NA ----> NA

Intron 1 GTGCAGTTTA ... CTGTTGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	60	2	5	1
A2	37.14	11	10	3
A3	44.44	10	8	8
A4	28.57	5	4	0
A5	33.33	2	1	1
A6	31.11	31	15	13
A7	27.78	39	17	13
A8	17.46	26	6	5
A9	23.38	59	27	9
A10	29.17	34	22	6

>TRINITY_DN44758_c0_g2_i6 from sample A8 / Example spliced isoform

TATTTATATACATACCTGGCGGCAGTACACGAAGTGGGGTTTCTAATAATCTGATACTTTCCTGAAAACAATGGTTTTTTGTCAGCACCAAAGTGTAAACTGATTTTTCAGTTTGTTGTATTTAAACATGGATGTGATCCCTTATTTCAATTTATTTTTACCTGATTCATAGTAATGCTTTTCCTCTTTCCGTCACTCTT
GTCTCGCATCTATATATATGGGTTCTCAATTATTTTCATAGTTGTTTCTCTTCCGATGATGGAATAAGTGTTCACATGAGAAGTTGAGCACAAAAAAATCAAACTCAGCTTCACAAAAACAAATACTGACAAAATGTCAAAATGTTGTCTGTGAGATCCTACATGCTGAAGTCCAAACTCTTTTAAGACTCGGACTATGA
ATGGATGCTTGTGTGCCAGGGACAGGTAGTAACAGGAGCTCCTATGGCGTTTCCGCATAAATGTTACTCAAGCATCTGTTCAGTTGACTGCCATGAATTCCTTTGGAAATGGCGAGGAATTTGGGTGCCCATTTTCCTTTAGTGTGTAGGATGTGCTGTGCAGGATTATTTATTATTTATGGCTCTACTGGAAATATACT
TTTCATGTCCAGATTTTTGTGATGCCTTTTTATTTGTAGATCTGTTTGTGTTTTAACATTTCCTTTTTATGAAGACGACCCTGACATCTCTTGGTTGATTCTGGCAGGCTTACAAGTGCTGCTAGCTGCTGCACTCTTTCATCATGTGTAGCATGTAACAATGGGACTGTAGGGAATTGTTACGGTGCATGGGATTAGAC
TGGTGGTGTTTCTCAAGAGAAAATCTGTTCGAAGCCCCATTAGGAAAATAATTTCATGAAAATTCCTCCGCGGTCTTCATATGCTTCATCTCGGATTCCAGGGTAAGGAATTTTGGTGGGTGTTGTCGTCTTCCTGGAGCTCGTAAACGTTGAAAGGTGTGTGTTCATGTAGTGGAGAAAATGCTATTTATATTGATCGG
CTATGGTGCCAGAGGTTGGAGATGTAGGATGGACAAACCTGCAATACAATTTTGATTGCAGTTACATTTGGTGATATATCATCGATCATGTCGTCATATTGTCTTGCGATGGACATTTCTAGTCTTTCTGCTTTGCTTTTTAAGGAGTAGTCTGAAAGTCTTTTTGCGATGGACATTTCTAGTCTTTCTGCTTTGCCTTT
TAAGGAGTAGGCTGAAAGTCTTTTTGCGATATAGTGAATCCTGGAGGCTTCACAACGCGGCTGTATTGTGTTGCAGATATTAATGTACAGTTCTTACAATATACAATGGAAAAAAAAAAGTTTGGAAATGGTAAATGTGAAAAGATATTTATTTTTGCTTGGATGATATTATTACTTATTCTGCGACATAGTGAATCCTG
GAAGCTTTACTACGCGGCTGTATTCATAGCAGATATCAATGTACTTTTCAATGGAAAAGAGAGTTTTGAAAATGATCAATGTGAAAAGATATTTATTTTT

>TRINITY_DN44758_c0_g2_i4 from sample A8 / Example unspliced isoform:

ACTAGGAATACGGTCTGTAATTTTGATGTTGAAGGGGAGGTGATTATCACGCCGGAAAGAAGGTCTTCTCTCCCACGGTTTCGATTCCGGGCGCAAGTGGCCTCCATATCTCACAAAACGAGGGTTGATATCTGCGAAGAAGTTAAAAGCGGCCCTCAGCATGGAGATATGTGGCTTACAAGTGCTGCTAGCTGCTGCAC
TCTTTCATCATGTGTAGCATGTAACAATGGGACTGTAGGGAATTGTTACGGTGCATGGGATTAGACTGGTGGTGTTTCTCAAGAGAAAATCTGTTCGAAGCCCCATTAGGAAAATAATTTCATGAAAATTCCTCCGCGGTCTTCATATGCTTCATCTCGGATTCCAGgtgcagtttaatatagttgaaacatttccaata
aaatctttagtagatgctaagtttggctttttgtcgactccagtctgttggcagGGTAAGGAATTTTGGTGGGTGTTGTCGTCTTCCTGGAGCTCGTAAACGTTGAAAGGTGTGTGTTCATGTAGTGGAGAAAATGCTATTTATATTGATCGGCTATGGTGCCAGAGGTTGGAGATGTAGGATGGACAAACCTGCAATAC
AATTTTGATTGCAGTTACATTTGGTGATATATCATCGATCATGTCGTCATATTGTCTTGCGATGGACATTTCTAGTCTTTCTGCTTTGCTTTTTAAGGAGTAGTCTGAAAGTCTTTTTGCGATGGACATTTCTAGTCTTTCTGCTTTGCCTTTTAAGGAGTAGGCTGAAAGTCTTTTTGCGATATAGTGAATCCTGGAGG
CTTCACAACGCGGCTGTATTGTGTTGCAGATATTAATGTACAGTTCTTACAATATACAATGGAAAAAAAAAAGTTTGGAAATGGTAAATGTGAAAAGATATTTATTTTTGCTTGGATGATATTATTACTTATTCTGCGACATAGTGAATCCTGGAAGCTTTACTACGCGGCTGTATTCATAGCAGATATCAATGTACTTT
TCAATGGAAAAGAGAGTTTTGAAAATGATCAATGTGAAAAGATATTTATTTTT

Intron 2 GTGCAGTTTA ... TCGACTCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	71.43	2	5	2
A2	47.83	11	10	2.1
A3	44.44	10.3	8	7.7
A4	48.67	4.3	4	0
A5	50	1	1	0
A6	34.72	28.3	15	9.7
A7	32.3	36	17	10.9
A8	19.26	25.3	6	3.7
A9	32.86	56.9	27.8	8.6
A10	41.16	31.7	22	5.7

>TRINITY_DN96328_c0_g1_i3 from sample A3 / Example spliced isoform

CATAGATTAGCTTTGGATGAGTAATCAACAAATCCATGCCGAAATTTATTTTCTAAAAGCTTTGCATATTTTAAATACACGAAGCTATAAACAAAATCATTATCCATAAAACTACTAAATAGTTCGTTTTAGAGAACCAAAAAATAAGGTTCTTACATATTCAGATGCAACACAGTCAGGATCTGTTATGCACCTTGTTT
ATTGAGCATCTGTGAACAATCTTGAAATACTTTTTAGGCAATGGTTGTTTGTTTATTGTGTCTCTGCTTCGTTAGTTCGTATATTTATATACATACCTGGCGGCAGTACACGAAGTGGGGTTTCTAATAATCTGATACTTTCCTGAAAACAATGGTTTTTTGTCAGCACCAAAGTGTAAACTGATTTTTCAGTTTGTTGT
ATTTAAACATGGATGTGATCCCTTATTTCAATTTATTTTTACCTGATTCATAGTAATGCTTTTCCTCTTTCCGTCACTCTTGTCTCGCATCTATATATATGGGTTCTCAATTATTTTCATAGTTGTTTCTCTTCCGATGATGGAATAAGTGTTCACATGAGAAGTTGAGCACAAAAAAATCAAACTCAGCTTCACAAAAA
CAAATACTGACAAAATGTCAAAATGTTGTCTGTGAGATCCTACATGCTGAAGTCCAAACTCTTTTAAGACTCGGACTATGAATGGATGCTTGTGTGCCAGGGACAGGTAGTAACAGGAGCTCCTATGGCGTTTCCGCATAAATGTTACTCAAGCATCTGTTCAGTTGACTGCCATGAATTCCTTTGGAAATGGCGAGGAA
TTTGGGTGCCCATTTTCCTTTAGTGTGTAGGATGTGCTGTGCAGGATTATTTATTATTTATGGCTCTACTGGAAATATACTTTTCATGTCCAGATTTTTGTGATGCCTTTTTATTTGTAGATCTGTTTGTGTTTTAACATTTCCTTTTTATGAAGACGACCCTGACATCTCTTGGTTGATTCTGGCAGGCTTACAAGTGC
TGCTAGCTGCTGCACTCTTTCATCATGTGTAGCATGTAACAATGGGACTGTAGGGAATTGTTACGGTGCATGGGATTAGACTGGTGGTGTTTCTCAAGAGAAAATCTGTTCGAAGCCCCATTAGGAAAATAATTTCATGAAAATTCCTCCGCGGTCTTCATATGCTTCATCTCGGATTCCAGTCTGTTGGCAGGGTAAGG
AATTTTGGTGGGTGTTGTCGTCTTCCTGGAGCTCGTAAACGTTGAAAGGTGTGTGTTCATGTAGTGGAGAAAATGCTATTTATATTGATAGGCTATGGTGCCAGAGGTTGGAGATGTAGGATGGACAAACCTGCAATACAATTTTGATTGCAGTTACATTTGGTGATATATCATCGATCATGTCGTCATATTGTCTTGCG
ATGGACATTTCTAGTCTTTCTGCTTTGCTTTTTAAGGAGTAGTCTGAAAGTCTTTTTGCGATGGACATTTCTAGTCTTTCTGCTTTGCTTTTTAAGGAGTAGTCTGAAAGTCTTTTTGCGATGGACATTTCTAGTCTT

>TRINITY_DN96328_c0_g1_i6 from sample A3 / Example unspliced isoform:

CGGGGAGGTGATTATCACGCCGGAAAGAAGGTCTTCTCTCCCACGGTTTCGATTCCGGGCGCAAGTGGCCTCCATATCTCGCTTACAAGTGCTGCTAGCTGCTGCACTCTTTCATCATGTGTAGCATGTAACAATGGGACTGTAGGGAATTGTTACGGTGCATGGGATTAGACTGGTGGTGTTTCTCAAGAGAAAATCTG
TTCGAAGCCCCATTAGGAAAATAATTTCATGAAAATTCCTCCGCGGTCTTCATATGCTTCATCTCGGATTCCAGgtgcagtttaatatagttgaaacatttccaataaaatctttagtagatgctaagtttggctttttgtcgactccagTCTGTTGGCAGGGTAAGGAATTTTGGTGGGTGTTGTCGTCTTCCTGGAGC
TCGTAAACGTTGAAAGGTGTGTGTTCATGTAGTGGAGAAAATGCTATTTATATTGATAGGCTATGGTGCCAGAGGTTGGAGATGTAGGATGGACAAACCTGCAATACAATTTTGATTGCAGTTACATTTGGTGATATATCATCGATCATGTCGTCATATTGTCTTGCGATGGACATTTCTAGTCTTTCTGCTTTGCTTTT
TAAGGAGTAGTCTGAAAGTCTTTTTGCGATGGACATTTCTAGTCTTTCTGCTTTGCTTTTTAAGGAGTAGTCTGAAAGTCTTTTTGCGATGGACATTTCTAGTCTT