NA ----> NA

Intron 1 GTCTGTATCT ... TCTGTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	13	14
A2	100	0	5	6
A3	100	0	13	5
A4	65.22	4	8	7
A5	100	0	0	2
A6	100	0	4	5
A7	33.33	4	2	2
A8	84	2	5	16
A9	80	1	3	5
A10	100	0	3	0

>TRINITY_DN38995_c0_g1_i2 from sample A7 / Example spliced isoform

GGGACAATGATTTTTCCAGCAATTCTCATGATGAACAGGGCTAGATTCATATTGGATGGGAACTTAGGAATGATCCCACGTTTCAAGTAAGTAAGCTGAGGCCTACATCACATGCGTCAACTTATTGATTTTATTGGTGAGATTGACTCGGGAAAAGTTATGATTCATTTATCAGAGGGCATGGAAACTTCTAGAAGGCT
TAAAGGATGGCAATGCACTGTAGATGGTGGGACACGATGAAAGAGGGGGATTAAGGATATATAATAAAAATTTGAATAAGGAGGACAGTAAAAAAGCCTGACACAAGAGAAACGAAGGAACTTTACAAGGACATATATACTAAATTCCAAGAATTGTTTGAAAAGTTGTCCAAAATAGAAGCCTGACCTTGTTATCAGAG
GTCTGGCAGCTAGAAACTAGAGCAGATGGATTACTTGCAATTTATCTTCAAAAGTAGACATAGACAAATGGTATAAGCTATGAATATCATGTGGTGGTAAAAATTGAGAAGGGAGCATACCTTGTGGCTTTGTGGCTTGAACAAGAAACAAGTTGAGAATGGAGTAGAGTGAAGTGATAGGCCTTTGACTTGACCAATGA
ACAACATGAAAGATTAGTTTCTTTACCCCTTTAAGTTAAAACCTGTTCCAATGAGAGTTTCTAGCAGAACTAAAAGAAATTTTGAGAAGATCCTGGAAATCAACCCTAGAGGTGTCTGAAGCTGTATTGAAAATTTGCTGAAACTAGAAAATTATATTTTTCTATTTATCTATTACAGAATATTTAGACTTTCTGAAAAT
AACTGCAAATTTGTACAGATCTTAGCAACAGTCTCCTCAGCAAAATGAG

>TRINITY_DN38995_c0_g1_i1 from sample A7 / Example unspliced isoform:

CGCTGTTTGGGGAATTTGGTTCATAACAGGGGATATGATACATGCTTTGTTATGTGCTCACATTTTCTATGATTTCATTGTGTTTGATTCATATCTCTAAGACAGTTGAATTTCGTATACCTTTGATAATTATATTATGTACCTGCAGTTCAATTTAACAGGACTTTAATGAGCTTCAGATTAAAGACTGATGCTACTGA
GATGGAGACATCTTCATAAGCTCCAAATCTGGCACGTTATGGAAACAGGGTTGCCATTGCTTTTTTTTCTATATCATGAATTGCATCAAAAAAGTTTTTTTAGCCCACCATTAGATGACAGTGTTTTGGAGTTGACTTTGTCTAGTTTACCTGTTGTGGATTTCATGCCTCGTCAAAATGTTTTCCAATGCTTGGCACGA
CATCTTCATAAGCTCTAAATCTGGCACGTTATGGAAACAGGGTTGCCATTGCATTTGTTTCTATATCATGAATTGCATTGAAAAGGTTTTTTTAGCCCACCATTAGATGACAATGTTTTGGAGTTGACTTTGTCTGGTTTAGCTATTCTGGATTTCATGCCTCATCAAAATGTTTTCCAGTGCCTGGCACTGTGCCATAG
AGTTACAACAGGCCTCAATTAGTTCACATTCTGCTCCTCTTATTTTAATCATTTTTTTAGTTCTTATTTAATCATTGCATAGTCCTGTAGTGATTGCAGGGCTAGATTCATATTGGATGGGAACTTAGGAATGATCCCACGTTTCAAGTAAGTAAGgtctgtatctaaaaacagtatctactacaaattttcactgcaga
ctgtgcagtaacgcagttattgagcccttgttaaatctgatgcttaattttcaagtaggatcacctgtgtttctttatctaaccttttgatggattttattgggcatagatggaggttaaaattacctttggaatttatttgacagaggtggaggttttacctaaccttctaattttttgatttgattttaatggaatat
tttatggcaaggtgacttctgttgcagCTGAGGCCTACATCACATGCGTCAACTTATTGATTTTATTGGTGAGATTGACTCGGGAAAAGTTATGATTCATTTATCAGAGGGCATGGAAACTTCTAGAAGGCTTAAAGGATGGCAATGCACTGTAGATGGTGGGACACGATGAAAGAGGGGGATTAAGGATATATAATAAA
AATTTGAATAAGGAGGACAGTAAAAAAGCCTGACACAAGAGAAACGAAGGAACTTTACAAGGACATATATACTAAATTCCAAGAATTGTTTGAAAAGTTGTCCAAAATAGAAGCCTGACCTTGTTATCAGAGGTCTGGCAGCTAGAAACTAGAGCAGATGGATTACTTGCAATTTATCTTCAAAAGTAGACATAGACAAA
TGGTATAAGCTATGAATATCATGTGGTGGTAAAAATTGAGAAGGGAGCATACCTTGTGGCTTTGTGGCTTGAACAAGAAACAAGTTGAGAATGGAGTAGAGTGAAGTGATAGGCCTTTGACTTGACCAATGAACAACATGAAAGATTAGTTTCTTTACCCCTTTAAGTTAAAACCTGTTCCAATGAGAGTTTCTAGCAGA
ACTAAAAGAAATTTTGAGAAGATCCTGGAAATCAACCCTAGAGGTGTCTGAAGCTGTATTGAAAATTTGCTGAAACTAGAAAATTATATTTTTCTATTTATCTATTACAGAATATTTAGACTTTCTGAAAATAACTGCAAATTTGTACAGATCTTAGCAACAGTCTCCTCAGCAAAATGAG

Intron 2 GTGAGATTGA ... CATTGATCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	94.29	1	12	21
A2	57.89	4	4	7
A3	77.78	2	7	7
A4	46.67	8	7	7
A5	100	0	3	0
A6	62.96	5	7	10
A7	54.29	8	7	12
A8	60.78	10	16	15
A9	100	0	4	3
A10	-1	0	0	0

>TRINITY_DN109113_c1_g2_i1 from sample A2 / Example spliced isoform

AAAAACAGTATCTACTACAAATTTTCACTGCAGACTGTGCAGTAACGCAGTTATTGAGCCCTTGTTAAATCTGATGCTTAATTTTCAAGTAGGATCACCTGTGTTTCTTTATCTAACCTTTTGATGGATTTTATTGGGCATAGATGGAGGTTAAAATTACCTTTGGAATTTATTTGACAGAGGTGGAGGTTTTACCTAAC
CTTCTAATTTTTTGATTTGATTTTAATGGAATATTTTATGGCAAGGTGACTTCTGTTGCAGCTGAGGCCTACATCACATGCGTCAACTTATTGATTTTATTGGGGCATGGAAACTTCTAGAAGGCTTAAAGGATGGCAATGCACTGTAGATGGTGGGACACGATGAAAGAGGGGGATTAAGGATATATAATAAAAATTTG
AATAAGGAGGACAGTAAAAAAGCCTGACACAAGAGAAACGAAGGAACTTTACAAGGACATATATACTAAATTCCAAGAATTGTTTGAAAAGTTGTCCAAAATAGAAGCCTGACCTTGTTATCAGAGGTCTGGCAGCTAGAAACTAGAGCAGATGGATTACTTGCAATTTATCTTCAAAAGTAGACATAGACAAATGGTAT
AAGCTATGAATATCATGTGGTGGTAAAAATTGAGAAGGGAGCATACCTTGTGGCTTTGTGGCTTGAACAAGAAACAAGTTGAGAATGGAGTAGAGTGAAGTGATAGGCCTTTGACTTGACCAATGAACAACATGAAAGATTAGTTTCTTTACCCCTTTAAGTTAAAACCTGTTCCAATGAGAGTTTCTAGCAGAACTAAA
AGAAATTTTGAGAAGATCCTGGAAATCAACCTTAGAGGTGTCTGAAGCTGTATTGAAAATTTGCTGAAACTAGAAAATTATATTTTTCTATTTATCTATTACAGAATATTTAGACTTTCTGAAAATAACTGCAAATTTGTACAGATCTTAGCAACAGTCTCCTCAGCAAAATGAGGGTTACAAGCTATCTTAGGATTCTA
GTTTTTTCCGAGTGTTTGCTTTGTTGTATCAGTATCGGTTTACATCTTCATTAGTTGTTACCTTCTCTTTTTGTGTCAATGTTTCTAATCTAGGAACAGTTCACGTTGAAAATTTGCAATTTTAAGCACTCTTGTAGAAGTGTTAAAAGGAGCTTTGTAGCACTGCTTCAGTGATTCACCATTTAGCAGGAACCCAGTGC
AGATTACTGATGAC

>TRINITY_DN109113_c1_g2_i2 from sample A2 / Example unspliced isoform:

AAAAACAGTATCTACTACAAATTTTCACTGCAGACTGTGCAGTAACGCAGTTATTGAGCCCTTGTTAAATCTGATGCTTAATTTTCAAGTAGGATCACCTGTGTTTCTTTATCTAACCTTTTGATGGATTTTATTGGGCATAGATGGAGGTTAAAATTACCTTTGGAATTTATTTGACAGAGGTGGAGGTTTTACCTAAC
CTTCTAATTTTTTGATTTGATTTTAATGGAATATTTTATGGCAAGGTGACTTCTGTTGCAGCTGAGGCCTACATCACATGCGTCAACTTATTGATTTTATTGgtgagattgactcgggaaaagttatgattcatttatcagagtatgtgcaacctttcagggccagctattattgttcatcttacattttattgcaagtt
tggctgtaaacattggtcattgatcagGGGCATGGAAACTTCTAGAAGGCTTAAAGGATGGCAATGCACTGTAGATGGTGGGACACGATGAAAGAGGGGGATTAAGGATATATAATAAAAATTTGAATAAGGAGGACAGTAAAAAAGCCTGACACAAGAGAAACGAAGGAACTTTACAAGGACATATATACTAAATTCCA
AGAATTGTTTGAAAAGTTGTCCAAAATAGAAGCCTGACCTTGTTATCAGAGGTCTGGCAGCTAGAAACTAGAGCAGATGGATTACTTGCAATTTATCTTCAAAAGTAGACATAGACAAATGGTATAAGCTATGAATATCATGTGGTGGTAAAAATTGAGAAGGGAGCATACCTTGTGGCTTTGTGGCTTGAACAAGAAAC
AAGTTGAGAATGGAGTAGAGTGAAGTGATAGGCCTTTGACTTGACCAATGAACAACATGAAAGATTAGTTTCTTTACCCCTTTAAGTTAAAACCTGTTCCAATGAGAGTTTCTAGCAGAACTAAAAGAAATTTTGAGAAGATCCTGGAAATCAACCTTAGAGGTGTCTGAAGCTGTATTGAAAATTTGCTGAAACTAGAA
AATTATATTTTTCTATTTATCTATTACAGAATATTTAGACTTTCTGAAAATAACTGCAAATTTGTACAGATCTTAGCAACAGTCTCCTCAGCAAAATGAGGGTTACAAGCTATCTTAGGATTCTAGTTTTTTCCGAGTGTTTGCTTTGTTGTATCAGTATCGGTTTACATCTTCATTAGTTGTTACCTTCTCTTTTTGTG
TCAATGTTTCTAATCTAGGAACAGTTCACGTTGAAAATTTGCAATTTTAAGCACTCTTGTAGAAGTGTTAAAAGGAGCTTTGTAGCACTGCTTCAGTGATTCACCATTTAGCAGGAACCCAGTGCAGATTACTGATGAC

Intron 3 GTATGTGCAA ... CATTGATCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	86.4	3	16	21
A2	67.88	3.3	7	7
A3	76.44	2.3	8	7
A4	46.55	6.3	4	7
A5	100	0	1	0
A6	87.86	1.3	9	10
A7	56.62	7.3	7	12
A8	57.11	10.7	12	15
A9	65.56	2.3	5	3
A10	-1	0	0	0

>TRINITY_DN107614_c3_g1_i1 from sample A4 / Example spliced isoform

GATTTTTCCAGCAATTCTCATGATGAACAGGGCTAGATTCATATTGGATGGGAACTTAGGAATGATCCCACGTTTCAAGTAAGTAAGGTGACTTCTGTTGCAGCTGAGGCCTACATCACATGCGTCAACTTATTGATTTTATTGGTGAGATTGACTCGGGAAAAGTTATGATTCATTTATCAGAGGGCATGGAAACTTCT
AGAAGGCTTAAAGGATGGCAATGCACTGTAGATGGTGGGACACGATGAAAGAGGGGGATTAAGGATATATAATAAAAATTTGAATAAGGAGGACAGTAAAAAAGCCTGACACAAGAGAAACGAAGGAACTTTACAAGGACATATATACTAAATTCCAAGAATTGTTTGAAAAGTTGTCCAAAATAGAAGCCTGACCTTGT
TATCAGAGGTCTGGCAGCTAGAAACTAGAGCAGATGGATTACTTGCAATTTATCTTCAAAAGTAGACATAGACAAATGGTATAAGCTATGAATATCATGTGGTGGTAAAAATTGAGAAGGGAGCATACCTTGTGGCTTTGTGGCTTGAACAAGAAACAAGTTGAGAATGGAGTAGAGTGAAGTGATAGGCCTTTGACTTG
ACCAATGAACAACATGAAAGATTAGTTTCTTTACCCCTTTAAGTTAAAACCTGTTCCAATGAGAGTTTCTAGCAGAACTAAAAGAAATTTTGAGAAGATCCTGGAAATCAACCCTAGAGGTGTCTGAAGCTGTATTGAAAATTTGCTGAAACTAGAAAATTATATTTTTCTATTTATCTATTACAGAATATTTAGACTTT
CTGAAAATAACTGCAAATTTGTACAGATCTTAGCAACAGTCTCCTCAGCAAAATGAGGGTTACAAGCTATCTTAGGATTCTAGTTTTTTCCGAGTGTTTGCTTTGTTGTATCAGTATCGGTTTACATCTTCATT

>TRINITY_DN107614_c3_g1_i2 from sample A4 / Example unspliced isoform:

CCTGTGTTTCTTTATCTAACCTTTTGATGGATTTTATTGGGCATAGATGGAGGTTAAAATTACCTTTGGAATTTATTTGACAGAGGTGGAGGTTTTACCTAACCTTCTAATTTTTTGATTTGATTTTAATGGAATATTTTATGGCAAGGTGACTTCTGTTGCAGCTGAGGCCTACATCACATGCGTCAACTTATTGATTT
TATTGGTGAGATTGACTCGGGAAAAGTTATGATTCATTTATCAGAgtatgtgcaacctttcagggccagctattattgttcatcttacattttattgcaagtttggctgtaaacattggtcattgatcagGGGCATGGAAACTTCTAGAAGGCTTAAAGGATGGCAATGCACTGTAGATGGTGGGACACGATGAAAGAGG
GGGATTAAGGATATATAATAAAAATTTGAATAAGGAGGACAGTAAAAAAGCCTGACACAAGAGAAACGAAGGAACTTTACAAGGACATATATACTAAATTCCAAGAATTGTTTGAAAAGTTGTCCAAAATAGAAGCCTGACCTTGTTATCAGAGGTCTGGCAGCTAGAAACTAGAGCAGATGGATTACTTGCAATTTATC
TTCAAAAGTAGACATAGACAAATGGTATAAGCTATGAATATCATGTGGTGGTAAAAATTGAGAAGGGAGCATACCTTGTGGCTTTGTGGCTTGAACAAGAAACAAGTTGAGAATGGAGTAGAGTGAAGTGATAGGCCTTTGACTTGACCAATGAACAACATGAAAGATTAGTTTCTTTACCCCTTTAAGTTAAAACCTGT
TCCAATGAGAGTTTCTAGCAGAACTAAAAGAAATTTTGAGAAGATCCTGGAAATCAACCCTAGAGGTGTCTGAAGCTGTATTGAAAATTTGCTGAAACTAGAAAATTATATTTTTCTATTTATCTATTACAGAATATTTAGACTTTCTGAAAATAACTGCAAATTTGTACAGATCTTAGCAACAGTCTCCTCAGCAAAAT
GAGGGTTACAAGCTATCTTAGGATTCTAGTTTTTTCCGAGTGTTTGCTTTGTTGTATCAGTATCGGTTTACATCTTCATT