NA ----> NA

Intron 1 GTAATTTTTT ... CGAATGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	55.73	11.1	19.9	14
A2	48.25	13.3	6	12.4
A3	23.92	23	3	7.3
A4	68.59	7.8	4	16.6
A5	61.25	3.9	1	6.1
A6	41.12	110.8	4	77.8
A7	45.38	167.4	12.9	139.9
A8	48.17	161.1	27.5	149.8
A9	38.09	151.5	4	93.3
A10	49.41	144.5	23	140.9

>TRINITY_DN110040_c0_g1_i2 from sample A1 / Example spliced isoform

GGGAGAGAACATAGTACATGTCTATTAAACATGCAATCTCAGGCAGGAAAATACACATGCGATCTCAGGCAGGAAAATACATTTGGTGGTTCCATTCCAAGTGCAGAGCAAAATCCTAACGGGAGGTTTCAATAGAAAGGTATGTTCACTGCGCACCGAAGTGAATATCAGATATGTTCACTGCGCACCGAAGTGAATAT
CAGATATGTTCACTGCGCACTCCGAGCTATGAGTTTGAAGATTTCACTGCGATAAGATTGATTGTGGCAATGTACTATTTAGTTTTCTATTTAACAAAGCATGCAGAGGCTGCGACTCACCAAATGCTCAATGGAAAATACGGTGGGGCGTAAATAAAGATGTCATCACAATATCTTTTCATGCGTTGTTATGTTAATCA
CATAGCAGAATATGGCATCTTAGCACACGCATGCACAGGATTTAAAAAGTCAAAAATTAATTATATGGCATTTTGAAATGCCTGTAAGACATTGAATTTGTGTATAATCAGTTGAGTTAGGAAGAGAAATGAATCTTTTCACGTGATCGACTGTCTCCATTAAATGAAATTTTTCATGTAGTGAAATCTTGCCTTTGGAT
ACCGTAAATAATAATTTTAACTTCTATTAATAATAATAATTTGAACTTTTATTATATTGAAAAGATATACCATGATTCTTTTTTTTTGTAAATAGAGAAATCTTGGCGGTGGCCATTAAAGGAATCTTTTCGCTTTCAAATAGAAAAATCTTGTCGGTTGCCATTAAATGAATCCTTTTCATGTAGCGAAATTTTGGCTT
TGGATAGTAATAATTTTAACTTTTATTATATTCATAAGATATACTTGAC

>TRINITY_DN110040_c0_g1_i3 from sample A1 / Example unspliced isoform:

GGGAGAGAACATAGTACATGTCTATTAAACATGCAATCTCAGGCAGGAAAATACACATGCGATCTCAGGCAGGAAAATACATTTGGTGgtaattttttatttagttctattgcttatgcttcttttttttgtagcttcagacttagttctgttgtttgtgttactttttctcccatatctcagatttattaaccgcaggt
tccaatcgaatggcagGTTCCATTCCAAGTGCAGAGCAAAATCCTAACGGGAGGTTTCAATAGAAAGGTATGTTCACTGCGCACCGAAGTGAATATCAGATATGTTCACTGCGCACCGAAGTGAATATCAGATATGTTCACTGCGCACTCCGAGCTATGAGTTTGAAGATTTCACTGCGATAAGATTGATTGTGGCAATG
TACTATTTAGTTTTCTATTTAACAAAGCATGCAGAGGCTGCGACTCACCAAATGCTCAATGGAAAATACGGTGGGGCGTAAATAAAGATGTCATCACAATATCTTTTCATGCGTTGTTATGTTAATCACATAGCAGAATATGGCATCTTAGCACACGCATGCACAGGATTTAAAAAGTCAAAAATTAATTATATGGCATT
TTGAAATGCCTGTAAGACATTGAATTTGTGTATAATCAGTTGAGTTAGGAAGAGAAATGAATCTTTTCACGTGATCGACTGTCTCCATTAAATGAAATTTTTCATGTAGTGAAATCTTGCCTTTGGATACCGTAAATAATAATTTTAACTTCTATTAATAATAATAATTTGAACTTTTATTATATTGAAAAGATATACCA
TGATTCTTTTTTTTTGTAAATAGAGAAATCTTGGCGGTGGCCATTAAAGGAATCTTTTCGCTTTCAAATAGAAAAATCTTGTCGGTTGCCATTAAATGAATCCTTTTCATGTAGCGAAATTTTGGCTTTGGATAGTAATAATTTTAACTTTTATTATATTCATAAGATATACTTGAC

Intron 2 GTAATTTTTT ... TTAACCGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	79.31	6	20	23
A2	55.84	9.5	6	12
A3	25.63	17.5	3	6
A4	92.86	1	4	13
A5	75	2	1	6
A6	48.72	39	4	37
A7	68.64	38	13	83
A8	65.38	53	28	100
A9	44.22	55.5	4	44
A10	66.06	52.5	23	102

>TRINITY_DN38007_c0_g1_i4 from sample A6 / Example spliced isoform

ACACGGCTTCTGCAAAGCACCACGTGTCTCTTCTAACCGTTATGGTGTAACTGTTTTGCTTTGTGTCGAATATAGCGTTTGCCAAGCAATATCAAGCGTGGAGGGGAGAGAACATAGTACATGTCTATTAAACATGCAATCTCAGGCAGGAAAATACACATGCGATCTCAGGCAGGAAAATACATTTGGTGGTTCCAATC
GAATGGCAGGTTCCATTCCAAGTGCAGAGCAAAATCCTAACGGGAGGTTTCAATAGAAAGGTATGTTCACTGCGCACCGAAGTGAATATCAGATATGTTCACTGCGCACCGAAGTGAATATCAGATATGTTCACTGCGCACTCCGAGCTATGAGTTTGAAGATTTCACTGCGATAAGATTGATTGTGGCAATGTACTATT
TAGTTTTCTATTTAACAAAGCATGCAGAGGCTGCGACTCACCAAATGCTCAATGGAAAATACGGTGGGGCGTAAATAAAGATGTCATCACAATATCTTTTCATGCGTTGTTATGTTAATCACATAGCAGAATATGGCATCTTAGCACACGCATGCACAGGATTTAAAAAGTCAAAAATTAATTATATGGCATTTTGAAAT
GCCTGTAAGACATTGAATTTGTGTATAATCAGTTGAGTTAGGAAGAGAAATGAATCTTTTCACGTGATCGACTGTCTCCATTAAATGAAATTTTTCATGTAGTGAAATCTTGCCTTTGGA

>TRINITY_DN38007_c0_g1_i2 from sample A6 / Example unspliced isoform:

ACACGGCTTCTGCAAAGCACCACGTGTCTCTTCTAACCGTTATGGTGTAACTGTTTTGCTTTGTGTCGAATATAGCGTTTGCCAAGCAATATCAAGCGTGGAGGGGAGAGAACATAGTACATGTCTATTAAACATGCAATCTCAGGCAGGAAAATACACATGCGATCTCAGGCAGGAAAATACATTTGGTGgtaattttt
tatttagttctattgcttatgcttcttttttttgtagcttcagacttagttctgttgtttgtgttactttttctcccatatctcagatttattaaccgcagGTTCCAATCGAATGGCAGGTTCCATTCCAAGTGCAGAGCAAAATCCTAACGGGAGGTTTCAATAGAAAGGTATGTTCACTGCGCACCGAAGTGAATATC
AGATATGTTCACTGCGCACCGAAGTGAATATCAGATATGTTCACTGCGCACTCCGAGCTATGAGTTTGAAGATTTCACTGCGATAAGATTGATTGTGGCAATGTACTATTTAGTTTTCTATTTAACAAAGCATGCAGAGGCTGCGACTCACCAAATGCTCAATGGAAAATACGGTGGGGCGTAAATAAAGATGTCATCAC
AATATCTTTTCATGCGTTGTTATGTTAATCACATAGCAGAATATGGCATCTTAGCACACGCATGCACAGGATTTAAAAAGTCAAAAATTAATTATATGGCATTTTGAAATGCCTGTAAGACATTGAATTTGTGTATAATCAGTTGAGTTAGGAAGAGAAATGAATCTTTTCACGTGATCGACTGTCTCCATTAAATGAAA
TTTTTCATGTAGTGAAATCTTGCCTTTGGA

Intron 3 GTAATTTTTT ... CGAATGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	60.87	9	20	14
A2	63.64	8	6	14
A3	37.5	15	3	9
A4	61.29	12	4	19
A5	66.67	3	1	6
A6	43.22	67	4	51
A7	51.22	160	13	168
A8	51.32	148	28	156
A9	43.69	116	4	90
A10	53.99	121	23	142

>TRINITY_DN38861_c0_g1_i4 from sample A9 / Example spliced isoform

AGGGGAGAGAACATAGTACATGTCTATTAAACATGCAATCTCAGGCAGGAAAATACACATGCGATCTCAGGCAGGAAAATACAATTGGTGGTCGAATAACATGTCTATTTAACATGCAGGAAAATACACATGCGATCTCAGGCAGGAAAATACAATTGGTGGTTCCAATCCAAGTGCAGAGCAAAATCCTAACGGGAGGT
TTCAATAGAAAGGTCTGTTTACTGTGCACCGAAGTGAATATCAGATATGTTCACTGCGCACTCCGAGCTATGAGTTTGAAGATCTTCACTGCGATAAGATTGATTGTGGCAATGTACTGTTTAGTTTTCGATTTAACAGAACCATGCAGAGGCTGCGACTCACCAAATGCTCAATGGAAAATACGGTGGGGGCGTAAATA
AAGATGTCACCACAATCTCTTTTCATGCGTTGTTAGGTTAATCACGTACCAGAAGTATGGCATCTTAGCACACGCATGCACAGGATTTAAAAAGTCAAAAATTAATTATATGGCATTTTGAAATGCCTGTAAGACATTGAATTTGTGTATAATCAGTTGTCTTAGGAAGAGAAATGAATCTTTTCAAATATTCATGTAGT
GAAATCTTGCCTCGACAGTCCCCATTAAATGAATTTTTTCATGTAATTTGTGTATAATCAGTTGAGTTAGGAAGAGAAATGAAACTTTTCAAATATTCATGTAGTCAAATCTTGCCTCGACGGTCCCC

>TRINITY_DN38861_c0_g1_i1 from sample A9 / Example unspliced isoform:

AGGGGAGAGAACATAGTACATGTCTATTAAACATGCAATCTCAGGCAGGAAAATACACATGCGATCTCAGGCAGGAAAATACAATTGGTGgtaattttttatttagttctattgtttatgcttcttttttttggtagtttcagacttagttctgttgtttgtgttactttttctcccatatctcagatttattaaccgca
ggttccaatcgaatggcagGTTCCAATCCAAGTGCAGAGCAAAATCCTAACGGGAGGTTTCAATAGAAAGGTCTGTTTACTGTGCACCGAAGTGAATATCAGATATGTTCACTGCGCACTCCGAGCTATGAGTTTGAAGATCTTCACTGCGATAAGATTGATTGTGGCAATGTACTGTTTAGTTTTCGATTTAACAGAAC
CATGCAGAGGCTGCGACTCACCAAATGCTCAATGGAAAATACGGTGGGGGCGTAAATAAAGATGTCACCACAATCTCTTTTCATGCGTTGTTAGGTTAATCACGTACCAGAAGTATGGCATCTTAGCACACGCATGCACAGGATTTAAAAAGTCAAAAATTAATTATATGGCATTTTGAAATGCCTGTAAGACATTGAAT
TTGTGTATAATCAGTTGTCTTAGGAAGAGAAATGAATCTTTTCAAATATTCATGTAGTGAAATCTTGCCTCGACAGTCCCCATTAAATGAATTTTTTCATGTAATTTGTGTATAATCAGTTGAGTTAGGAAGAGAAATGAAACTTTTCAAATATTCATGTAGTCAAATCTTGCCTCGACGGTCCCC