NA ----> NA

Intron 1 GTATTGAGTT ... CACAAAACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	1	2
A2	-1	0	0	0
A3	50	2	0	2
A4	50	2	0	2
A5	-1	0	0	0
A6	50	4	1	4
A7	50	8	0	8
A8	46.67	8	0	7
A9	52.78	17	0	19
A10	48.15	14	2	13

>TRINITY_DN45348_c1_g1_i8 from sample A10 / Example spliced isoform

GTGGCCCGGTGGGTGTGGTGGCCTGCCTGCCGCATATCAAAACCAGATGCCGCCAACGTGGGTGGTTTCTCCCAACCGAGCTCCAGCTAGTCGTTTTGATCGTATTTCTATTCCAAGAAACAAGAAACCAAATGAAATAAATGTATGCATCTTGGTAAAACGAAGTAATTTTTAGCAGAGATTTATTGTATGTTTGACGT
CTAGATACATGGATTCCGAGGTTATTGTAGCAGATTTGGTGTGTGATCAGGAAGAGTCCTCTGGCGATGATGGCGGTGGAAGCATCGGCCGCGGCTCTCAGAAATCATGTACAGACAAGAAGCAAGCAGTAATTCCCCCAAGTGGGAGAGCGACTGGAATTTCAGTATCGAAGATGGAGTGCCATTCAACAAGAACAGCA
GCACATCATGTGAAAGAGGAGATTTAATGAAAGACAAAGCAGGCAAAGGGCAAAAGATTTGGAGGAAGAAAGGAAGGGTATTGTATCGTAGACCGCCCCCTGTGCTGTTTTCTCCATGAAAGATTCAAGCGCCGCCAGTCTTCTATTTCTGTAAGGCTACATGCTTTGATTTGAATCTGATTTAAATGGTCATTTTTTTT
TCTCCTTCAAATTGGAATGGGAAGAATTACCATTTAACTTCAAATACTGTAATTGAAAGCAATGGAAAGATGGGTTTAGATTCGTAAGGGAAACCCTTAGGTTGGCTGTATGTATGTATGGTTGTAGCAAATTTATCAGTCAATGAAATTTCTTCTGCTCTTGCTTTTAAAACAAGGGTCAATGAAGTTGTTCAAAATAA
ATCATTGTTACAGGAGTTAACTCCAAAAAGAAGAATTCATATATTGTTTCATATCAAGTAGAGTATATATATTTATAAAACAGCAAAAGTCACTATTCAATTCATATTTTCAGCTTAC

>TRINITY_DN45348_c1_g1_i2 from sample A10 / Example unspliced isoform:

GGCCTGCCTGCCGCATCTCAAAACCAGATGCCGCCAACGgtattgagtttgcagtttcgatttcgaatcttctaaatatttatttttattttttgctgtcatcttacgcttctgtatttctaccggtttcgaaccacaaaacagTGGGTGGTTTCTCCCAACCGAGCTCCAGCTAGTCGTTTTGATCGTATTTCTATTCC
AAGAAACAAGAAACCAAATGAAATAAATGTATGCATCTTGGTAAAACGAAGTAATTTTTAGCAGAGATTTATTGTATGTTTGACGTCTAGATACATGGATTCCGAGGTTATTGTAGCAGATTTGGTGTGTGATCAGGAAGAGTCCTCTGGCGATGATGGCGGTGGAAGCATCGGCCGCGGCTCTCAGAAATCATGTACAG
ACAAGAAGCAAGCAGTAATTCCCCCAAGTGTTAGTGATTTGTGTTCTACATGTGCGCTGCCCCAGTGGGAGAGCGACTGGAATTTCAGTATCGAAGATGGAGTGCCATTCAACAAGAACAGCAGCACATCATGTGAAAGAGGAGATTTAATGAAAGACAAAGCAGGCAAAGGGCAAAAGATTTGGAGGAAGAAAGGAAGG
GTATTGTATCGTAGACCGCCCCCTGTGCTGTTTTCTCCATGAAAGATTCAAGCGCCGCCAGTCTTCTATTTCTGTAAGGCTACATGCTTTGATTTGAATCTGATTTAAATGGTCATTTTTTTTTCTCCTTCAAATTGGAATGGGAAGAATTACCATTTAACTTCAAATACTGTAATTGAAAGCAATGGAAAGATGGGTTT
AGATTCGTAAGGGAAACCCTTAGGTTGGCTGTATGTATGTATGGTTGTAGCAAATTTATCAGTCAATGAAATTTCTTCTGCTCTTGCTTTTAAAACAAGGGTCAATGAAGTTGTTCAAAATAAATCATTGTTACAGGAGTTAACTCCAAAAAGAAGAATTCATATATTGTTTCATATCAAGTAGAGTATATATATTTATA
AAACAGCAAAAGTCACTATTCAATTCATATTTTCAGCTTAC

Intron 2 GTCTCGGTCT ... GCTGCCCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	52.07	29	13	50
A2	55.17	26	21	43
A3	45.08	53	19	68
A4	51.28	19	13	27
A5	49.51	26	20	31
A6	45.61	260	115	321
A7	44.99	365	165	432
A8	46.64	298	159	362
A9	44.51	351	164	399
A10	44.04	317	116	383

>TRINITY_DN100847_c0_g1_i2 from sample A5 / Example spliced isoform

GTTTCTCCCAACCGAGCTCCAGCTAGTCGTTTTGATCGTATTTCTATTCCAAGAAACAAGAAACCAAATGAAATAAATGTATGCATCTTGGTAAAACGAAGTAATTTTTAGCAGAGATTTATTGTATGTTTGACGTCTAGATACATGGATTCCGAGGTTATTGTAGCAGATTTGGTGTGTGATCAGGAAGAGTCCTCTGG
CGATGATGGCGGTGGAAGCATCGGCCGCGGCTCTCAGAAATCATGTACAGACAAGAAGCAAGCAGTAATTCCCCCAAGTGGGAGAGCGACTGGAATTTCAGTATCGAAGATGGAGTGCCATTCAACAAGAACAGCAGCACATCATGTGAAAGAGGAGATTTAATGAAAGACAAAGCAGGCAAAGGGCAAAAGATTTGGAG
GAAGAAAGGAAGGGTATTGTATCGTAGACCGCCCCCTGTGCTGTTTTCTCCATGAAAGATTCAAGCGCCGCCAGTCTTCTATTTCT

>TRINITY_DN100847_c0_g1_i1 from sample A5 / Example unspliced isoform:

GTTTCTCCCAACCGAGCTCCAGCTAGTCGTTTTGATCGTATTTCTATTCCAAGAAACAAGAAACCAAATGAAATAAATGTATGCATCTTGGTAAAACGAAGTAATTTTTAGCAGAGATTTATTGTATGTTTGACGTCTAGATACATGGATTCCGAGGTTATTGTAGCAGATTTGGTGTGTGATCAGGAAGAGTCCTCTGG
CGATGATGGCGGTGGAAGCATCGGCCGCGGCTCTCAGAAATCATGTACAGACAAGAAGCAAGCAGTAATTCCCCCAAGgtctcggtctgccgcaagaacagcagatttatttgataagaatagcttacagcgtatatctgtgtctgtatatttgatttctagggttactttcagatattgatcatggaattgattgaatt
ttgattgcagtgttagtgatttgtgttctacatgtgcgctgccccagTGGGAGAGCGACTGGAATTTCAGTATCGAAGATGGAGTGCCATTCAACAAGAACAGCAGCACATCATGTGAAAGAGGAGATTTAATGAAAGACAAAGCAGGCAAAGGGCAAAAGATTTGGAGGAAGAAAGGAAGGGTATTGTATCGTAGACCG
CCCCCTGTGCTGTTTTCTCCATGAAAGATTCAAGCGCCGCCAGTCTTCTATTTCT

Intron 3 GTCTCGGTCT ... TTGATTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	17.6	103	13	31
A2	15.26	148	21	32.3
A3	15.48	147	19	34.9
A4	19.23	63	13	17
A5	22.54	67	20	19
A6	14.24	866	115	172.6
A7	13.87	1187	165	217.3
A8	15.27	1054	159	221
A9	13.87	1161	164	209.9
A10	12.44	1073	116	189

>TRINITY_DN115921_c0_g1_i2 from sample A1 / Example spliced isoform

TCAAAACCAGATGCCGCCAACGGTATTGAGTTTGCAGTTTCGATTTCGAATCTTCTAAATATTTATTTTTATTTTTTGCTGTCATCTTACGCTTCTGTATTTCTACCGGTTTCGAACCACAAAACAGTGGGTGGTTTCTCCCAACCGAGCTCCAGCTAGTCGTTTTGATCGTATTTCTATTCCAAGAAACAAGAAACCAA
ATGAAATAAATGTATGCATCTTGGTAAAACGAAGTAATTTTTAGCAGAGATTTATTGTATGTTTGACGTCTAGATACATGGATTCCGAGGTTATTGTAGCAGATTTGGTGTGTGATCAGGAAGAGTCCTCTGGCGATGATGGCGGTGGAAGCATCGGCCGCGGCTCTCAGAAATCATGTACAGACAAGAAGCAAGCAGTA
ATTCCCCCAAGTGTTAGTGATTTGTGTTCTACATGCGCGCTGCCCCAGTGGGAGAGCGACTGGAATTTCAGTATCGAAGATGGAGTGCCATTCAACAAGAACAGCAGCACATCATGTGAAAGAGGAGATTTAATGAAAGACAAAGCAGGCAAAGGGCAAAAGATTTGGAGGAAGAAAGGAAGGGTATTGTATCGTAGACC
GCCCCCTGTGCTGTTTTCTCCATGAAAGATTCAAGCGCCGCCAGTCTTCTATTTCTTGCTAGTGTTTTGTGTTCTACATGCGCGCTGCCCCGGTGGGAGAGCGAGTGGAAGTTCAGTATAGAAGATGGTGTGGCTATCAACAGCAGCAACAACAACAACAACTCATGGAAAACAGGAGATGTGAAGAAAGACAAAGCAGG
AAAAGGGCAGAAGATGTGGAGGGGTATGGGAAGGGTATTCTATCATAGGCAGCCCCGTGTTGTGCTGCTTTCTCCTTGAAAGATTCAAGTGCCCCCAGTCTTTTTTTTTTTTTTCAATATGGCTAAATCTAACTTATACAGAAGCGTCTGTGTTAGATTGGATTGGCTATTTTTTTATGGGTTAAGTTCTCAAGGGACAG
CCTTAGTTTGACTGTATGTATTGTAGCAAATTTATGGGTTTCTCCTTATATGGTTGCAAAGTTATTCAAATTAAATCAATTTCAGAGAAATTCAGC

>TRINITY_DN115921_c0_g1_i1 from sample A1 / Example unspliced isoform:

TCAAAACCAGATGCCGCCAACGGTATTGAGTTTGCAGTTTCGATTTCGAATCTTCTAAATATTTATTTTTATTTTTTGCTGTCATCTTACGCTTCTGTATTTCTACCGGTTTCGAACCACAAAACAGTGGGTGGTTTCTCCCAACCGAGCTCCAGCTAGTCGTTTTGATCGTATTTCTATTCCAAGAAACAAGAAACCAA
ATGAAATAAATGTATGCATCTTGGTAAAACGAAGTAATTTTTAGCAGAGATTTATTGTATGTTTGACGTCTAGATACATGGATTCCGAGGTTATTGTAGCAGATTTGGTGTGTGATCAGGAAGAGTCCTCTGGCGATGATGGCGGTGGAAGCATCGGCCGCGGCTCTCAGAAATCATGTACAGACAAGAAGCAAGCAGTA
ATTCCCCCAAGgtctcggtctgccgcaagaacagcagatttatttgataagaatagcttacagcgtatatctgtgtctgtatatttgatttctagggttactttcagatattgatcatggaattgattgaattttgattgcagTGTTAGTGATTTGTGTTCTACATGCGCGCTGCCCCAGTGGGAGAGCGACTGGAATTT
CAGTATCGAAGATGGAGTGCCATTCAACAAGAACAGCAGCACATCATGTGAAAGAGGAGATTTAATGAAAGACAAAGCAGGCAAAGGGCAAAAGATTTGGAGGAAGAAAGGAAGGGTATTGTATCGTAGACCGCCCCCTGTGCTGTTTTCTCCATGAAAGATTCAAGCGCCGCCAGTCTTCTATTTCTGTAAGGCTACAT
GCTTTGATTTGAATCTGATTTAAATGGTCATTTTTTTTTCTCCTTCAAATTGGAATGGGAAGAATTACCATTTAACTTCAAATACTGTAATTGAAAGCAATGGAAAGATGGGTTTAGATTCGTAAGGGAAACCCTTAGGTTGGCTGTATGTATGTATGGTTGTAGCAAATTTATCAGTCAATGAAATTTCTTCTGCTCTT
GCTTTTAAAACAAGGGTCAATGAAGTTGTTCAAAATAAATCATTGTTACAGGAGTTAACTCCAAAAAGAAGAATTCATATATTGTTTCATATCAAGTAGAGTATATATATTTATAAAACAGCAAAAGCCAC