCCAGAGGAAACTAAAGATTTTCCTCCTGAAAATATTTATGTAAGATATCAGAAGGAACCTTCGTCAA
TGAGAGTCAGAACACCGGGATATTTTGTAATATTGATTGAGCCAGAATGAGGCGACCACGCAACGAGGATTGAGGCGACCACCCAACGAAAGGTATCTGTTGATCCAGTGGTTAATGTGACCTTCAATTTTCTTGAGCATCCAGAACCAATCCGATGTGGCGTAATTGTTAGGCTTCAAGAAGTAGCCAAGGTATTTAAA
ACCCCCATCGAGAGACTCCGACAGATAAGGGAATAAAGCAAGAATTCTGAACAATACCTCATCCGAAACGCCCAAGTGAAGAAAAGTCGAAGTCGACTTCTGTGAGCTGATCTCCATCCCACTAGCCTCACAGAAGATCTGAATAATATCACGAAATGATTGCCACTCCTCCCGGGACCCAAGACCAAAGAGAAGGACAT
CGTCCACAAAGAGCAAATGAGAAATAGCAATATCCCTGGAGATTTTAATACCATGAAGAAATCCATCCGACCTGTATTTTAGAATATTCGACTGAGGCCTTCAATGACCAATAGAAATAGTAAAGGCGACAGCGGACACCCCTGTCGAATACCTCGAGAAGCCTCGAAAGCTTGTATGCACTCAGTCTGTAAGAACATTG
AACAACACTGATGGACAAACATCCTGGGCCTATCAGGGCTTGTCTTTTCAGCAACAATTACACATATGCCTGTGAAGAAGATCCAGATGGATTTCATATCATCACCCGACATCATATAATTGCTAAAAGTAAACGGATGCATGAGTTCTTAGCATGGAGCACTGTCATAGGGCTGATGGCATTTATTTGCACTCTGCTTT
CGCCCATTCCCACTGTAACACAAGGATCTAGTTTGATTGGCACGGTTCTTATATGCGTCTTGACTGCTGCAGTCATTCATGGTAATGGCATTGAGCAAGTGGAAAAGTTTCCCGTCGTTTTGTTCCCATTGGTGATATTTTATCAGCAGTGATAAATGAAGCTGTCACACCATTTACTTGTTATTCTTACTTGGCCTTGG
TTTTACGTGATGAAAGAAAACTTGCTTTGGTTTTCCAGGGATTACGGCCACCATTAGACATGTTGGTTCCAACATGGAAATCTTTGTGCAGTGCAGTTAGCAGTAAAATGTTGCAATAGATCAACTGATGCAACTTGATTCTTCCTTAGAATGTTGGGATATCTGGAGTTATTTCAAAATATGCTGAACTCTTATTTAAA
CTCATATTTATTCATATTAGCAACATTCTTCAACTTAATATTGATACCATAGTAGCAATATTCCAGTACAATTAGTTTCGGAAAAAATATGTTTAAGTAAATATTTTAATATGACTAAAATGCTGATAAACATATAAACATGCATTTTTTTATTTGTCTGCAAAAAAAA

>TRINITY_DN42924_c0_g1_i4 from sample A7 / Example unspliced isoform:

TCATGGTAATGGCATTGAGCAAGgttatgtgcagagacagtagtggtgatgccaacactaggcgtacagcttgaaacatgctataaaaggaccacttcttcccgatgctattttccatgacggcccacaaataaaagaacgaaatgcttaaataaatgatatgtgctattttacatgacggcccacaaataaaagaacga
aatgcttgaataaatgatatgttcatttgtgtaaacattttgatctgtgtgcatctgcaggaccacttctttcccttcattttcttggacccgagggctcactttgagcatgaatagtttaagtacctctgacaaattgtttttcttattaaagagttagagtgacactgttgccttactagattttttatctgcaaatt
atgtcaattctagaggcatggatttctacgcagactgatatttgaggacattctgaatatcctattctttgtcagaaatgaataggataatttgttgtctttatggatatggaaggaaataagacagtacatctaatggattagcacgtcattccaaatgcgttgaaattaacttttatatggctggagaaaaccatgta
aaagttagttcttattaaacaggtgaatcatgactcattgaagagtgggactggtctagtgggtgcgcaattgggtttgccatggtagttattactggttcatctttgacagagtcctcctacccccatagggagatgcagttttcgggaaaactgggtttcatccagcctatgccataggttaaatgatcaacaagcca
ttgggcttctaaataattatttgaattttttatacagtggtggaattacattaattttttcagctaatattttctgttatcattttgctcaaaagtatgtttcacctgtgtaaattctgtttagtcatttcccaatactaatgtttcttgccttaaatgtataatctagatgccaacactattgaaccgaagttgtgcag
acttagcaaacgcatctgacataaaaccgtagacattaagatagttaaagttgaattttcttcatatgttacataaaatatttgtcgcattcaacatgattgtgtcagtatgttttttccttctaattaagatgtattttattaaaaaactggtttacaggttttttcgttgaccttgtaaaactcattttccttgtgca
gTGGAAAAGTTTCCCGTCGTTTTGTTCCCATTGGTGATATTTTATCAGCAGTGATAAATGAAGCTGTCACACCATTTACTTGTTATTCTTACTTGGCCTTGGTTTTACGTGATGAAAGAAAACTTGCTTTGGTTTTCCAGG

Intron 2 GTAAGATAGA ... TTGATCGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	17.65	14	3	3
A2	-1	0	0	0
A3	22.22	7	2	2
A4	23.08	5	2	1
A5	33.33	6	0	6
A6	25.14	67	16	29
A7	27.27	60	26	19
A8	20.58	110	18	39
A9	22.99	72	16	27
A10	22.22	49	11	17

>TRINITY_DN38068_c0_g1_i6 from sample A8 / Example spliced isoform

GGCTAGGTGGCCTATAATTATATTATTATTATTATTATTATTATGCGAATTTCTTGGTGCAGATTTGCGTGATAAGAATGATCTGATTTTTTGCTGATAATGATGTTTGCAACATTTGATAAAACTTTTCTTTTCTTCAAGGGCAAATTTCTTGTGCATTTCTTCTTTCCTAATCAGGTGTTTTAGTATGATTCTGTCTT
GAACTGACGCAAATATGCTTATAGATGTAATAGGATTTCCTAATCAGGTGTTTTAGTATGATTCTGTCTTGAACTGAATCAAACATGCTTATAGATGTAATAGGCCTGTACTTAAATCCTCCGTTATGGATAGCTTGTTTGTATTTAAGATGGTCTAATTTCCTTGTCTTTGGTCAAGTGTACATGCTCTTTTGGGTCTC
ATAATTTAGTCCTGACCATGAATGTTAAATGTAAGATCATTCAGGTGCAGTGCCTCGTTCTATAGCAAACTTACATTTTTCTTTTTCAAAAGTAGTTTTCTGATGTTGTACCATTGTATTTTAAACAACATGAAAATCAGTGACATGTTAATTGAGGCACTTGGGCTGTTTTTGACAGACTGATAGGTTATGTGCAGAGA
CAGTAGTGGTGATGCCAACACTAGGCGTACAGCTTGAAACATGCTATAAAAGTGGAAAAGTTTCCCGTCGTTTTGTTCCCATTGGTGATATTTTATCAGCAGTGATAAATGAAGCTGTCACACCATTTACTTGTTATTCTTACTTGGCCTTGGTTTTACGTGATGAAAGAAAACTTGCTTTGGTTTTCCAGGGATTACGG
CCACCATTAGACATGTTGGTTCCAACATGGAAATCTTTGTGCAGTGCAGTTAGCAGTAAAATGTTGCAATAGATCAACTGATGCAGCTTGATTCTTCCTTAGAATGTTGGGATATCTGGAGTTATTTCAAAATATGCTGAACTCTTATTTAAACTCATATTTATTCATATTAGCAACATTCTTCAACTTAATATTGATAC
CATAGTAGCAATATTCCAGTACAATTAGTTTCGGAAAAAATATGTTTAAGTAAATATTTTAATATGACTAAAATGCTGATAAACATATAAACATGCATTTTTTTATTTGTCTGCAAA

>TRINITY_DN38068_c0_g1_i7 from sample A8 / Example unspliced isoform:

TCATGGTAATGGCATTGAGCAAGTGGAAAAGTTTCCCGTCGTTTTGTTCCCATTGGTGATATTTTATCAGCAGTGATAAATGAAGCTGTCACACCATTTACTTGTTATTCTTACTTGGCCTTGGTTTTACGTGATGAAAGAAAACTTGCTTTGGTTTTCCAGgtaagatagactgggaccatgttttacgtgatcaaaaa
tttgttacggaactgaaaaattgtttgattttgactgaagacttgataaaaaaattgttacggaactgaagaaatgtttgatcgcagGGATTACGGCCACCATTAGACATGTTGGTTCCAACATGGAAATCTTTGTGCAGTGCAGTTAGCAGTAAAATGTTGCAATAGATCAACTGATGCAGCTTGATTCTTCCTTAGAA
TGTTGGGATATCTGGAGTTATTTCAAAATATGCTGAACTCTTATTTAAACTCATATTTATTCATATTAGCAACATTCTTCAACTTAATATTGATACCATAGTAGCAATATTCCAGTACAATTAGTTTCGGAAAAAATATGTTTAAGTAAATATTTTAATATGACTAAAATGCTGATAAACATATAAACATGCATTTTTTT
ATTTGTCTGCAAA

Intron 3 GTAGCATTCT ... CCTTGTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	22.86	27	4	8
A2	26.32	14	3	5
A3	0	3	1	0
A4	-1	0	2	0
A5	50	2	0	2
A6	24.19	47	1	15
A7	15.79	64	0	12
A8	13.68	82	1	13
A9	18.92	60	1	14
A10	25.58	32	1	11

>TRINITY_DN111068_c0_g1_i2 from sample A1 / Example spliced isoform

CACTCCTCCCGGGACCCAAGACCAAAGAGAAGGACATCGTCCACAAAGAGCAAATGAGAAATAGCAATATCCCTGGAGATTTTAATACCATGAAGAAATCCATCCGACCTGTATTTTAGAATATTCGACTGAGGCCTTCAATGACCAATAGAAATAGTAAAGGCGACAGCGGACACCCCTGTCGAATACCTCGAGAAGCC
TCGAAAGCTTGTATGCACTCAGTCTGTAAGAACATTGAACAACACTGATGGACAAACATCCTGGGCCTATCAGGGCTTGTCTTTTCAGCAACAATTACACATATGCCTGTGAAGAAGATCCAGATGGATTTCATATCATCACCCGACATCATATAATTGCTAAAAGTAAACGGATGCATGAGTTCTTAGCATGGAGCACG
GTCATAGGGCTGATGGCATTTATTTGCACTCTGCTTTCGCCCATTCCCACTGTAACACAAGGATCTAGTTTGATTGGCACGGTTCTTATATGCGTCTTGACTGCTGCAGTCATTCATGGTAATGGCATTGAGCAAGAGACAGTAGTGGTGATGCCAACACTAGGCGTACAGCTTGAAACATGCTATAAAAGTGGAAAAGT
TTCCCGTCGTTTTGTTCCCATTGGTGATATTTTATCAGCAGTGATAAATGAAGCTGTCACACCATTTACTTGTTATTCTTACTTGGCCTTGGTTTTACGTGATGAAAGAAAACTTGCTTTGGTTTTCCAGGGATTACGGCCACCATTAGACATGTTGGTTCCAACATGGAAATCTTTGTGCAGTGCAGTTAGCAGTAAAA
TGTTGCAATAGATCAACTGATGCAACTTGATTCTTCCTTAGAATGTTGGGATATCTGGAGTTATTTCAAAATATGCTGAACTCTTATTTAAACTCATATTTATTCATATTAGCAACATTCTTCAACTTAATATTGATACCATAGTAGCAATATTCCAGTACAATTAGTTTCGGAAAAAATATGTTTAAGTAAATATTTTA
ATATGACTAAAATGCTGATAAACATATAAACATGCATTTTTTTATTTGTC

>TRINITY_DN111068_c0_g1_i3 from sample A1 / Example unspliced isoform:

CTTGTTTGTATTTAAGATGGTCTAATTTCCTTGTCTTTGGTCAAGTGTACATGCTCTTTTGGGTCTCATAATTTAGTCCTGACCATGAATGTTAAATGTAAGATCATTCAGGTGCAGTGCCTCGTTCTATAGCAAACTTACATTTTTCTTTTTCAAAAGTAGTTTTCTGATGTTGTACCATTGTATTTTAAACAACATGA
AAATCAGTGACATGTTAATTGAGGCACTTGGGCTGTTTTTGACAGACTGATAGGTTATGTGCAGAGACAGTAGTGGTGATGCCAACACTAGGCGTACAGCTTGAAACATGCTATAAAAGgtagcattcttttgctattttacataactgcccacaaataaaaggatgaaatgcttgaataattgatactttgatttgtga
aacattttgatctgtgtacatctgcaggaccacttcttcccgatgctattttccatgacggcccacaaataaaagaacgaaatgcttaaataaatgatatgtgctattttacatgacggcccacaaataaaagaacgaaatgcttgaataaatgatatgttcatttgtgtaaacattttgatctgtgtgcatctgcagga
ccacttctttcccttcattttcttggacccgagggctcactttgagcatgaatagtttaagtacctctgacaaattgtttttcttattaaagagttagagtgacactgttgccttactagattttttatctgcaaattatgtcaattctagaggcatggatttctacgcagactgatatttgaggacattctgaatatcc
tattctttgtcagaaatgaataggataatttgttgtctttatggatatggaaggaaataagacagtacatctaatggattagcacgtcattccaaatgcgttgaaattaacttttatatggctggagaaaaccatgtaaaagttagttcttattaaacaggtgaatcatgactcattgaagagtgggactggtctagtgg
gtgcgcaattgggtttgccatggtagttattactggttcatctttgacagagtcctcctacccccatagggagatgcagttttcgggaaaactgggtttcatccagcctatgccataggttaaatgatcaacaagccattgggcttctaaataattatttgaattttttatacagtggtggaattacattaattttttca
gctaatattttctgttatcattttgctcaaaagtatgtttcacctgtgtaaattctgtttagtcatttcccaatactaatgtttcttgccttaaatgtataatctagatgccaacactattgaaccgaagttgtgcagacttagcaaacgcatctgacataaaaccgtagacattaagatagttaaagttgaattttctt
catatgttacataaaatatttgtcgcattcaacatgattgtgtcagtatgttttttccttctaattaagatgtattttattaaaaaaactggtttacaggttttttcgttgaccttgtaaaactcattttccttgtgcagTGGAAAAGTTTCCCGTCGTTTTGTTCCCATTGGTGATATTTTATCAGCAGTGATAAATGA
AGCTGTCACACCATTTACTTGTTATTCTTACTTGGCCTTGGTTTTACGTGATGAAAGAAAACTTGCTTTGGTTTTCCAGGGATTACGGCCACCATTAGACATGTTGGTTCCAACATGGAAATCTTTGTGCAGTGCAGTTAGCAGTAAAATGTTGCAATAGATCAACTGATGCAACTTGATTCTTCCTTAGAATGTTGGGA
TATCTGGAGTTATTTCAAAATATGCTGAACTCTTATTTAAACTCATATTTATTCATATTAGCAACATTCTTCAACTTAATATTGATACCATAGTAGCAATATTCCAGTACAATTAGTTTCGGAAAAAATATGTTTAAGTAAATATTTTAATATGACTAAAATGCTGATAAACATATAAACATGCATTTTTTTATTTGTC

Intron 4 GTTATGTGCA ... GCTATAAAAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	68.4	12	19.5	26
A2	77.54	3	8	11
A3	-1	0	0.5	0.5
A4	-1	0	2	0
A5	62.5	1	1	2
A6	62.9	21	18.5	37
A7	58.31	35	34	50.5
A8	66.16	31	45.5	64
A9	61.87	28	34	47.5
A10	57.63	19	21	26.5

>TRINITY_DN38403_c0_g1_i6 from sample A6 / Example spliced isoform

AGAAAATGTTTTTTAGACCCAGCCCCCAAGATCCCGAGGAAAGGCCAATTTATTCCAATGAACGAGGCGAATTCCTTCGTTAGCCTTGTTGCCCGTCCAGAGGAAACTAAAGATTTTCCTCCTGAAAATATTTATGTAAGATATCAGAAGGAACCTTCGTCAATGAGAGTCAGAACACCGGGATATTTTGTAATATTGAT
TGAGCCAGAATGAGGCGACCACGCAACGAGGATTGAGGCGACCACCCAACGAAAGGTATCTGTTGATCCAGTGGTTAATGTGACCTTCAATTTTCTTGAGCATCCAGAACCAATCCGATGTGGCGTAATTGTTAGGCTTCAAGAAGTAGCCAAGGTATTTAAAACCCCCATCGAGAGACTCCGACAGATAAGGGAATAAA
GCAAGAATTCTGAACAATACCTCATCCGAAACGCCCAAGTGAAGAAAAGTCGAAGTCGACTTCTGTGAGCTGATCTCCATCCCACTAGCCTCACAGAAGATCTGAATAATATCACGAAATGATTGCCACTCCTCCCGGGACCCAAGACCAAAGAGAAGGACATCGTCCACAAAGAGCAAATGAGAAATAGCAATATCCCT
GGAGATTTTAATACCATGAAGAAATCCATCCGACCTGTATTTTAGAATATTCGACTGAGGCCTTCAATGACCAATAGAAATAGTAAAGGCGACAGCGGACACCCCTGTCGAATACCTCGAGAAGCCTCGAAAGCTTGTATGCACTCAGTCTGTAAGAACATTGAACAACACTGATGGACAAACATCCTGGGCCTATCAGG
GCTTGTCTTTTCAGCAACAATTACACATATGCCTGTGAAGAAGATCCAGATGGATTTCATATCATCACCCGACATCATATAATTGCTAAAAGTAAACGGATGCATGAGTTCTTAGCATGGAGCACTGTCATAGGGCTGATGGCATTTATTTGCACTCTGCTTTCGCCCATTCCCACTGTAACACAAGGATCTAGTTTGAT
TGGCACGGTTCTTATATGCGTCTTGACTGCTGCAGTCATTCATGGTAATGGCATTGAGCAAGTGGAAAAGTTTCCCGTCGTTTTGTTCCCATTGGTGATATTTTATCAGCAGTGATAAATGAAGCTGTCACACCATTTACTTGTTATTCTTACTTGGCCTTGGTTTTACGTGATGAAAGAAAACTTGCTTTGGTTTTCCA
GGGATTACGGCCACCATTAGACATGTTGGTTCCAACATGGAAATCTTTGTGCAGTGCAGTTAGCAGTAAAATGTTGCAATAGATCAACTGATGCAACTTGATTCTTCCTTAGAATGTTGGGATATCTGGAGTTATTTCAAAATATGCTGAACTCTTATTTAAACTCATATTTATTCATATTAGCAACATTCTTCAACTTA
ATATTGATACCATAGTAGCAATATTCCAGTACAATTAGTTTCGGAAAAAATATGTTTAAGTAAATATTTTAATATGACTAAAATGCTGATAAACATATAAACATGCATTTTTTTATTTGTCT

>TRINITY_DN38403_c0_g1_i4 from sample A6 / Example unspliced isoform:

AGAAAATGTTTTTTAGACCCAGCCCCCAAGATCCCGAGGAAAGGCCAATTTATTCCAATGAACGAGGCGAATTCCTTCGTTAGCCTTGTTGCCCGTCCAGAGGAAACTAAAGATTTTCCTCCTGAAAATATTTATGTAAGATATCAGAAGGAACCTTCGTCAATGAGAGTCAGAACACCGGGATATTTTGTAATATTGAT
TGAGCCAGAATGAGGCGACCACGCAACGAGGATTGAGGCGACCACCCAACGAAAGGTATCTGTTGATCCAGTGGTTAATGTGACCTTCAATTTTCTTGAGCATCCAGAACCAATCCGATGTGGCGTAATTGTTAGGCTTCAAGAAGTAGCCAAGGTATTTAAAACCCCCATCGAGAGACTCCGACAGATAAGGGAATAAA
GCAAGAATTCTGAACAATACCTCATCCGAAACGCCCAAGTGAAGAAAAGTCGAAGTCGACTTCTGTGAGCTGATCTCCATCCCACTAGCCTCACAGAAGATCTGAATAATATCACGAAATGATTGCCACTCCTCCCGGGACCCAAGACCAAAGAGAAGGACATCGTCCACAAAGAGCAAATGAGAAATAGCAATATCCCT
GGAGATTTTAATACCATGAAGAAATCCATCCGACCTGTATTTTAGAATATTCGACTGAGGCCTTCAATGACCAATAGAAATAGTAAAGGCGACAGCGGACACCCCTGTCGAATACCTCGAGAAGCCTCGAAAGCTTGTATGCACTCAGTCTGTAAGAACATTGAACAACACTGATGGACAAACATCCTGGGCCTATCAGG
GCTTGTCTTTTCAGCAACAATTACACATATGCCTGTGAAGAAGATCCAGATGGATTTCATATCATCACCCGACATCATATAATTGCTAAAAGTAAACGGATGCATGAGTTCTTAGCATGGAGCACTGTCATAGGGCTGATGGCATTTATTTGCACTCTGCTTTCGCCCATTCCCACTGTAACACAAGGATCTAGTTTGAT
TGGCACGGTTCTTATATGCGTCTTGACTGCTGCAGTCATTCATGGTAATGGCATTGAGCAAGgttatgtgcagagacagtagtggtgatgccaacactaggcgtacagcttgaaacatgctataaaagTGGAAAAGTTTCCCGTCGTTTTGTTCCCATTGGTGATATTTTATCAGCAGTGATAAATGAAGCTGTCACACC
ATTTACTTGTTATTCTTACTTGGCCTTGGTTTTACGTGATGAAAGAAAACTTGCTTTGGTTTTCCAGGGATTACGGCCACCATTAGACATGTTGGTTCCAACATGGAAATCTTTGTGCAGTGCAGTTAGCAGTAAAATGTTGCAATAGATCAACTGATGCAACTTGATTCTTCCTTAGAATGTTGGGATATCTGGAGTTA
TTTCAAAATATGCTGAACTCTTATTTAAACTCATATTTATTCATATTAGCAACATTCTTCAACTTAATATTGATACCATAGTAGCAATATTCCAGTACAATTAGTTTCGGAAAAAATATGTTTAAGTAAATATTTTAATATGACTAAAATGCTGATAAACATATAAACATGCATTTTTTTATTTGTCT