NA ----> NA

Intron 1 GTATTTCGTT ... AGTTCCGGAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	63.01	15	15	37.9
A2	74.91	10	18.3	43.6
A3	71.18	12	17	44.3
A4	61.77	11	10	26.9
A5	68.44	9	11	28.9
A6	71	190	291	663.4
A7	73.24	69	114.3	274.4
A8	66.32	88	102.1	257.4
A9	75.22	93.7	191.6	388.6
A10	65.15	86.4	91.9	244.7

>TRINITY_DN105665_c0_g1_i2 from sample A3 / Example spliced isoform

CTCAGTTTCGCGCATCAAATTGAAGGAAGGCCAGCCCCACGTTCCAAACCTGTGCCCCATCCTCCTAAGCCAGCATCTCATGCTCCTCCTCCAGCACCAGTCCAGCAGGGTGGCGGATCTATGCTCGGTGGCATCGGTTCTACAATAGCTGATGGTATTGCTTTTGGGACTGGATCTGCCATTGCACATCGAGCTGTTGA
TGCATTTATGGGTCCCCGAACAGTGCAACATGAGGTTGTGCAAGCAGAAGCTTCAGCTGCCGCACAAACTAGTATGCCTGCAATGTCAAATCTTAGTGGAAAAGACGCCTGTGGAAATCACAGCAAGGCATTCCAAGAGTGTCTTACCAACTATGGGAGTGATATTGGCAAATGTCAGTTCTATTTAGATATGCTGAACG
AGTGCCGTAGAGGTTCTGCAACAGTGTCACTGTAAAAATTATTGATGGAGCGGAAGCTTATAGATTGGCCAACTATAAATGATCCGAGTGGGGGATTGTTGGTTACTTTTGGTGAAAGTAGATATGGAAAGTCCAATGTACTAGCGGGGCATTGATAGTAGAAAGTTAGAGGGGCATTGATAGTAAAAAGTTAGATTGCT
GTATTTTCTGTAAGTTACAGTCGATTATTGACTCCTGCTAAATTAGCGAAGTCACGGAAATATATTTTTTCTCTGGATTTTGATGGAACTTTTTCAAATCTTCGTTGCATGATGTTTTTTTTAACACCACATTTGCCTCTTTTAGATTGTTTTACGAATGGCTTAGGATACTTTAAAACCTATAGAAAAACGTGTTTCAA
GTAAATGTGAAAGTGATTTTTCACCGGAGTTCGAGGGAATTTCGTTTAATCTAAAGTACCTGGTGTTTTAATTTTCAATTACCGACATTTCTATTATGGTAGGTGAATAACTTGTTCAAGTAATGGATTTGAATATGATGACAAAGAGATTGTTTTGAAATGAACAATCTGTAATTATTATTCGGTCAACTCATTGTGAA
TTGGAAAACCT

>TRINITY_DN105665_c0_g1_i4 from sample A3 / Example unspliced isoform:

CTCAGTTTCGCGCATCAAATTGAAGgtatttcgttcttcaagcaacgctgtcttgttttccttgtttgtccgctcccgctatttcgacaatatgcctcgacgaagttccggagGAAGGCCAGCCCCACGTTCCAAACCTGTGCCCCATCCTCCTAAGCCAGGTATGTGTGTGATATGTAAAAATAGATAGACCCTGTACC
CCAATCGCATACATATGCAACGATATATTAGAAAG

Intron 2 GTTCGATGCC ... TGCAGATTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	30.77	45	0	20
A2	23.87	51	0	16
A3	22.39	52	0	15
A4	25.54	32	2	11
A5	22.26	33	0	9.5
A6	20.49	770	0	198.5
A7	20.04	319	0	80
A8	22.5	306	0	89
A9	17.92	444	0	97
A10	22.88	293	0	87

>TRINITY_DN106762_c0_g1_i2 from sample A2 / Example spliced isoform

TAAATACACAAGACTAGAATGGCTTTTGATTAAAACCGTCTCTCAGTTTCGCGCATCAAATTGAAGGTATTTCGTTCTTCAAGCAACGCTGTCTTGTTTTCCTTGTTTGTCCGCTCCCGCTATTTCGACAATATGCCTCGACGAAGTTCCGGAGGAAGGCCAGCCCCACGTTCCAAACCTGTGCCCCATCCTCCTAAGCC
AGCATCTCATGCTCCTCCTCCAGCACCAGTCCAGCAGGGTGGCGGATCTATGCTCGGTGGCATCGGTTCTACAATAGCTGATGGTATTGCTTTTGGGACTGGATCTGCCATTGCACATCGAGCTGTTGATGCATTTATGGGTCCCCGAACAGTGCAACATGAGGTTGTGCAAGCAGAAGCTTCAGCTGCCGCACAAACTA
GTATGCCTGCAATGTCAAATCTTAGTGGAAAAGACGCCTGTGGAAATCACAGCAAGGCATTCCAAGAGTGTCTTACCAACTATGGGAGTGATATTGGCAAATGTCAGTTCTATTTAGATATGCTGAACGAGTGCCGTAGAGGTTCTGCAACAGTGTCACTGTAAAAATTATTGATGGAGCGGAAGCTTATAGATTGGCCA
ACTATAAATGATCCGAGTGGGGGATTGTTGGTTACTTTTGGTGAAAGTAGATATGGAAAGTCCAATGTACTAGCGGGGCATTGATAGTAGAAAGTTAGAGGGGCATTGATAGTAAAAAGTTAGATTGCTGTATTTTCTGTAAGTTACAGTCGATTATTGACTCCTGCTAAATTAGCGAAGTCACGGAAATATATTTTTTC
TCTGGATTTTGATGGAACTTTTTCAAATCTTCGTTGCATGATGTTTTTTTTAACACCACATTTGCCTCTTTTAGATTGTTTTACGAATGGCTTAGGATACTTTAAAACCTAT

>TRINITY_DN106762_c0_g1_i3 from sample A2 / Example unspliced isoform:

ATGCCTCGACGAAGTTCCGGAGgttcgatgccacgaccttctaagaatcttattttgtatttccttttcctttttgtcctctttgtagtatctatgttgcaacatagtatttcatattaacagtctccatggggtttctgggattcgaatgtattgcctctgatgcagattagGAAGGCCAGCCCCACGTTCCAAACCTG
TGCCCCATCCTCCTAAGCCAGCATCTCATGCTCCTCCTCCAGCACCAGTCCAGCAGGGTGGCGGATCTATGCTCGGTGGCATCGGTTCTACAATAGCTGATGGTATTGCTTTTGGGACTGGATCTGCCATTGCACATCGAGCTGTTGATGCATTTATGGGTCCCCGAACAGTGCAACATGAGGTTGTGCAAGCAGAAGCT
TCAGCTGCCGCACAAACTAGTATGCCTGCAATGTCAAATCTTAGTGGAAAAGACGCCTGTGGAAATCACAGCAAGGCATTCCAAGAGTGTCTTACCAACTATGGGAGTGATATTGGCAAATGTCAGTTCTATTTAGATATGCTGAACGAGTGCCGTAGAGGTTCTGCAACAGTGTCACTGTAAAAATTATTGATGGAGCG
GAAGCTTATAGATTGGCCAACTATAAATGATCCGAGTGGGGGATTGTTGGTTACTTTTGGTGAAAGTAGATATGGAAAGTCCAATGTACTAGCGGGGCATTGATAGTAGAAAGTTAGAGGGGCATTGATAGTAAAAAGTTAGATTGCTGTATTTTCTGTAAGTTACAGTCGATTATTGACTCCTGCTAAATTAGCGAAGT
CACGGAAATATATTTTTTCTCTGGATTTTGATGGAACTTTTTCAAATCTTCGTTGCATGATGTTTTTTTTAACACCACATTTGCCTCTTTTAGATTGTTTTACGAATGGCTTAGGATACTTTAAAACCTAT

Intron 3 GTAACTCATT ... TGATGTGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	24.64	52	0	17
A2	23.81	64	1	20
A3	40.37	65	2	44
A4	21.74	54	1	15
A5	16	42	0	8
A6	27.53	837	0	318
A7	31.17	424	0	192
A8	25.66	536	0	185
A9	25.49	415	0	142
A10	27.33	242	0	91

>TRINITY_DN106762_c0_g1_i2 from sample A2 / Example spliced isoform

TAAATACACAAGACTAGAATGGCTTTTGATTAAAACCGTCTCTCAGTTTCGCGCATCAAATTGAAGGTATTTCGTTCTTCAAGCAACGCTGTCTTGTTTTCCTTGTTTGTCCGCTCCCGCTATTTCGACAATATGCCTCGACGAAGTTCCGGAGGAAGGCCAGCCCCACGTTCCAAACCTGTGCCCCATCCTCCTAAGCC
AGCATCTCATGCTCCTCCTCCAGCACCAGTCCAGCAGGGTGGCGGATCTATGCTCGGTGGCATCGGTTCTACAATAGCTGATGGTATTGCTTTTGGGACTGGATCTGCCATTGCACATCGAGCTGTTGATGCATTTATGGGTCCCCGAACAGTGCAACATGAGGTTGTGCAAGCAGAAGCTTCAGCTGCCGCACAAACTA
GTATGCCTGCAATGTCAAATCTTAGTGGAAAAGACGCCTGTGGAAATCACAGCAAGGCATTCCAAGAGTGTCTTACCAACTATGGGAGTGATATTGGCAAATGTCAGTTCTATTTAGATATGCTGAACGAGTGCCGTAGAGGTTCTGCAACAGTGTCACTGTAAAAATTATTGATGGAGCGGAAGCTTATAGATTGGCCA
ACTATAAATGATCCGAGTGGGGGATTGTTGGTTACTTTTGGTGAAAGTAGATATGGAAAGTCCAATGTACTAGCGGGGCATTGATAGTAGAAAGTTAGAGGGGCATTGATAGTAAAAAGTTAGATTGCTGTATTTTCTGTAAGTTACAGTCGATTATTGACTCCTGCTAAATTAGCGAAGTCACGGAAATATATTTTTTC
TCTGGATTTTGATGGAACTTTTTCAAATCTTCGTTGCATGATGTTTTTTTTAACACCACATTTGCCTCTTTTAGATTGTTTTACGAATGGCTTAGGATACTTTAAAACCTAT

>TRINITY_DN106762_c0_g1_i1 from sample A2 / Example unspliced isoform:

GTGCCGTAGAGGTTCTGCAACAGgtaactcattagccatagattttgtattttaaggaaactaagctttctttgggcctgattaattttctggtatctaatagctttccggttcgtttgatgtgtagTGTCACTGTAAAAATTATTGATGGAGCGGAAGCTTATAGATTGGCCAACTATAAATGATCCGAGTGGGGGATT
GTTGGTTACTTTTGGTGAAAGTAGATATGGAAAGTCCAATGTACTAGCGGGGCATTGATAGTAGAAAGTTAGAGGGGCATTGATAGTAAAAAGTTAGATTGCTGTATTTTCTGTAAGTTACAGTCGATTATTGACTCCTGCTAAATTAGCGAAGTCACGGAAATATATTTTTTCTCTGGATTTTGATGGAACTTTTTCAA
ATCTTCGTTGCATGATGTTTTTTTTAACACCACATTTGCCTCTTTTAGATTGTTTTACGAATGGCTTAGGATACTTTAAAACCTAT