NA ----> NA

Intron 1 GTATTAAGTT ... AACTTTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	29.63	19	9.3	8
A2	11.76	45	12.7	6
A3	7.69	36	13.3	3
A4	10.26	35	10.7	4
A5	11.11	24	6	3
A6	0	33	6.7	0
A7	10.53	51	19.3	6
A8	10.71	25	9.3	3
A9	10.53	17	8	2
A10	5	38	8.7	2

>TRINITY_DN127089_c0_g1_i4 from sample A1 / Example spliced isoform

ACAGGAGTAGTATCAGTCTAGCGCCGAACCAAAGAAACCTTAATGGAAGACCGTCGAACAGCAGAAAACCGGCCAAATTGCGAGGAATGTGGAAAAAGCCCCTGGAAATACAAGTGTCCGGGCTGTGGTTTGCGTTCATGTGGACTGCCATGCGTGAAGGCTCACAAAGAGCGCACTCAATGCACAGGCAAGCGAGACCG
GGCTCAGTTTGTGCCTATCTCCCAGTTCGATGACAATTGGCTCGTATCAGATTACAACCTGTTGGAGGAGGCTTTGAGAATAACCGAAGCTGCCAAACGGAGTCGAGCTCCTTTAGGTGACATCAGGCGTTTTCAGAGCAAACCCAGGAAAGCATTTCATAACCAGGCCAGAAATCGCAGAACAGATCTTTTGTTTCTTC
CAAAGGGGATGTCCAAGAACGAGACCAATAGGTCTTATTATAATAGATGGCGGAAATGCATTTACTGGACAGTTGAGTGGCAATTTCATTCAACAGATGTGATCTTCATTGACCATGGGGTTGATGAACATGTGAGCCTACAGAGTATATTGGAAAAGCATCTGACAATTGGTCCTGGAAATCCAGTTTCACGTCATAAA
TTAAGGCATTTTTGTAAAGAATCTACCGATAATTTGAAGCTTTTTGTCAAGAAAGAATATACAAAGGGTAACAAAAATTTATATTTTGAGTTGAATATTACAGAACCACTGCGTTCTCAACTTGCAGGTAAGATTATTATAGAGTATCCTGTGATTCATGTTGTTCTTCCTGCACATTCAAAGCAGTTTGAAGTTTTTAA
ACGTCTGGATCAAGTTCCAGAGAAAGTTGTAAAATCTTCAACTGTTGATGAGATGGAAGATCAAAAACTTGATCTTGTTCATCTAGAGTGTGGTGTTCCCTTCAGGGAAGAAGAAATTGAGGAAGG

>TRINITY_DN127089_c0_g1_i2 from sample A1 / Example unspliced isoform:

CGGAAATGCATTTACTGGACAGTTGAGTGGCAATTTCATTCAACAGATGTGATCTTCATTGACCATGGGGTTGATGAACATGTGAGCCTACAGAGTATATTGGAAAAGCATCTGACAATTGGTCCTGGAAATCCAGTTTCACGTCATAAATTAAGGCATTTTTGTAAAGAATCTACCGATAATTTGAAGCTTTTTGTCAA
GAAAGAATATACAAAGgtattaagtttatgtttttatttattgaagcttcttagaggtaaatgaggatcaacgtattttcatgacacggggctttctaactttgcagGGTAACAAAAATTTATATTTTGAGTTGAATATTACAGAACCACTGCGTTCTCAACTTGCAGGTAAGATTATTATAGAGTATCCTGTGATTCAT
GTTGTTCTTCCTGCACATTCAAAGCAGTTTGAAGTTTTTAAACGTCTGGATCAAGTTCCAGAGAAAGTTGTAAAATCTTCAACTGTTGATGAGATGGAAGATCAAAAACTTGATCTTGTTCATCTAGAGTGTGGTGTTCCCTTCAGGGAAGAAGAAATTGAGGAAGG

Intron 2 GTCTCATTCC ... TTATTATCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	25	12	6	2
A2	26.83	30	10	12
A3	26.21	38	13	14
A4	25.64	29	13	7
A5	39.39	10	8	5
A6	15.56	19	4	3
A7	18.97	47	11	11
A8	21.95	16	5	4
A9	18.52	22	4	6
A10	28	54	17	25

>TRINITY_DN116312_c2_g1_i6 from sample A3 / Example spliced isoform

CACAGGAGTAGTATCAGTCTAGCGCCGAACCAAAGAAACCTTAATGGAAGACCGTCGAACAGCAGAAAACCGGCCAAATTGCGAGGAATGTGGAAAAAGCCCCTGGAAATACAAGTGTCCGGGCTGTGGTTTGCGTTCATGTGGACTGCCATGCGTGAAGGCTCACAAAGAGCGCACTCAATGCACAGGCAAGCGAGACC
GGGCTCAGTTTGTGCCTATCTCCCAGTTCGATGACAATTGGCTCGTATCAGATTACAACCTGTTGGAGGAGGCTTTGAGAATAACCGAAGCTGCCAAACGGAGTCGGGCTCCTTTAGGTGACATCAGGCGTTTTCAGAGCAAACCCAGGAAAGCATTTCATAACCAGGCCAGAAATCGCAGAACAGATCTTTTGTTTCTT
CCAAAGGGGATGTCCAAGAACGAGACCAATAGGTCTTATTATAATAGATGGCGGAAATGCATTTACTGGACAGTTGAGTGGCAATTTCATTCAACAGATGTGATCTTCATTGACCATGGGGTTGATGAACATGTGAGCCTACAGAGTATATTGGAAAAGCATCTGACAATTGGTCCTGGAAATCCAGTTTCACGTCATAA
ATTAAGGCATTTTTGTAAAGAATCTACCGATAATTTGAAGCTTTTTGTCAAGAAAGAATATACAAAGGGTAACAAAAATTTATATTTTGAGTTGAATATTACAGAACCACTGCGTTCTCAACTTGCAGGTAAGATTATTATAGAGTATCCTGTGATTCATGTTGTTCTTCCTGCACATTCAAAGCAGTTTGAAGTTTTTA
AACATCTGGATCAAGTTCCAGAGAAAGTTGTAAAATCTTCAACTGTTGATGAGATGGAAGATCAAAAACTTGATCTTGTTCATCTAGAGTGTGGTGTTCCCTTCAGGGAAGAAGAAATTGAGGAAGGAGAGTTGGAAATTTTTAGAGATCTGGATCCCGTTCCAGAGAAAGTTGGAAAACCTTCAACTGTTGACAAAATG
GAACACCAAATTCCTGATGACCTTGTACATCGAGATAATCTTTCTTTCAGGGAGGAGAACGTTGAGGAAGGAGAGTTCGAAGTTTTTAGAGATATCGATTCAGTTCTAGAGGAACTTGTAAAACCTTCAACTGTTGACAAAATGGAACACCAAATTCCTGATGACCTTGTACATCGAGATAATATTTCCTTCAGGGAGGA
GAATGTTGAGGAAGGAGAGTTCGAAGTTTTTAGAGATATCGATTCAGTTCTAGAGGAACTTGTAAAACCTTCAACTGTTGACAAAATCAAACACCAAAATCCTGATGATCTTGTATATCAAGAGGGTGTTTCCTTCAGGGAAGAAGACATAGAGGAAGGAAAGTTTGAAGATTTTAGAGATCTTGATCCAGTTCCAGAAC
AAGTTCTAAAACCTCAAACTGCTGACAAAATGGAGGACCAAAATCTTGATGATCTTGTGCATCAAGAAGGTGTTCCCTTTAGGGAAGAAGAAATTGAGGAACCAGATTTTGAAATCTTTAGAGATCTCTATCCAGGTTCAGAGAAAATTGTAAAACCTGCTACTATTGATGAATTGGAAGGCCAAAATCTTGATGATCTT
GTACATCTAGAGAGTGCCCCCTTCGGGGAAGAGGAAATTGAGGAAGGAGAGTTTGTTTCTAATTGGGATTTTGATGAAGATTACATCTGCAGATAGATGTGAATCTATGGATGCAGTGAAGCTTAGATAGATCTAATGTTTTCTTGGTCTACAGGTAGTGATCAAATGATTGGATTCCCAATTGAAAGTTCGACAGCCAT
ATCTACAGATGTGTAAATGCAATTTAGAAGTATTTTCCTCCACAATCAAAGGCTTGTATTTTTATCAATGTAGAACAGCAATTTTGAGAACTAATTACAGTGCAGTGCCTTCATTCAAATTTGACTTTACAAGCGTGGATCCTTCTTAATTTGGATTTAATCATGTCCGATGGGTAAGGGTGCAAAAATAGAGGTTTGCA
CCTTGAGTTATTTGATCTTGTTCAGTTATTAAAAGAGATATGGTTTCAACGGAAGGGTGCAAAAACATTGAGGTTGCACTTTGAGTCATTTGATCTCTTTAAATGCTTAATTGAGATCTGGGTTTGTACCTTGGTTATTTGTTCTCTTTCAATGCTTAACGAAGATCCATGTTCAAGGGAAGGGTGCAAAAGCATTGAGG
TTCTTGCCTTGAGTTTTTTAAATGCTTTAATAAATCTGATGTCAAAGAAGGGTGCACATGATCCCTCCAATGTTAATAGATTTGGGGTTGAAATTGATATATGCTATAATGTTTAATGTATGTTACATATATGCAGTCAAGTATGTTACATATATGCAGCAAAGATGAAAAGCAAATGAAGCAAAATCAAGAAGAAATTA
GTATATCATCAGTGGTAAGACTTATAGTTCAGGATTAAGAATGCAT

>TRINITY_DN116312_c2_g1_i8 from sample A3 / Example unspliced isoform:

CACAGGAGTAGTATCAGTCTAGCGCCGAACCAAAGAAACCTTAATGGAAGACCGTCGAACAGCAGAAAACCGGCCAAATTGCGAGGAATGTGGAAAAAGCCCCTGGAAATACAAGTGTCCGGGCTGTGGTTTGCGTTCATGTGGACTGCCATGCGTGAAGGCTCACAAAGAGCGCACTCAATGCACAGGCAAGCGAGACC
GGGCTCAGTTTGTGCCTATCTCCCAGTTCGATGACAATTGGCTCGTATCAGgtctcattcccgaatcacattatcgttagtataatattatatctcagttcacccataaggatcaaactgtgatttaaacagggggtaatgggtaatttttgtttacttctattttattatcagATTACAACCTGTTGGAGGAGGCTTTG
AGAATAACCGAAGCTGCCAAACGGAGTCGGGCTCCTTTAGGTGACATCAGGCGTTTTCAGAGCAAACCCAGGAAAGCATTTCATAACCAGGCCAGAAATCGCAGAACAGATCTTTTGTTTCTTCCAAAGGGGATGTCCAAGAACGAGACCAATAGGTCTTATTATAATAGATGGTCAGTAAGTAAAGAGGTCTTTTCCTC
GTTATTTAAGTGTCTTGTATTCTGCTACTGTTTTGGGGTTTTTCAACTGTGTGTCTGTGATTGGATTTGTTTGATTGTGCTACATGTATTTAGGTTTATGTGTAAAACGTATTTTCC