NA ----> NA

Intron 1 GTACATTACC ... TGAATTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	33.33	4	4	0
A2	-1	0	0	0
A3	0	1	0	0
A4	33.33	1	1	0
A5	-1	0	0	0
A6	28.57	10	4	4
A7	33.33	16	4	12
A8	40.98	18	8	17
A9	51.72	7	3	12
A10	41.94	9	9	4

>TRINITY_DN45659_c5_g3_i6 from sample A8 / Example spliced isoform

TAAAAGGAGGAGAAGAAGTGAAGAGAAGGGCTTTTTGTCTTTTGGCATTGGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCCACCTTCAGTTACACTATGGGAGCTGTCAAGGTC
ATGGTAGCTCCTAGGTCATCTAACCAGGCTGACGAAGAAGTCGCTTAGAAATTTAAAAGAATAGGATGGGCACCATTCTTTAACCTTTTTAGTGCACATAACACAGAGGTCACCAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTTGGTAATTTGCATTTTCCCCTCACGGAAGACTTCATTGTAGAAGC
TACACGCTTGCCTCAAACCGGCGAGTGCTGGTTCAAAGGAGGAAACACGAGCAAGAAAAAGTGGAAATCTTTCATACTATCAATTCCTGTAGATCTTGAAACTAAGTATGGTTTTCTTGCGAGGTTTCTCAAGCCACAATGGAGGCCCTTACTTACCATTATAATCAGGTGGTGTTCCAGGATTGATAATTTTGTTGGCT
TATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCA
AGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCA
AGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTAC

>TRINITY_DN45659_c5_g3_i8 from sample A8 / Example unspliced isoform:

TAAAAGGAGGAGAAGAAGTGAAGAGAAGGGCTTTTTGTCTTTTGGCATTGGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCCACCTTCAGTTACACTATGGGAGCTGTCAAGGTC
ATGGTAGCTCCTAGGTCATCTAACCAGGCTGACGAAGAAGTCGCTTAGAAATTTAAAAGAATAGGATGGGCACCATTCTTTAACCTTTTTAGTGCACATAACACAGAGGTCACCAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTTGGTAATTTGCATTTTCCCCTCACGGAAGACTTCATTGTAGAAGC
TACACGCTTGCCTCAAACCGGCGAGTGCTGGTTCAAAGGAGGAAACACGAGCAAGAAAAAGTGGAAATCTTTCATACTATCAATTCCTGTAGATCTTGAAACTAAGTATGGTTTTCTTGCGAGGTTTCTCAAGCCACAATGGAGGCCCTTACTTACCATTATAATCAGgtacattaccttagatgggcggttttctctcg
tacatttataccatttgcgattgttgatggtttttgaaggcttccctataaatttatcatttttctttttagcagcctcaagaggatggcctctactaagaaaaataccactggaaatctagatagaagcatttttcatcccgaccttctgactattttgatccaatatcgtttaatcttagagggaaaaacttgggaat
aattcttgatagaaaataactttggggaaaatcaatttcggtcaaatcctctcctgaaaacacgcccgaagagaaggagacctaatgccatcaaccctaacccagaagctgctcctgcttcgatagataatgagataggttctgtaaaccctacccgagaatatgaagaaggtcctgaattaaagaaggacgagactccc
ttgtttttagggactccaatagatccataaccttcaggtatacattataagaagtttgagaaaaaggagagaagttctacggattcgaaagaaaatcctgggggccatcttaggtctgtgcgtaagcgaaaatatctgaaacttgctcccactgtaactaatttaggaatgagacgagtcactaggagcatggttactac
ctctgttcctagaacgtttgaacaattcagtgaacctcctattttggagattagtgagtcaaatgatcaacgctctgtttaccagtcatatcatgaaacttctgaccaagagcacagcatagaattcttcaacttaacctcctctcccgaagctatctcatggggacattcttcgttacccactcatcctgaataagaaa
tggaaaagaaaatatccccaattacttatcaaccttctgacaataccagagaaactatgaagaaatatgtcagacggtcttttgaacaaagaatcgctcgcgcagaggacaagcttaagagtgccgaatccgacaatcttatgttaagagaggaaacccagaaattaagaaatgaactgctttcgtgggtcgatcgttgg
cagaatatgaaattaaagaaagacaaacatagagttgttaagagaacacttatcgccagcaatgagaggttaatcaagcaagaaggtttccataattctaagatcctttgtttgaaggccaaattggtagaagccgggaaagattctcacatccaagtgtcttttgatcccacacgtatatcctaatcgacagtctatgt
gactaattttgattgaattttgaattacagGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTT
GTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACAT
TAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCAT
GAATATATATTATATGACTAC

Intron 2 GCGAGTGCTG ... TTATAATCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	0	4
A2	-1	0	0	0
A3	100	0	2	1
A4	100	0	2	1
A5	100	0	1	0
A6	71.43	2	0	10
A7	62.79	8	11	16
A8	70	6	10	18
A9	61.29	6	12	7
A10	76.47	4	17	9

>TRINITY_DN45659_c5_g3_i4 from sample A8 / Example spliced isoform

CACTCTTTAACCTTTTCAGTGCACATAACACAGAGGTCACGAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTCCGGTAATTTGCATTTTCCCCTCGCAGAAGACTTCATTGTAGAAGCTACACGCTTGCCTCAAACCGGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTT
CTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACT
CTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCT
AGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTAC

>TRINITY_DN45659_c5_g3_i6 from sample A8 / Example unspliced isoform:

TAAAAGGAGGAGAAGAAGTGAAGAGAAGGGCTTTTTGTCTTTTGGCATTGGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCCACCTTCAGTTACACTATGGGAGCTGTCAAGGTC
ATGGTAGCTCCTAGGTCATCTAACCAGGCTGACGAAGAAGTCGCTTAGAAATTTAAAAGAATAGGATGGGCACCATTCTTTAACCTTTTTAGTGCACATAACACAGAGGTCACCAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTTGGTAATTTGCATTTTCCCCTCACGGAAGACTTCATTGTAGAAGC
TACACGCTTGCCTCAAACCGgcgagtgctggttcaaaggaggaaacacgagcaagaaaaagtggaaatctttcatactatcaattcctgtagatcttgaaactaagtatggttttcttgcgaggtttctcaagccacaatggaggcccttacttaccattataatcagGTGGTGTTCCAGGATTGATAATTTTGTTGGCT
TATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCA
AGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCA
AGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTAC

Intron 3 GTACATTACC ... TGAATTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	33.33	4	4	0
A2	-1	0	0	0
A3	0	1	0	0
A4	33.33	1	1	0
A5	-1	0	0	0
A6	28.57	10	4	4
A7	33.33	16	4	12
A8	40.98	18	8	17
A9	51.72	7	3	12
A10	41.94	9	9	4

>TRINITY_DN43017_c3_g4_i1 from sample A7 / Example spliced isoform

AAAAAATTAAGAAATTGGGAGGAGAAGGAGATAAAAGGGGGAGAAGTAGTGAAGAGAGGGGTCTTTTTGTCTTTGGTCATCTTGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCC
ACCTTCAGTTACACTATGGGAGCTGTCAAGGTCATGGTAGCTCCTAGGTCATCTAACCAGGCTGACGAAGAAGTCGCTTAGAAATTTAAAAGAATAGGATGGGCACCATTCTTTAACCTTTTTAGTGCACATAACACAGAGGTCACCAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTTGGTAATTTGCA
TTTTCCCCTCACGGAAGACTTCATTGTAGAAGCTACACGCTTGCCTCAAACCGGCGAGTGCTGGTTCAAAGGAGGAAACACGAGCAAGAAAAAGTGGAAATCTTTCATACTATCAATTCCTGTAGATCTTGAAACTAAGTATGGTTTTCTTGCGAGGTTTCTCAAGCCACAATGGAGGCCCTTACTTACCATTATAATCA
GGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCA
CCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAA
AATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTACTTATAGTT
TCC

>TRINITY_DN43017_c3_g4_i4 from sample A7 / Example unspliced isoform:

AAAAAATTAAGAAATTGGGAGGAGAAGGAGATAAAAGGGGGAGAAGTAGTGAAGAGAGGGGTCTTTTTGTCTTTGGTCATCTTGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCC
ACCTTCAGTTACACTATGGGAGCTGTCAAGGTCATGGTAGCTCCTAGGTCATCTAACCAGGCTGACGAAGAAGTCGCTTAGAAATTTAAAAGAATAGGATGGGCACCATTCTTTAACCTTTTTAGTGCACATAACACAGAGGTCACCAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTTGGTAATTTGCA
TTTTCCCCTCACGGAAGACTTCATTGTAGAAGCTACACGCTTGCCTCAAACCGGCGAGTGCTGGTTCAAAGGAGGAAACACGAGCAAGAAAAAGTGGAAATCTTTCATACTATCAATTCCTGTAGATCTTGAAACTAAGTATGGTTTTCTTGCGAGGTTTCTCAAGCCACAATGGAGGCCCTTACTTACCATTATAATCA
Ggtacattaccttagatgggcggttttctctcgtacatttataccatttgcgattgttgatggtttttgaaggcttccctataaatttatcatttttctttttagcagcctcaagaggatggcctctactaagaaaaataccactggaaatctagatagaagcatttttcatcccgaccttctgactattttgatccaat
atcgtttaatcatagagggaaaacttgggaataattcttgatagaaaataactttggggaaaatcaatttcggtcaaatcctctcctgaaaacacgcccgaagagaaggagacctaatgccatcaaccctaacccagaagctgctcctgcttcgatagataatgagataggttctgtaaaccctacccgagaatatgaag
aaggtcctgaattaaagaaggacgagactcccttgtttttagggactccaatagatccataaccttcaggtatacattataagaagtttgagaaaaaggagagaagttctacggattcgaaagaaaatcctgggggccatcttaggtctgtgcgtaagcgaaaatatctgaaacttgctcccactgtaactaatttagga
atgagacgagtcactaggagcatggttactacctctgttcctagaacgtttgaacaattcagtgaacctcctattttggagattagtgagtcaaatgatcaacgctctgtttaccagtcatatcatgaaacttctgaccaagagcacagcatagaattcttcaacttaacctcctctcccgaagctatctcatggggaca
ttcttcgttacccactcatcctgaataagaaatggaaaagaaaatatccccaattacttatcaaccttctgacaataccagagaaactatgaagaaatatgtcagacggtcttttgaacaaagaatcgctcgcgcagaggacaagcttaagagtgccgaatccgacaatcttatgttaagagaggaaacccagaaattaa
gaaatgaactgctttcgtgggtcgatcgttggcagaatatgaaattaaagaaagacaaacatagagttgttaagagaacacttatcgccagcaatgagaggttaatcaagcaagaaggtttccataattctaagatcctttgtttgaaggccaaattggtagaagccgggaaagattctcacatccaagtgtcttttgat
cccacacgtatatcctaatcgacagtctatgtgactaattttgattgaattttgaattacagGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAG
TTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTT
GGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAG
GAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTACTTATAGTTTCC

Intron 4 GTAAGATTAC ... TATGTCACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	-1	0	0	0
A2	100	0	3	0
A3	-1	0	0	0
A4	-1	0	0	0
A5	-1	0	0	0
A6	20	4	0	2
A7	22.58	12	2	5
A8	22.73	17	5	5
A9	22.58	12	1	6
A10	27.27	4	0	3

>TRINITY_DN45659_c5_g3_i8 from sample A8 / Example spliced isoform

TAAAAGGAGGAGAAGAAGTGAAGAGAAGGGCTTTTTGTCTTTTGGCATTGGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCCACCTTCAGTTACACTATGGGAGCTGTCAAGGTC
ATGGTAGCTCCTAGGTCATCTAACCAGGCTGACGAAGAAGTCGCTTAGAAATTTAAAAGAATAGGATGGGCACCATTCTTTAACCTTTTTAGTGCACATAACACAGAGGTCACCAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTTGGTAATTTGCATTTTCCCCTCACGGAAGACTTCATTGTAGAAGC
TACACGCTTGCCTCAAACCGGCGAGTGCTGGTTCAAAGGAGGAAACACGAGCAAGAAAAAGTGGAAATCTTTCATACTATCAATTCCTGTAGATCTTGAAACTAAGTATGGTTTTCTTGCGAGGTTTCTCAAGCCACAATGGAGGCCCTTACTTACCATTATAATCAGGTACATTACCTTAGATGGGCGGTTTTCTCTCG
TACATTTATACCATTTGCGATTGTTGATGGTTTTTGAAGGCTTCCCTATAAATTTATCATTTTTCTTTTTAGCAGCCTCAAGAGGATGGCCTCTACTAAGAAAAATACCACTGGAAATCTAGATAGAAGCATTTTTCATCCCGACCTTCTGACTATTTTGATCCAATATCGTTTAATCTTAGAGGGAAAAACTTGGGAAT
AATTCTTGATAGAAAATAACTTTGGGGAAAATCAATTTCGGTCAAATCCTCTCCTGAAAACACGCCCGAAGAGAAGGAGACCTAATGCCATCAACCCTAACCCAGAAGCTGCTCCTGCTTCGATAGATAATGAGATAGGTTCTGTAAACCCTACCCGAGAATATGAAGAAGGTCCTGAATTAAAGAAGGACGAGACTCCC
TTGTTTTTAGGGACTCCAATAGATCCATAACCTTCAGGTATACATTATAAGAAGTTTGAGAAAAAGGAGAGAAGTTCTACGGATTCGAAAGAAAATCCTGGGGGCCATCTTAGGTCTGTGCGTAAGCGAAAATATCTGAAACTTGCTCCCACTGTAACTAATTTAGGAATGAGACGAGTCACTAGGAGCATGGTTACTAC
CTCTGTTCCTAGAACGTTTGAACAATTCAGTGAACCTCCTATTTTGGAGATTAGTGAGTCAAATGATCAACGCTCTGTTTACCAGTCATATCATGAAACTTCTGACCAAGAGCACAGCATAGAATTCTTCAACTTAACCTCCTCTCCCGAAGCTATCTCATGGGGACATTCTTCGTTACCCACTCATCCTGAATAAGAAA
TGGAAAAGAAAATATCCCCAATTACTTATCAACCTTCTGACAATACCAGAGAAACTATGAAGAAATATGTCAGACGGTCTTTTGAACAAAGAATCGCTCGCGCAGAGGACAAGCTTAAGAGTGCCGAATCCGACAATCTTATGTTAAGAGAGGAAACCCAGAAATTAAGAAATGAACTGCTTTCGTGGGTCGATCGTTGG
CAGAATATGAAATTAAAGAAAGACAAACATAGAGTTGTTAAGAGAACACTTATCGCCAGCAATGAGAGGTTAATCAAGCAAGAAGGTTTCCATAATTCTAAGATCCTTTGTTTGAAGGCCAAATTGGTAGAAGCCGGGAAAGATTCTCACATCCAAGTGTCTTTTGATCCCACACGTATATCCTAATCGACAGTCTATGT
GACTAATTTTGATTGAATTTTGAATTACAGGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTT
GTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACAT
TAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCAT
GAATATATATTATATGACTAC

>TRINITY_DN45659_c5_g3_i7 from sample A8 / Example unspliced isoform:

TAAAAGGAGGAGAAGAAGTGAAGAGAAGGGCTTTTTGTCTTTTGGCATTGGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCCACCTTCAGTTACACTATGGGAGCTGTCAAGGTC
ATGGTAGCTCCTAGGTCATCTAACCAGGCTGACGAAGAAGTCGCTTAGAAATTTAAAAGAATAGGATGGGCACCATTCTTTAACCTTTTTAGTGCACATAACACAGAGGTCACCAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTTGGTAATTTGCATTTTCCCCTCACGGAAGACTTCATTGTAGAAGC
TACACGCTTGCCTCAAACCGGCGAGTGCTGGTTCAAAGGAGGAAACACGAGCAAGAAAAAGTGGAAATCTTTCATACTATCAATTCCTGTAGATCTTGAAACTAAGTATGGTTTTCTTGCGAGGTTTCTCAAGCCACAATGGAGGCCCTTACTTACCATTATAATCAGGTACATTACCTTAGATGGGCGGTTTTCTCTCG
TACATTTATACCATTTGCGATTGTTGATGGTTTTTGAAGGCTTCCCTATAAATTTATCATTTTTCTTTTTAGCAGCCTCAAGAGGATGGCCTCTACTAAGAAAAATACCACTGGAAATCTAGATAGAAGCATTTTTCATCCCGACCTTCTGACTATTTTGATCCAATATCGTTTAATCTTAGAGGGAAAAACTTGGGAAT
AATTCTTGATAGAAAATAACTTTGGGGAAAATCAATTTCGGTCAAATCCTCTCCTGAAAACACGCCCGAAGAGAAGGAGACCTAATGCCATCAACCCTAACCCAGAAGCTGCTCCTGCTTCGATAGATAATGAGATAGGTTCTGTAAACCCTACCCGAGAATATGAAGAAGGTCCTGAATTAAAGAAGGACGAGACTCCC
TTGTTTTTAGGGACTCCAATAGATCCATAACCTTCAGGTATACATTATAAGAAGTTTGAGAAAAAGGAGAGAAGTTCTACGGATTCGAAAGAAAATCCTGGGGGCCATCTTAGGTCTGTGCGTAAGCGAAAATATCTGAAACTTGCTCCCACTGTAACTAATTTAGGAATGAGACGAGTCACTAGGAGCATGGTTACTAC
CTCTGTTCCTAGAACGTTTGAACAATTCAGTGAACCTCCTATTTTGGAGATTAGTGAGTCAAATGATCAACGCTCTGTTTACCAGTCATATCATGAAACTTCTGACCAAGAGCACAGCATAGAATTCTTCAACTTAACCTCCTCTCCCGAAGCTATCTCATGGGGACATTCTTCGTTACCCACTCATCCTGAATAAGAAA
TGGAAAAGAAAATATCCCCAATTACTTATCAACCTTCTGACAATACCAGAGAAACTATGAAGAAATATGTCAGACGGTCTTTTGAACAAAGAATCGCTCGCGCAGAGGACAAGCTTAAGAGTGCCGAATCCGACAATCTTATGTTAAGAGAGGAAACCCAGAAATTAAGAAATGAACTGCTTTCGTGGGTCGATCGTTGG
CAGAATATGAAATTAAAGAAAGACAAACATAGAGTTGTTAAGAGAACACTTATCGCCAGCAATGAGAGGTTAATCAAGCAAGAAGGTTTCCATAATTCTAAGATCCTTTGTTTGAAGGCCAAATTGGTAGAAGCCGGGAAAGATTCTCACATCCAAGTGTCTTTTGATCCCACACGTATATCCTAATCGACAGTCTATGT
GACTAATTTTGATTGAATTTTGAATTACAGgtaagattacatatttcacacgccataggtaaaactttcattctgttttttttattatataagcatacctacagaatcgtagattctataggcatgctgacaatttatttgttatttagatgtgattatatctgttgataaaaaatttattgtatgtcacagGTGGTGTT
CCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAAT
CCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTG
TTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTAC

Intron 5 GCGAGTGCTG ... TGAATTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	-1	0	0	0
A2	-1	0	0	0
A3	100	0	2	0
A4	100	0	2	0
A5	100	0	1	0
A6	50	2	0	4
A7	58.97	8	11	12
A8	69.23	6	10	17
A9	66.67	6	12	12
A10	72.41	4	17	4

>TRINITY_DN45659_c5_g3_i4 from sample A8 / Example spliced isoform

CACTCTTTAACCTTTTCAGTGCACATAACACAGAGGTCACGAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTCCGGTAATTTGCATTTTCCCCTCGCAGAAGACTTCATTGTAGAAGCTACACGCTTGCCTCAAACCGGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTT
CTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACT
CTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCT
AGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTAC

>TRINITY_DN45659_c5_g3_i8 from sample A8 / Example unspliced isoform:

TAAAAGGAGGAGAAGAAGTGAAGAGAAGGGCTTTTTGTCTTTTGGCATTGGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCCACCTTCAGTTACACTATGGGAGCTGTCAAGGTC
ATGGTAGCTCCTAGGTCATCTAACCAGGCTGACGAAGAAGTCGCTTAGAAATTTAAAAGAATAGGATGGGCACCATTCTTTAACCTTTTTAGTGCACATAACACAGAGGTCACCAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTTGGTAATTTGCATTTTCCCCTCACGGAAGACTTCATTGTAGAAGC
TACACGCTTGCCTCAAACCGgcgagtgctggttcaaaggaggaaacacgagcaagaaaaagtggaaatctttcatactatcaattcctgtagatcttgaaactaagtatggttttcttgcgaggtttctcaagccacaatggaggcccttacttaccattataatcaggtacattaccttagatgggcggttttctctcg
tacatttataccatttgcgattgttgatggtttttgaaggcttccctataaatttatcatttttctttttagcagcctcaagaggatggcctctactaagaaaaataccactggaaatctagatagaagcatttttcatcccgaccttctgactattttgatccaatatcgtttaatcttagagggaaaaacttgggaat
aattcttgatagaaaataactttggggaaaatcaatttcggtcaaatcctctcctgaaaacacgcccgaagagaaggagacctaatgccatcaaccctaacccagaagctgctcctgcttcgatagataatgagataggttctgtaaaccctacccgagaatatgaagaaggtcctgaattaaagaaggacgagactccc
ttgtttttagggactccaatagatccataaccttcaggtatacattataagaagtttgagaaaaaggagagaagttctacggattcgaaagaaaatcctgggggccatcttaggtctgtgcgtaagcgaaaatatctgaaacttgctcccactgtaactaatttaggaatgagacgagtcactaggagcatggttactac
ctctgttcctagaacgtttgaacaattcagtgaacctcctattttggagattagtgagtcaaatgatcaacgctctgtttaccagtcatatcatgaaacttctgaccaagagcacagcatagaattcttcaacttaacctcctctcccgaagctatctcatggggacattcttcgttacccactcatcctgaataagaaa
tggaaaagaaaatatccccaattacttatcaaccttctgacaataccagagaaactatgaagaaatatgtcagacggtcttttgaacaaagaatcgctcgcgcagaggacaagcttaagagtgccgaatccgacaatcttatgttaagagaggaaacccagaaattaagaaatgaactgctttcgtgggtcgatcgttgg
cagaatatgaaattaaagaaagacaaacatagagttgttaagagaacacttatcgccagcaatgagaggttaatcaagcaagaaggtttccataattctaagatcctttgtttgaaggccaaattggtagaagccgggaaagattctcacatccaagtgtcttttgatcccacacgtatatcctaatcgacagtctatgt
gactaattttgattgaattttgaattacagGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTT
GTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACAT
TAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCAT
GAATATATATTATATGACTAC

Intron 6 GCGAGTGCTG ... TATGTCACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	-1	0	0	0
A2	-1	0	0	0
A3	100	0	2	0
A4	100	0	2	0
A5	100	0	1	0
A6	33.33	2	0	2
A7	50	8	11	5
A8	55.56	6	10	5
A9	60	6	12	6
A10	71.43	4	17	3

>TRINITY_DN45659_c5_g3_i4 from sample A8 / Example spliced isoform

CACTCTTTAACCTTTTCAGTGCACATAACACAGAGGTCACGAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTCCGGTAATTTGCATTTTCCCCTCGCAGAAGACTTCATTGTAGAAGCTACACGCTTGCCTCAAACCGGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTT
CTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACT
CTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCT
AGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTAC

>TRINITY_DN45659_c5_g3_i7 from sample A8 / Example unspliced isoform:

TAAAAGGAGGAGAAGAAGTGAAGAGAAGGGCTTTTTGTCTTTTGGCATTGGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCCACCTTCAGTTACACTATGGGAGCTGTCAAGGTC
ATGGTAGCTCCTAGGTCATCTAACCAGGCTGACGAAGAAGTCGCTTAGAAATTTAAAAGAATAGGATGGGCACCATTCTTTAACCTTTTTAGTGCACATAACACAGAGGTCACCAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTTGGTAATTTGCATTTTCCCCTCACGGAAGACTTCATTGTAGAAGC
TACACGCTTGCCTCAAACCGgcgagtgctggttcaaaggaggaaacacgagcaagaaaaagtggaaatctttcatactatcaattcctgtagatcttgaaactaagtatggttttcttgcgaggtttctcaagccacaatggaggcccttacttaccattataatcaggtacattaccttagatgggcggttttctctcg
tacatttataccatttgcgattgttgatggtttttgaaggcttccctataaatttatcatttttctttttagcagcctcaagaggatggcctctactaagaaaaataccactggaaatctagatagaagcatttttcatcccgaccttctgactattttgatccaatatcgtttaatcttagagggaaaaacttgggaat
aattcttgatagaaaataactttggggaaaatcaatttcggtcaaatcctctcctgaaaacacgcccgaagagaaggagacctaatgccatcaaccctaacccagaagctgctcctgcttcgatagataatgagataggttctgtaaaccctacccgagaatatgaagaaggtcctgaattaaagaaggacgagactccc
ttgtttttagggactccaatagatccataaccttcaggtatacattataagaagtttgagaaaaaggagagaagttctacggattcgaaagaaaatcctgggggccatcttaggtctgtgcgtaagcgaaaatatctgaaacttgctcccactgtaactaatttaggaatgagacgagtcactaggagcatggttactac
ctctgttcctagaacgtttgaacaattcagtgaacctcctattttggagattagtgagtcaaatgatcaacgctctgtttaccagtcatatcatgaaacttctgaccaagagcacagcatagaattcttcaacttaacctcctctcccgaagctatctcatggggacattcttcgttacccactcatcctgaataagaaa
tggaaaagaaaatatccccaattacttatcaaccttctgacaataccagagaaactatgaagaaatatgtcagacggtcttttgaacaaagaatcgctcgcgcagaggacaagcttaagagtgccgaatccgacaatcttatgttaagagaggaaacccagaaattaagaaatgaactgctttcgtgggtcgatcgttgg
cagaatatgaaattaaagaaagacaaacatagagttgttaagagaacacttatcgccagcaatgagaggttaatcaagcaagaaggtttccataattctaagatcctttgtttgaaggccaaattggtagaagccgggaaagattctcacatccaagtgtcttttgatcccacacgtatatcctaatcgacagtctatgt
gactaattttgattgaattttgaattacaggtaagattacatatttcacacgccataggtaaaactttcattctgttttttttattatataagcatacctacagaatcgtagattctataggcatgctgacaatttatttgttatttagatgtgattatatctgttgataaaaaatttattgtatgtcacagGTGGTGTT
CCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAAT
CCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTG
TTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTAC

Intron 7 GCTGACGAAG ... TGAATTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	33.33	3	3	0
A2	33.33	8	8	0
A3	33.33	10	10	0
A4	33.33	5	5	0
A5	33.33	7	7	0
A6	42.86	4	2	4
A7	56	11	16	12
A8	55	9	5	17
A9	53.49	10	11	12
A10	48.94	12	19	4

>TRINITY_DN42851_c3_g1_i5 from sample A9 / Example spliced isoform

ATCAAATTTTGCATAAAGAAAGAAATTAAATAAGAAATTAAGAATTTGGGAGGAGGAGGAGATAAAAGGAGGAGAAGTGAAGAGAGGGGTCTTTTTTTGTCTTTGGCATTTGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGG
GGTTGGTTGGGTGGAGAGTCATCCCCCCACCTTCAGTTACACTATGGGAGCTGTCAAGGTCATGGTAGCTCCTAGGTCATCTAACCAGGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTAT
CGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGT
TATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTC
TGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTACTTATAGTTTCCTTTATGTTTATATTTCTC

>TRINITY_DN42851_c3_g1_i3 from sample A9 / Example unspliced isoform:

ATCAAATTTTGCATAAAGAAAGAAATTAAATAAGAAATTAAGAATTTGGGAGGAGGAGGAGATAAAAGGAGGAGAAGTGAAGAGAGGGGTCTTTTTTTGTCTTTGGCATTTGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGG
GGTTGGTTGGGTGGAGAGTCATCCCCCCACCTTCAGTTACACTATGGGAGCTGTCAAGGTCATGGTAGCTCCTAGGTCATCTAACCAGgctgacgaagaagtcgcttagaaatttaaaagaataggatgggcaccattctttaacctttttagtgcacataacacagaggtcaccaggaagtttgctttatcgtttaaag
atggtgcagctcaggttggtaatttgcattttcccctcacggaagacttcattgtagaagctacacgcttgcctcaaaccggcgagtgctggttcaaaggaggaaacacgagcaagaaaaagtggaaatctttcatactatcaattcctgtagatcttgaaactaagtatggttttcttgcgaggtttctcaagccacaa
tggaggcccttacttaccattataatcaggtacattaccttagatgggcggttttctctcgtacatttataccatttgcgattgttgatggtttttgaaggcttccctataaatttatcatttttctttttagcagcctcaagaggatggcctctactaagaaaaataccactggaaatctagatagaagcatttttcat
cccgaccttctgactattttgatccaatatcgtttaatcttagagggaaaaacttgggaataattcttgatagaaaataactttggggaaaatcaatttcggtcaaatcctctcctgaaaacacgcccgaagagaaggagacctaatgccatcaaccctaacccagaagctgctcctgcttcgatagataatgagatagg
ttctgtaaaccctacccgagaatatgaagaaggtcctgaattaaagaaggacgagactcccttgtttttagggactccaatagatccataaccttcaggtatacattataagaagtttgagaaaaaggagagaagttctacggattcgaaagaaaatcctgggggccatcttaggtctgtgcgtaagcgaaaatatctga
aacttgctcccactgtaactaatttaggaatgagacgagtcactaggagcatggttactacctctgttcctagaacgtttgaacaattcagtgaacctcctattttggagattagtgagtcaaatgatcaacgctctgtttaccagtcatatcatgaaacttctgaccaagagcacagcatagaattcttcaacttaacc
tcctctcccgaagctatctcatggggacattcttcgttacccactcatcctgaataagaaatggaaaagaaaatatccccaattacttatcaaccttctgacaataccagagaaactatgaagaaatatgtcagacggtcttttgaacaaagaatcgctcgcgcagaggacaagcttaagagtgccgaatccgacaatct
tatgttaagagaggaaacccagaaattaagaaatgaactgctttcgtgggtcgatcgttggcagaatatgaaattaaagaaagacaaacatagagttgttaagagaacacttatcgccagcaatgagaggttaatcaagcaagaaggtttccataattctaagatcctttgtttgaaggccaaattggtagaagccggga
aagattctcacatccaagtgtcttttgatcccacacgtatatcctaatcgacagtctatgtgactaattttgattgaattttgaattacagGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGT
TATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTC
TGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAAT
CTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTACTTATAGTTTCCTTTATGTTTATATTTCTC

Intron 8 GCTGACGAAG ... TTATAATCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	41.33	8	3	4
A2	30.79	10.3	8	0
A3	33.59	11.7	10.7	1
A4	34.09	6	5	1
A5	30.86	8	7	0
A6	60	4	2	10
A7	58.55	11.3	16	16
A8	56.1	9	5	18
A9	47.37	10	11	7
A10	53.85	12	19	9

>TRINITY_DN43017_c3_g4_i3 from sample A7 / Example spliced isoform

AAAAAATTAAGAAATTGGGAGGAGAAGGAGATAAAAGGGGGAGAAGTAGTGAAGAGAGGGGTCTTTTTGTCTTTGGTCATCTTGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCC
ACCTTCAGTTACACTATGGGAGCTGTCAAGGTCATGGTAGCTCCTAGGTCATCTAACCAGGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTT
CAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGG
GATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGA
AATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTACTTATAGTTTCC

>TRINITY_DN43017_c3_g4_i1 from sample A7 / Example unspliced isoform:

AAAAAATTAAGAAATTGGGAGGAGAAGGAGATAAAAGGGGGAGAAGTAGTGAAGAGAGGGGTCTTTTTGTCTTTGGTCATCTTGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCC
ACCTTCAGTTACACTATGGGAGCTGTCAAGGTCATGGTAGCTCCTAGGTCATCTAACCAGgctgacgaagaagtcgcttagaaatttaaaagaataggatgggcaccattctttaacctttttagtgcacataacacagaggtcaccaggaagtttgctttatcgtttaaagatggtgcagctcaggttggtaatttgca
ttttcccctcacggaagacttcattgtagaagctacacgcttgcctcaaaccggcgagtgctggttcaaaggaggaaacacgagcaagaaaaagtggaaatctttcatactatcaattcctgtagatcttgaaactaagtatggttttcttgcgaggtttctcaagccacaatggaggcccttacttaccattataatca
gGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCA
CCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAA
AATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTACTTATAGTT
TCC

Intron 9 GTACATTACC ... TATGTCACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	33.33	4	4	0
A2	-1	0	0	0
A3	0	1	0	0
A4	33.33	1	1	0
A5	-1	0	0	0
A6	23.08	10	4	2
A7	21.95	16	4	5
A8	26.53	18	8	5
A9	39.13	7	3	6
A10	40	9	9	3

>TRINITY_DN45659_c5_g3_i6 from sample A8 / Example spliced isoform

TAAAAGGAGGAGAAGAAGTGAAGAGAAGGGCTTTTTGTCTTTTGGCATTGGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCCACCTTCAGTTACACTATGGGAGCTGTCAAGGTC
ATGGTAGCTCCTAGGTCATCTAACCAGGCTGACGAAGAAGTCGCTTAGAAATTTAAAAGAATAGGATGGGCACCATTCTTTAACCTTTTTAGTGCACATAACACAGAGGTCACCAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTTGGTAATTTGCATTTTCCCCTCACGGAAGACTTCATTGTAGAAGC
TACACGCTTGCCTCAAACCGGCGAGTGCTGGTTCAAAGGAGGAAACACGAGCAAGAAAAAGTGGAAATCTTTCATACTATCAATTCCTGTAGATCTTGAAACTAAGTATGGTTTTCTTGCGAGGTTTCTCAAGCCACAATGGAGGCCCTTACTTACCATTATAATCAGGTGGTGTTCCAGGATTGATAATTTTGTTGGCT
TATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCA
AGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCA
AGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTAC

>TRINITY_DN45659_c5_g3_i7 from sample A8 / Example unspliced isoform:

TAAAAGGAGGAGAAGAAGTGAAGAGAAGGGCTTTTTGTCTTTTGGCATTGGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCCACCTTCAGTTACACTATGGGAGCTGTCAAGGTC
ATGGTAGCTCCTAGGTCATCTAACCAGGCTGACGAAGAAGTCGCTTAGAAATTTAAAAGAATAGGATGGGCACCATTCTTTAACCTTTTTAGTGCACATAACACAGAGGTCACCAGGAAGTTTGCTTTATCGTTTAAAGATGGTGCAGCTCAGGTTGGTAATTTGCATTTTCCCCTCACGGAAGACTTCATTGTAGAAGC
TACACGCTTGCCTCAAACCGGCGAGTGCTGGTTCAAAGGAGGAAACACGAGCAAGAAAAAGTGGAAATCTTTCATACTATCAATTCCTGTAGATCTTGAAACTAAGTATGGTTTTCTTGCGAGGTTTCTCAAGCCACAATGGAGGCCCTTACTTACCATTATAATCAGgtacattaccttagatgggcggttttctctcg
tacatttataccatttgcgattgttgatggtttttgaaggcttccctataaatttatcatttttctttttagcagcctcaagaggatggcctctactaagaaaaataccactggaaatctagatagaagcatttttcatcccgaccttctgactattttgatccaatatcgtttaatcttagagggaaaaacttgggaat
aattcttgatagaaaataactttggggaaaatcaatttcggtcaaatcctctcctgaaaacacgcccgaagagaaggagacctaatgccatcaaccctaacccagaagctgctcctgcttcgatagataatgagataggttctgtaaaccctacccgagaatatgaagaaggtcctgaattaaagaaggacgagactccc
ttgtttttagggactccaatagatccataaccttcaggtatacattataagaagtttgagaaaaaggagagaagttctacggattcgaaagaaaatcctgggggccatcttaggtctgtgcgtaagcgaaaatatctgaaacttgctcccactgtaactaatttaggaatgagacgagtcactaggagcatggttactac
ctctgttcctagaacgtttgaacaattcagtgaacctcctattttggagattagtgagtcaaatgatcaacgctctgtttaccagtcatatcatgaaacttctgaccaagagcacagcatagaattcttcaacttaacctcctctcccgaagctatctcatggggacattcttcgttacccactcatcctgaataagaaa
tggaaaagaaaatatccccaattacttatcaaccttctgacaataccagagaaactatgaagaaatatgtcagacggtcttttgaacaaagaatcgctcgcgcagaggacaagcttaagagtgccgaatccgacaatcttatgttaagagaggaaacccagaaattaagaaatgaactgctttcgtgggtcgatcgttgg
cagaatatgaaattaaagaaagacaaacatagagttgttaagagaacacttatcgccagcaatgagaggttaatcaagcaagaaggtttccataattctaagatcctttgtttgaaggccaaattggtagaagccgggaaagattctcacatccaagtgtcttttgatcccacacgtatatcctaatcgacagtctatgt
gactaattttgattgaattttgaattacaggtaagattacatatttcacacgccataggtaaaactttcattctgttttttttattatataagcatacctacagaatcgtagattctataggcatgctgacaatttatttgttatttagatgtgattatatctgttgataaaaaatttattgtatgtcacagGTGGTGTT
CCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAAT
CCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTG
TTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTAC

Intron 10 GCTGACGAAG ... TGAATTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	33.33	3	3	0
A2	40	6	8	0
A3	33.33	11	11	0
A4	33.33	5	5	0
A5	33.33	7	7	0
A6	42.86	4	2	4
A7	56	11	16	12
A8	55	9	5	17
A9	53.49	10	11	12
A10	48.94	12	19	4

>TRINITY_DN43017_c3_g4_i3 from sample A7 / Example spliced isoform

AAAAAATTAAGAAATTGGGAGGAGAAGGAGATAAAAGGGGGAGAAGTAGTGAAGAGAGGGGTCTTTTTGTCTTTGGTCATCTTGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCC
ACCTTCAGTTACACTATGGGAGCTGTCAAGGTCATGGTAGCTCCTAGGTCATCTAACCAGGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAGTT
CAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTTGG
GATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAGGA
AATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTACTTATAGTTTCC

>TRINITY_DN43017_c3_g4_i4 from sample A7 / Example unspliced isoform:

AAAAAATTAAGAAATTGGGAGGAGAAGGAGATAAAAGGGGGAGAAGTAGTGAAGAGAGGGGTCTTTTTGTCTTTGGTCATCTTGGAAGAGGAGCTCTGGAGGAGAGGAAAGCAAGATAGCGTTGGCATAGGGTTAATCATTGGGGGCTCGGGGGCCTCAGCCTTTGGCTGGGGGTTGGTTGGGTGGAGAGTCATCCCCCC
ACCTTCAGTTACACTATGGGAGCTGTCAAGGTCATGGTAGCTCCTAGGTCATCTAACCAGgctgacgaagaagtcgcttagaaatttaaaagaataggatgggcaccattctttaacctttttagtgcacataacacagaggtcaccaggaagtttgctttatcgtttaaagatggtgcagctcaggttggtaatttgca
ttttcccctcacggaagacttcattgtagaagctacacgcttgcctcaaaccggcgagtgctggttcaaaggaggaaacacgagcaagaaaaagtggaaatctttcatactatcaattcctgtagatcttgaaactaagtatggttttcttgcgaggtttctcaagccacaatggaggcccttacttaccattataatca
ggtacattaccttagatgggcggttttctctcgtacatttataccatttgcgattgttgatggtttttgaaggcttccctataaatttatcatttttctttttagcagcctcaagaggatggcctctactaagaaaaataccactggaaatctagatagaagcatttttcatcccgaccttctgactattttgatccaat
atcgtttaatcatagagggaaaacttgggaataattcttgatagaaaataactttggggaaaatcaatttcggtcaaatcctctcctgaaaacacgcccgaagagaaggagacctaatgccatcaaccctaacccagaagctgctcctgcttcgatagataatgagataggttctgtaaaccctacccgagaatatgaag
aaggtcctgaattaaagaaggacgagactcccttgtttttagggactccaatagatccataaccttcaggtatacattataagaagtttgagaaaaaggagagaagttctacggattcgaaagaaaatcctgggggccatcttaggtctgtgcgtaagcgaaaatatctgaaacttgctcccactgtaactaatttagga
atgagacgagtcactaggagcatggttactacctctgttcctagaacgtttgaacaattcagtgaacctcctattttggagattagtgagtcaaatgatcaacgctctgtttaccagtcatatcatgaaacttctgaccaagagcacagcatagaattcttcaacttaacctcctctcccgaagctatctcatggggaca
ttcttcgttacccactcatcctgaataagaaatggaaaagaaaatatccccaattacttatcaaccttctgacaataccagagaaactatgaagaaatatgtcagacggtcttttgaacaaagaatcgctcgcgcagaggacaagcttaagagtgccgaatccgacaatcttatgttaagagaggaaacccagaaattaa
gaaatgaactgctttcgtgggtcgatcgttggcagaatatgaaattaaagaaagacaaacatagagttgttaagagaacacttatcgccagcaatgagaggttaatcaagcaagaaggtttccataattctaagatcctttgtttgaaggccaaattggtagaagccgggaaagattctcacatccaagtgtcttttgat
cccacacgtatatcctaatcgacagtctatgtgactaattttgattgaattttgaattacagGTGGTGTTCCAGGATTGATAATTTTGTTGGCTTATCCGAAGTGGAGGTCGTTCTCCTTGATGAAAGAACCGTATGGTTAATCATTACGTTCCCTGGTGTCTCATGCTGTTATCGATGGCGTTGCTTTACTGGATATAG
TTCAATTTGATCGGTTATACGTAATCAGTTTTGTTATGCTTCATGATATATATGCCAGCCACCTGACAATCCCAGCACTACGCATCTTCTTTCAAGCGAGACCATCTCGCCACTCTATAATGAATTCCGTTGTAAACATTGATTCGATCAATGGTTGTTATGACAACTCTCTGTTATTGTTTTGAATATAAGTCTTATTT
GGGATACTTGAACTAGATTCTTGTGATGACATTAATTCGACTGTTCTAAATTTGATTATAAAATACAGTGTTAGGGACAATTCTAAGGGGTTCAAGTAGGTGAAGAAGAAAGCTAGTATTAGGATTCAAGACCATCAAGTGCTGAATGAAATTGTCTTCCTGAGATTTAATCTCTGTTCGACTGTCATGCATTTTTCAAG
GAAATTGGTATCATTTTGAGCCGTGTTTTCATGAATATATATTATATGACTACTTATAGTTTCC