NA ----> NA

Intron 1 GTAATGGAAA ... TTTTCGATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	0	5
A2	66.67	2	1	7
A3	75	2	5	7
A4	100	0	0	4
A5	100	0	0	7
A6	73.33	8	9	35
A7	66.67	5	10	10
A8	55.56	6	4	11
A9	54.17	11	11	15
A10	48.15	7	4	9

>TRINITY_DN43375_c2_g2_i1 from sample A10 / Example spliced isoform

CCGAACCAAGACCTAGCTATTTCCATGCCTTACCACCTGTAAGATTGAATCTGCCCCAACACCACCTATTGCTAAGATTCCATCTGTCGCACGTGGAAACAGATGGGGAAATTTGATAGTGCGTGGCGTATGGATGGGAATGTTATATAGAATGCAAACGTGGAAACAGGTGTGGTAAATCAGGGGAAATCATCAGGGGA
AATCCAGTGATCAGATACTCCAGATGGCCTTCCTTAACATTGTTTCCGCGGTCATTCAACTTGCTCCAGGCACCAGTTTTGCAGGGTTCATGCGCTGTTTGAAATTGATGTGTTCAGATTGTACAGATGTGGATGTAGAAGGTCTAGCAATCTGTGTGAGGATAAAAAATATGGCAAAGCACCCAAAAGTTTCCTTTCTT
GTTCCATAAAAGACTCCGAAATCTTCCCACGGTATTTTTGGCCGCAGTGGGGTCCTGGGACATATCGTTTTAGGGATTTTTTGGCTGCAGTGGGGTCCTGGGACATATCGTTTTAGGGTTCTCACATAGAATGAACTGAGAATGAATTTGGGGCAGGGGTAGTAAACTCCCACCGATCTATCCTGTACCACAGTCCAACT
GACAATGGTTCCTAAATCATATGGCCATAATCTCTTTCGTGCGATGTAATGAGGTTTGTTTGGATTTCCAGAGTCTATATTTGGGTCAGGGGTAGTAAAATCCCACCGATCTACCCTGCACCACGGCCC

>TRINITY_DN43375_c2_g2_i2 from sample A10 / Example unspliced isoform:

CCGAACCAAGACCTAGCTATTTCCATGCCTTACCACCTGTAAGATTGAATCTGCCCCAACACCACCTATTGCTAAGATTCCATCTGTCGCACGTGGAAACAGATGGGGAAATTTGATAGTGCGTGGCGTATGGATGGGAATGTTATATAGAATGCAAACGTGGAAACAGGTGTGGTAAATCAGGGGAAATCATCAGGGGA
AATCCAGTGATCAGATACTCCAGATGGCCTTCCTTAACATTGTTTCCGCGGTCATTCAACTTGCTCCAGGCACCAGTTTTGCAGGCTGTTTGAAATTGATGTGTTCAGATTGTACAGATGTGGATGTAGAAGGTCTAGgtaatggaaaatacaaaacccatttaatacatattgcatcatcttattgtatactgttgatt
gtttgagatcaaacaactatgtatcagcagcaatattgcgatgctcattaaatgggttgtttgtttgctctttaccagaccttctgcgatccacatccgtactaattttttaacatcaattttttcgatagCAATCTGTGTGAGGATAAAAAATATGGCAAAGCACCCAAAAGTTTCCTTTCTTGTTCCATAAAAGACTC
CGAAATCTTCCCACGGTATTTTTGGCCGCAGTGGGGTCCTGGGACATATCGTTTTAGGGATTTTTTGGCTGCAGTGGGGTCCTGGGACATATCGTTTTAGGGTTCTCACATAGAATGAACTGAGAATGAATTTGGGGCAGGGGTAGTAAACTCCCACCGATCTATCCTGTACCACAGTCCAACTGACAATGGTTCCTAAA
TCATATGGCCATAATCTCTTTCGTGCGATGTAATGAGGTTTGTTTGAATTTCCAGAATCTATTTCATCTTTTAAGAAGAAGCTATTTCTTATCTATAATAGAGATGTGCATTATTTGTCCGT

Intron 2 GTATGTTACT ... GTTTTAACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	27.27	4	3	0
A2	50	4	7	1
A3	75	1	4	2
A4	46.67	4	7	0
A5	33.33	2	0	2
A6	22.69	46	17	10
A7	27.59	21	12	4
A8	33.33	25	11	14
A9	27.59	21	11	5
A10	17.65	14	2	4

>TRINITY_DN38169_c0_g2_i2 from sample A9 / Example spliced isoform

GTTAAACGTCTATACCTTACCCAAAAGAGTAAGACTATGGTAACTCATAAAGTTATAAGCAGATGCAGGCAATGAACACTACATAGGTGCGAAAACACCGAACCAAGACCTAGCTATTTCCATGCCTTACCACCTGTAAGATTGAATCTGCCCCAACACCACCTATTGCTAAGATTCCATCTGTCGCACGTGGAAACAGA
TGGGGAAATTTGATAGTGCGTGGCGTATGGATGGGAATGTTATATAGAATGCAAACGTGGAAACAGGTGTGGTAAATCAGGGGAAATCATCAGGGGAAATCCAGTGATCAGATACTCCAGATGGCCTTCTTTAACATTGTTTCCGTGGTCATTCAACTTGCTCCAGGCACCAGTTTTGCAGGGTTCATGCGCTGTTTGAA
ATTGATGTGTTCAGATTGTACAGATGTGGATGTAGAAGGTCTAGACCTTCTGCGATCCACATCCGTACTAATTTTTTAACATCAATTTTTTCGATAGCAATCTGTGTGAGGATAAAAAATATGGCAAAGCACCCAAAAGTTTCCTTTCTTGTTCCATAAAAGACTCCGAAATCTTCCCACGGTATTTTTGGCCGCAGTGG
GGTCCTGGGACATATCGTTTTAGGGATTTTTTGGCTGCAGTGGGGTCCTGGGACATATCGTTTTAGGGTTCTCACATAGAATGAACTGAGAATGAATTTGGGGCAGGGGTAGTAAACTCCCACCGATCTATCCTGTACCACAGTCCAACTGACAATGGTTCCTAAATCATATGGCCATAATCTCTTTCGTGCGATGTAAT
GAGGTTTGTTTGAATTTCCAGAATCTATTTCATCTTTTAAGAAGAAGCTATTTCTTATCTATAATAGAGATGTGCATTATTTGTCCGTG

>TRINITY_DN38169_c0_g2_i5 from sample A9 / Example unspliced isoform:

GTTAAACGTCTATACCTTACCCAAAAGAGTAAGACTATGGTAACTCATAAAGTTATAAGCAGATGCAGGCAATGAACACTACATAGGTGCGAAAACACCGAACCAAGACCTAGCTATTTCCATGCCTTACCACCTGTAAGATTGAATCTGCCCCAACACCACCTATTGCTAAGATTCCATCTGTCGCACGTGGAAACAGA
TGGGGAAATTTGATAGTGCGTGGCGTATGGATGGGAATGTTATATAGAATGCAAACGTGGAAACAGGTGTGGTAAATCAGGGGAAATCATCAGGGGAAATCCAGTGATCAGATACTCCAGATGGCCTTCTTTAACATTGTTTCCGTGGTCATTCAACTTGCTCCAGGCACCAGTTTTGCAGGGTTCATGCGCTGTTTGAA
ATTGATGTGTTCAGATTGTACAGATGTGGATGTAGAAGGTCTAGACCTTCTGCGATCCACATCCGTACTAATTTTTTAACATCAATTTTTTCGATAGCAATCTGTGTGAGGATAAAAAATATGGCAAAGCACCCAAAAGTTTCCTTTCTTGTTCCATAAAAGACTCCGgtatgttacttatatttccaaagtatttcaga
tgctcgaattcgttctcttgtttaaaatttgaaatatattctagaagccttcttgctttacccatgggagtctgctgatcttttttctctacacccaaatgcgaagctctccaggtatactctcacttttatgatgggtcacaagcatttctaatttattgttgcttttcgttttaacagAAATCTTCCCACGGTATTTT
TGGCCGCAGTGGGGTCCTGGGACATATCGTTTTAGGGATTTTTTGGCTGCAGTGGGGTCCTGGGACATATCGTTTTAGGGTTCTCACATAGAATGAACTGAGAATGAATTTGGGGCAGGGGTAGTAAACTCCCACCGATCTATCCTGTACCACAGTCCAACTGACAATGGTTCCTAAATCATATGGCCATAATCTCTTTC
GTGCGATGTAATGAGGTTTGTTTGAATTTCCAGAATCTATTTCATCTTTTAAGAAGAAGCTATTTCTTATCTATAATAGAGATGTGCATTATTTGTCCGTG

Intron 3 GTAATGGAAA ... TCTTTACCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	29.16	3	0.5	2
A2	27.05	10	2.5	5
A3	59.79	4.8	5	9
A4	20	6	0	3
A5	55.56	2	0	5
A6	32.14	38	9	27
A7	21.29	35.1	10	9
A8	26.03	16.9	4.9	7
A9	27.64	24.9	11	8
A10	33.01	8.1	4	4

>TRINITY_DN39557_c1_g1_i8 from sample A6 / Example spliced isoform

CAAGACCTAGCTATTTCCATGCCTTACCACCTGTAAGATTGAATCTGCCCCAACACCACCTATTGCTAAGATTCCATCTGTCGCACGTGGAAACAGATGGGGAAATTTGATAGTGCGTGGCGTATGGATGGGAATGTTATATAGAATGCAAACGTGGAAACAGGTGTGGTAAATCAGGGGAAATCATCAGGGGAAATCCA
GTGATCAGATACTCCAGATGGCCTTCTTTAACATTGTTTCCGTGGTCATTCAACTTGCTCCAGGCACCAGTTTTGCAGGGTTCATGCGCTGTTTGAAATTGATGTGTTCAGATTGTACAGATGTGGATGTAGAAGGTCTAGACCTTCTGCGATCCACATCCGTACTAATTTTTTAACATCAATTTTTTCGATAGCAATCT
GTGTGAGGATAAAAAATATGGCAAAGCACCCAAAAGTTTCCTTTCTTGTTCCATAAAAGACTCCGAAATCTTCCCACGGTATTTTTGGCCGCAGTGGGGTCCTGGGACATATCGTTTTAGGGATTTTTTGGCTGCAGTGGGGTCCTGGGACATATCGTTTTAGGGTTCTCACATAGAATGAACTGAGAATGAATTTGGGG
CAGGGGTAGTAAACTCCCACCGATCTATCCTGTACCACAGTCCAACTGACAATGGTTCCTAAATCATATGGCCATAATCTCTTTCGTGCGATGTAATGAGGTTTGTTTGAATTTCCAGAATCTATTTCATCTTTTAAGAAGAAGCTATTTCTTATCTATAATAGAGATGTGCATTATTTGTCCGTTTTTAAATGTTTTAA
CATCCATAAAGAAAGTATTTAACATGTTAAATGCCAAGTTTA

>TRINITY_DN39557_c1_g1_i1 from sample A6 / Example unspliced isoform:

CAAGACCTAGCTATTTCCATGCCTTACCACCTGTAAGATTGAATCTGCCCCAACACCACCTATTGCTAAGATTCCATCTGTCGCACGTGGAAACAGATGGGGAAATTTGATAGTGCGTGGCGTATGGATGGGAATGTTATATAGAATGCAAACGTGGAAACAGGTGTGGTAAATCAGGGGAAATCATCAGGGGAAATCCA
GTGATCAGATACTCCAGATGGCCTTCTTTAACATTGTTTCCGTGGTCATTCAACTTGCTCCAGGCACCAGTTTTGCAGGGTTCATGCGCTGTTTGAAATTGATGTGTTCAGATTGTACAGATGTGGATGTAGAAGGTCTAGgtaatggaaaatacaaaacccatttaatacatattgcatcatcttattgtatactgttg
attgtttgagatcaaacaactatgtatcagcagcaatattgcgatgctcattaaatgggttgtttgtttgctctttaccagACCTTCTGCGATCCACATCCGTACTAATTTTTTAACATCAATTTTTTCGATAGCAATCTGTGTGAGGATAAAAAATATGGCAAAGCACCCAAAAGTTTCCTTTCTTGTTCCATAAAAGA
CTCCGAAATCTTCCCACGGTATTTTTGGCCGCAGTGGGGTCCTGGGACATATCGTTTTAGGGATTTTTTGGCTGCAGTGGGGTCCTGGGACATATCGTTTTAGGGTTCTCACATAGAATGAACTGAGAATGAATTTGGGGCAGGGGTAGTAAACTCCCACCGATCTATCCTGTACCACAGTCCAACTGACAATGGTTCCT
AAATCATATGGCCATAATCTCTTTCGTGCGATGTAATGAGGTTTGTTTGGATTTCCAGAGTCTATATTTGGGTCAGGGGTAGTAAAATCCCACCGATCTACCCTGCACCACGGTCCAACTGACCATGGTTCCTTAATCATATGGCCATAATCTCTTTTGTGCTATGTCATGAGGTTTGTTTGGATTTCAAGAATCTATTT
CATCTTTTAAGAAGAAGCTATTTCTTATCTATAATAGAGATGTGCATTATTTGTCCGTTTTTAAATGTTTTAACATCCATAAAGAAAGTATTTAACATGTTAAATGCCAAGTTTA