NA ----> NA

Intron 1 GTAAGAGACT ... TTTGCTGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	2	13
A2	73.91	3	5	12
A3	86.67	1	7	6
A4	100	0	0	3
A5	55.56	2	3	2
A6	40	3	3	1
A7	78.95	2	7	8
A8	40	3	3	1
A9	50	1	1	1
A10	33.33	1	0	1

>TRINITY_DN88189_c0_g1_i5 from sample A5 / Example spliced isoform

AATTGTAATTGTTGCCCACCAAGTGTATTCTCAGATTAATGAGCTAGAATAATGCAGGCTCATTGCGCTTCTGGAAGGCCCTGCCTTTGGTGGGTGGAGAGCTATCTGAGGGACTGTGTATGCGGAACGAGAGATTATGTCTCTCTGGCGTTTGGGTTGACCAGCGTCTTCATCTGGACTGTGGCTGAGATTCCTCAGAT
TGTGACAAACTTCAAGTCTGGATCCACAGAGGGACTCTCTCTTGCATTTCTTATAGCTTGGCTTGCAGGAGACGTGCTAAATCTAATTGGGTGTTTGCTGGAGCGAGCAACGCTCCCCACACAGTTATATTCTGCGCTGCTTTATACAATTGCCACTGTGA

>TRINITY_DN88189_c0_g1_i6 from sample A5 / Example unspliced isoform:

CGAAGTGTATTCACATAGAATTATTCCCAGATTAATGAGCTAGAATAATGGCCCGTTGCGCTTCTGAAAGGCCCTGCCTCTGGCTCATTGCGCTTCTGGAAGGCCCTGCCTTTGGTGGGTGGAGAGCTATCTGAGGGACTGTGTATGCGGAACGAGAGATTATGTCTCTCTGGCGTTTGGGTTGACCAGCGTCTTCATCT
GGACTGTGGCTGAGATTCCTCAGATTGTGACAAACTTCAAGTCTGGATCCACAGAGGGACTCTCTCTTGCATTTCTTATAGCTTGGCTTGCAGGAGACGTGCTAAATCTAATTGGGTGTTTGCTGGAGCGAGCAACGCTCCCCACACAGTTATATTCTGCGCTGgtaagagacttaaatggtacattttcgggtaatatc
cttcagtttatctagagaaatataaacaatcagtcttccgttttgctgtagCTTTATACAATTGCCACTGTGATCCTCGTTGGACAAAATCTATACTATGACTATAAAGGCAAGTCGCTGAAAGAGAAGGTATGACTTTCATATGATGTTAAGAGAATTACTGCACTGTTGCACGGGTTATGAGTCGACATGCCTCTACC
GAGGTTCAAATAGCTAGTAAATATATTACTATATTGTAAGCTACGTCGGGATTTTGATGGAACTGCGTTGTGTGCTATATATATAATAGTTCTATCAAATTCAGGTTGTTTCTCAAAGATTTCATGAATACAGTATTCATCAATGATGTTGTATGGCTGATAATTTGTGCAGAAACAACAACAAGAAATCTCTGCATCCA
AGGACGGGTCTAAGCAACAACATGATAACATAAAGGCACAGCCTGTGATTTCTACTTCCATAATATCGACTACTGTAATGCCACCCAGGTCCATGAACATTCAGCTCATCTACCTCATCTAAGAGCACTTATGATTTTATATTATAGTTTAAGAAGTTAGATACTTTACTATACAAGTTACAAGAGCACTTATGATTTTA
TATTATAGTTTAAGAAGTTAGATACTTTACTATACAAGTTACAAGAGCACTTATGATTTTATATT

Intron 2 GTAAATAAAT ... TATGTCGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	85.56	2.5	12	16
A2	22.46	5.5	1	2
A3	60.98	4.5	9	5
A4	23.08	5	3	0
A5	60	6	10	8
A6	22.22	2.5	1	0
A7	0	1.5	0	0
A8	0	1.5	0	0
A9	26.66	1.5	1	0
A10	0	0.5	0	0

>TRINITY_DN95656_c0_g2_i1 from sample A3 / Example spliced isoform

CACCAAGTGTATTCTCAGATTAATGAGCTAGAATAATGCAGGCTCATTGCGCTTCTGGAAGGCCCTGCCTTTGGTGGGTGGAGAGCTATCTGAGGGACTGTGTATGCGGAACGAGAGATTATGTCTCTCTGGCGTTTGGGTTGACCAGCGTCTTCATCTGGACTGTGGCTGAGATTCCTCAGATTGTGACAAACTTCAAG
TCTGGATCCACAGAGGGACTCTCTCTTGCATTTCTTATAGCTTGGCTTGCAGGAGACGTGCTAAATCTAATTGGGTGTTTGCTGGAGCGAGCAACGGTATGTCGTTCCTGATTCTTATTGAGAAGGATAGTCAGAGTTTAAATCTAGAATTACAGAATAAGATTGTACTGTTGTGTTAAGTAGTGCTTTTTTGTACTGTT
GTGTTGCCTTAACTGTTAAGTAGTGTTTTTTTTCTTTGAAT

>TRINITY_DN95656_c0_g2_i2 from sample A3 / Example unspliced isoform:

CACCAAGTGTATTCTCAGATTAATGAGCTAGAATAATGCAGGCTCATTGCGCTTCTGGAAGGCCCTGCCTTTGGTGGGTGGAGAGCTATCTGAGGGACTGTGTATGCGGAACGAGAGATTATGTCTCTCTGGCGTTTGGGTTGACCAGCGTCTTCATCTGGACTGTGGCTGAGATTCCTCAGATTGTGACAAACTTCAAG
TCTGGATCCACAGAGGGACTCTCTCTTGCATTTCTTATAGCTTGGCTTGCAGGgtaaataaatttcccgcgctatcattcagattttgtttagttttcttctcttcgttgtgaaggcggtactaatcacgcgcgccattgcatttgcagcactcttaaagggagctttattatactattatattcttgcaacatttaaca
taacgcttttatgtctattctgagtatgttcttctatactttatattagttttcacgattgagtgtgtatgtcgcagAGACGTGCTAAATCTAATTGGGTGTTTGCTGGAGCGAGCAACGGTATGTCGTTCCTGATTCTTATTGAGAAGGATAGTCAGAGTTTAAATCTAGAATTACAGAATAAGATTGTACTGTTGTGT
TAAGTAGTGCTTTTTTGTACTGTTGTGTTGCCTTAACTGTTAAGTAGTGTTTTTTTTCTTTGAAT