sp|Q6NLS8|PTHM_ARATH ----> Peptidyl-tRNA hydrolase, mitochondrial

Intron 1 GTTAGCACTT ... AATCATACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	71.43	2	5	2
A2	50	2	2	1
A3	-1	0	0	0
A4	50	2	2	4
A5	50	4	4	0
A6	61.54	5	8	1
A7	53.33	7	8	0
A8	50	8	8	0
A9	57.14	12	16	1
A10	53.85	6	7	0

>TRINITY_DN97159_c0_g1_i5 from sample A4 / Example spliced isoform

ATTTCTATCAACACGACTCTTTGTAAAGCATTATGTGGAAAAGGTTGGGCCTCTTACAGCTTATTATAAAATACCTCTTCACCATGTGCTTCTGATGTTTGATGATATGGAGTTACCGTGTGGCATATTACGGCTTAATCAAAATGGTGGACATGGAGGCCATAATGGGGTGAAGAGTGTGATGCGAGCTTTCAAAAATA
TTCAGGACTTTGCTCGTTTGCGTATTGGTGAGGTACATCTTCACTTGTGTTTACAGGTATTGGCAAGCCACCCAGAAAAATGGATCCCAAGGCTTATCTGCTCCAAATATTTAGTTCAAGTGCTCGTGAAAAGGTAAACATTGCCTTGAAAGAAGGAGTTGAAGCCGCAAGGCTTCTTACATCAGAAGGCTTTTTCGAGA
GTGCTCATCACTTCAACCTAAAACAGAAGTATAAGCATCAGAAAGTTGATTACTTGGACTTTGGCAGAAAGCATTGTTAATGACATTAGTTGAATGGATATGGCTTGAGGATGGTTACCAGGGAGCAAACGACATACAAATGACAAACTCGCTTCTCTCCTCTGCCTGTTGAAATTCCAGGCAGTTGTCTATTTCTTGCT
CTTCAATTTTCAGTAATGCATATAACGTGATGTCTTGTTCTGCATTGAA

>TRINITY_DN97159_c0_g1_i3 from sample A4 / Example unspliced isoform:

ATTTCTATCAACACGACTCTTTGTAAAGCATTATGTGGAAAAGGTTGGGCCTCTTACAGCTTATTATAAAATACCTCTTCACCATGTGCTTCTGATGTTTGATGATATGGAGTTACCGTGTGGCATATTACGGCTTAATCAAAATGGTGGACATGGAGGCCATAATGGGGTGAAGAGTGTGATGCGAGCTTTCAAAAATA
TTCAGGACTTTGCTCGTTTGCGTATTGgttagcacttactcttagaaactcacaaattagaaataaatgtatcctctagtagtgctttcaattaaacaaaatcaaaatcatacagGTGAGGTACATCTTCACTTGTGTTTACAGGTATTGGCAAGCCACCCAGAAAAATGGATCCCAAGGCTTATCTGCTCCAAATATTT
AGTTCAAGTGCTCGTGAAAAGGTAAACATTGCCTTGAAAGAAGGAGTTGAAGCCGCAAGGCTTCTTACATCAGAAGGCTTTTTCGAGAGTGCTCATCACTTCAACCTAAAACAGAAGTATAAGCATCAGAAAGTTGATTACTTGGACTTTGGCAGAAAGCATTGTTAATGACATTAGTTGAATGGATATGGCTTGAGGAT
GGTTACCAGGGAGCAAACGACATACAAATGACAAACTCGCTTCTCTCCTCTGCCTGTTGAAATTCCAGGCAGTTGTCTATTTCTTGCTCTTCAATTTTCAGTAATGCATATAACGTGATGTCTTGTTCTGCATTGAA

Intron 2 GTGAGGTACA ... GTGTTTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	0	17	1.7	0
A2	16.67	10	1.7	2
A3	10.53	17	0	2
A4	10.71	14	1.7	1.7
A5	11.11	8	3.4	1
A6	16.97	65	4.3	13.3
A7	17.07	52	6	10.7
A8	18.07	44	6.9	9.7
A9	10.47	77	10.3	9
A10	6.82	41	5.1	3

>TRINITY_DN97159_c0_g1_i6 from sample A4 / Example spliced isoform

AGGGAATAATTTGCTGTGAAATGCGGAAAGTAAAACATACGCTCCTCGTACGAGTGAAGAGTTATTGTCATAACTCGAGCGACTCGGGGTCGAGTTCTTGTTGAAAATACGAAATTCTTTAAGCGAGCAGAAGCAGAAGCTATTCAATCTGATGGTGCTCACGTAGAAATAAGATTGGGGTCGAGCGGAAACCTCAAGCA
CTATTTAGCGCAGTATTATCCAGAGTTGAACGACACCAGGACTGGCAGAGTATTAATGTTGGCACTGTACATCCACATGCTGCATATACCTTGTCAAATGCAAGGAATTTTATGTAGACGCATGGTTTCTTGTCCATTACAACTGCGGGGATACTCATACATTCATATGGATGGTTCTCTGCATGACAGGCCAAGACCCT
GGCTAGTTGTTGGTTTGGGAAATCCAGGGAGGAAGTATGAAGGCACAAAGCATAATGTCGGCTTTGAGATGATTGATTGTATTGCGCAAGCAGAGGGAATTTCTATCAACACGACTCTTTGCAAAGCATTATGTGGAAAAGGCCATATTGGTAATACACCAGTTCTTCTTGCCAAACCCCAAACTTTTATGGACCTGAGT
GGAGAATCTGTTGGGCCTCTTACAGCTTATTATAAAATACCTCTTCACCATGTGCTTCTGATGTTTGATGATATGGAGTTACCGTGTGGCATATTACGGCTTAATCAAAATGGTGGACATGGAGGCCATAATGGGGTGAAGAGTGTGATGCGAGCTTTCAAAAATATTCAGGACTTTGCTCGTTTGCGTATTGGTATTGG
CAAGCCACCCAGAAAAATGGATCCCAAGGCTTATCTGCTCCAAATATTTAGTTCAAGTGCTCGTGAAAAGGTAAACATTGCCTTGAAAGAAGGAGTTGAAGCCGCAAGGCTTCTTACATCAGAAGGCTTTTTCGAGAGTGCTCATCACTTCAACCTAAAACAGAAGTATAAGCATCAGAAAGTTGATTACTTGGACTTTG
GCAGAAAGCATTGTTAATGACATTAGTTGAATGGATATGGCTTGAGGATGGTTACCAGGGAGCAAACGACATACAAATGACAAACTCGCTTCTCTCCTCTGCCTGTTGAAATTCCAGGCAGTTGTCTATTTCTTGCTCTTCAATTTTCAGTAATGCATATAACGTGATGTCTTGTTCTGCATTGAA

>TRINITY_DN97159_c0_g1_i5 from sample A4 / Example unspliced isoform:

ATTTCTATCAACACGACTCTTTGTAAAGCATTATGTGGAAAAGGTTGGGCCTCTTACAGCTTATTATAAAATACCTCTTCACCATGTGCTTCTGATGTTTGATGATATGGAGTTACCGTGTGGCATATTACGGCTTAATCAAAATGGTGGACATGGAGGCCATAATGGGGTGAAGAGTGTGATGCGAGCTTTCAAAAATA
TTCAGGACTTTGCTCGTTTGCGTATTGgtgaggtacatcttcacttgtgtttacagGTATTGGCAAGCCACCCAGAAAAATGGATCCCAAGGCTTATCTGCTCCAAATATTTAGTTCAAGTGCTCGTGAAAAGGTAAACATTGCCTTGAAAGAAGGAGTTGAAGCCGCAAGGCTTCTTACATCAGAAGGCTTTTTCGAGA
GTGCTCATCACTTCAACCTAAAACAGAAGTATAAGCATCAGAAAGTTGATTACTTGGACTTTGGCAGAAAGCATTGTTAATGACATTAGTTGAATGGATATGGCTTGAGGATGGTTACCAGGGAGCAAACGACATACAAATGACAAACTCGCTTCTCTCCTCTGCCTGTTGAAATTCCAGGCAGTTGTCTATTTCTTGCT
CTTCAATTTTCAGTAATGCATATAACGTGATGTCTTGTTCTGCATTGAA

Intron 3 GTAAGTATAA ... CAATTGATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	7.14	13	1	1
A2	10	9	1	1
A3	80	1	0	4
A4	25	6	0	2
A5	0	5	0	0
A6	9.52	38	0	4
A7	2.27	43	0	1
A8	8.62	53	4	5
A9	0	61	0	0
A10	10.34	26	0	3

>TRINITY_DN46810_c0_g2_i9 from sample A7 / Example spliced isoform

TTATCGTTATGCAGTGCCTCTTACTTTAGGTTGCTGTATTAATTTTTCATTGTAAGAAATGCAAAATGAATAGTTTGTCAGCATTCATGAAAGTAACCCTGCACCATGCCGGATATAATTTGTTCTAATTTCGATTCTCATATGCACTGAATATAATATTGTTGTGTGTTCTCTCTATGTTTTCTTTAAATATTCTTTTA
CAATTTAAGCAGGTCAATTGGTTGTGCACCACTTCACGCGATTCAGAAAACCTTATTGTCTGTGACACTTCCAAAGTTCTGAAGGCTTACACTATTTTGTGATGTTAACTGTGTTGTAGGATGAACTCTTCATATCGCAAAGTATGCCTGCACTGCAAGCTTAGGCATCAATTACATCAGATGTAAGCAGATTATTAATG
GAGGATCTTTATTTATCATAGACTTAGGCCTTGCAATCCAGAGCTGGTACACGTCATGAATTAGATCTTCAAAGGTAGTTTTTGAACAGGATGATCAAAATGTTAAATGGATGAAATTGCTTTCATTTATCTTTTATAATGATGCTCATAGAC

>TRINITY_DN46810_c0_g2_i1 from sample A7 / Example unspliced isoform:

CTTACACTATTTTGTGATgtaagtataaagctttatacacattttatggattcagacatcttttgagccttgaacaattgatagGTTAACTGTGTTGTAGGATGAACTCTTCATATCGCAAAGTATGCCTGCACTGCAAGCTTAGGCATCAATTACATCAGATGTACGACCTAGTTTCCCTATTTTCTGTAGTCTAGCAT
TAGGACAGTGTGTTCAAGTTTATTTACAAATAATTTACAAAAGAAGATTCACACCGTGACATTCAAGTTTGAATGCAGGTAAGCAGATTATTAATGGAGGATCTTTATTTATCATAGACTTAGGCCTTGCAATCCAGAGCTGGTACACGTCATGAATTAGATCTTCAAAGGTAGTTTTTGAACAGGATGATCAAAATGTT
AAATGGATGAAATTGCTTTCATTTATCTTTTATAATGATGCTCATAGAC

Intron 4 GTACGACCTA ... TTGAATGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	29.41	36	2	15
A2	31.82	15	2	7
A3	71.43	2	5	5
A4	31.25	11	6	5
A5	25	6	0	2
A6	31.49	74	10	34
A7	29.26	65.3	2	27
A8	28.39	111	6	44
A9	27.65	89	2	34
A10	36.28	51	6	29

>TRINITY_DN46810_c0_g2_i7 from sample A7 / Example spliced isoform

TTATCGTTATGCAGTGCCTCTTACTTTAGGTTGCTGTATTAATTTTTCATTGTAAGAAATGCAAAATGAATAGTTTGTCAGCATTCATGAAAGTAACCCTGCACCATGCCGGATATAATTTGTTCTAATTTCGATTCTCATATGCACTGAATATAATATTGTTGTGTGTTCTCTCTATGTTTTCTTTAAATATTCTTTTA
CAATTTAAGCAGGTCAATTGGTTGTGCACCACTTCACGCGATTCAGAAAACCTTATTGTCTGTGACACTTCCAAAGTTCTGAAGGCTTACACTATTTTGTGATGATGAACTCTTCATATCGCAAAGTATGCCTGCACTGCAAGCTTAGGCATCAATTACATCAGATGTAAGCAGATTATTAATGGAGGATCTTTATTTAT
CATAGACTTAGGCCTTGCAATCCAGAGCTGGTACACGTCATGAATTAGATCTTCAAAGGTAGTTTTTGAACAGGATGATCAAAATGTTAAATGGATGAAATTGCTTTCATTTATCTTTTATAATGATGCTCATAGAC

>TRINITY_DN46810_c0_g2_i1 from sample A7 / Example unspliced isoform:

CTTACACTATTTTGTGATGTAAGTATAAAGCTTTATACACATTTTATGGATTCAGACATCTTTTGAGCCTTGAACAATTGATAGGTTAACTGTGTTGTAGGATGAACTCTTCATATCGCAAAGTATGCCTGCACTGCAAGCTTAGGCATCAATTACATCAGATgtacgacctagtttccctattttctgtagtctagcat
taggacagtgtgttcaagtttatttacaaataatttacaaaagaagattcacaccgtgacattcaagtttgaatgcagGTAAGCAGATTATTAATGGAGGATCTTTATTTATCATAGACTTAGGCCTTGCAATCCAGAGCTGGTACACGTCATGAATTAGATCTTCAAAGGTAGTTTTTGAACAGGATGATCAAAATGTT
AAATGGATGAAATTGCTTTCATTTATCTTTTATAATGATGCTCATAGAC

Intron 5 GCAGTTGTCT ... GGAATGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	51.02	5.5	5	6
A2	60	3	8	1
A3	100	0	7	4
A4	49.94	5.6	5	6
A5	100	0	3	7
A6	67.36	27.4	62	48
A7	68.13	17.9	36	36
A8	64.6	32.3	65	51.4
A9	73.1	18.6	56	44
A10	64.15	13.1	22.5	24

>TRINITY_DN46810_c0_g2_i15 from sample A7 / Example spliced isoform

ACTTTGCTCGTTTGCGTATTGGTGAGGTACATCTTCACTTGTGTTTACAGGTATTGGCAAGCCACCCAGAAAAATGGATCCCAAGGTTTATCTGCTCCAAATATTTAGTTCAAGTGCTCGTGAAAAGGTAAACATTGCCTTGAAAGAAGGAGTTGAAGCCGCAAGGCTTCTTACATCAGAAGGCTTTTTCGAGAGTGCTC
ATCATTTCAACCTAAAACAGAAGTATAAGCATCAGAAAGTTGATTACTTGGACTTTGGCAGAAAACATTGTTAATGACATTAGTTGAATGGATATGGCTTGAGGATGGTTACCAGGGAGCAAACGACATACAAATGACAAACTCGCTTCTCTCCTCTGCCTGTTGAAATTCCAGGATCTTATAAATAATTCTCCCTCCAG
TCAATTTCTTAACAGAATTCATACATTGTAACTTTTTCCTATTCTGGAAGAATGGGAAGCATATCAAAGCTTATGTTTGAATTCAAACATCTCACAGGTTTTGCAATCTCTTTACCCTGTGTTATTGTATCAAAATTTCCCATATTTGCATATCACTGGAAGTTATACAATATTTTGAAGGCCTTGTTGACACATGTTTT
TATCATATTTATATTATTGCATGTTATAGCTTTTATTGAGGTAGTAAGAGTGTTCAAGAG

>TRINITY_DN46810_c0_g2_i11 from sample A7 / Example unspliced isoform:

CAAATTCAGTGATTTCTTTCTTGAGTTTCTGCATAGTTGCAGGCTTTTACAAAAGTTCTTCCTTTGGTATCTGTTAAAGATTTCAATTCTCCAAAATGGTTAATTATTTCTTTTATAGAAGAGATTAACAATCTGCAAAAATAGGGCACTGCTATCCTTATGGTGGAGATTGCAAATCCACAATATCCAGGCTGTAAATC
TGTATGTTTTGTTACATAAAGAATACTAATGCTATTTATTGTTTTTTATTAGATATTTGATGACATGGATCTGCCATTTGCAACACTCAGACTTCTGCCAAAAGGTGGACATGGAGGCCATAATGGGTATTTATTTGGTGAAGAGTGTGATGCGAGCTTTCAAAAATATTCAGGACTTTGCTCGTTTGCGTATTGGTATT
GGCAAGCCACCCAGAAAAATGGATCCCAAGGTTTATCTGCTCCAAATATTTAGTTCAAGTGCTCGTGAAAAGGTAAACATTGCCTTGAAAGAAGGAGTTGAAGCCGCAAGGCTTCTTACATCAGAAGGCTTTTTCGAGAGTGCTCATCATTTCAACCTAAAACAGAAGTATAAGCATCAGAAAGTTGATTACTTGGACTT
TGGCAGAAAACATTGTTAATGACATTAGTTGAATGGATATGGCTTGAGGATGGTTACCAGGGAGCAAACGACATACAAATGACAAACTCGCTTCTCTCCTCTGCCTGTTGAAATTCCAGgcagttgtctatttcttgctcttcaattttcagtaatgcatataacgtgatgtcttgttctgcattgaaagaaaacaatga
atataggcttctgcaagaagtaattttaatactttaaagatcaatgggatgacaaaagtctttggaatggcagGATCTTATAAATAATTCTCCCTCCAGTCAATTTCTTAACAGAATTCATACATTGTAACTTTTTCCTATTCTGGAAGAATGGGAAGCATATCAAAGCTTATGTTTGAATTCAAACATCTCACAGGTTT
TGCAATCTCTTTACCCTGTGTTATTGTATCAAAATTTCCCATATTTGCATATCACTGGAAGTTATACAATATTTTGAAGGCCTTGTTGACACATGTTTTTATCATATTTATATTATTGCATGTTATAGCTTTTATTGAGGTAGTAAGAGTGTTCAAGAG

Intron 6 GTTAGCACTT ... GTGTTTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	17.07	17	5	2
A2	20	10	2	3
A3	5.56	17	0	2
A4	12.5	14	2	2
A5	23.81	8	4	1
A6	14.47	65	8	14
A7	14.05	52	8	9
A8	15.38	44	8	8
A9	14.44	77	16	10
A10	10.87	41	7	3

>TRINITY_DN97159_c0_g1_i6 from sample A4 / Example spliced isoform

AGGGAATAATTTGCTGTGAAATGCGGAAAGTAAAACATACGCTCCTCGTACGAGTGAAGAGTTATTGTCATAACTCGAGCGACTCGGGGTCGAGTTCTTGTTGAAAATACGAAATTCTTTAAGCGAGCAGAAGCAGAAGCTATTCAATCTGATGGTGCTCACGTAGAAATAAGATTGGGGTCGAGCGGAAACCTCAAGCA
CTATTTAGCGCAGTATTATCCAGAGTTGAACGACACCAGGACTGGCAGAGTATTAATGTTGGCACTGTACATCCACATGCTGCATATACCTTGTCAAATGCAAGGAATTTTATGTAGACGCATGGTTTCTTGTCCATTACAACTGCGGGGATACTCATACATTCATATGGATGGTTCTCTGCATGACAGGCCAAGACCCT
GGCTAGTTGTTGGTTTGGGAAATCCAGGGAGGAAGTATGAAGGCACAAAGCATAATGTCGGCTTTGAGATGATTGATTGTATTGCGCAAGCAGAGGGAATTTCTATCAACACGACTCTTTGCAAAGCATTATGTGGAAAAGGCCATATTGGTAATACACCAGTTCTTCTTGCCAAACCCCAAACTTTTATGGACCTGAGT
GGAGAATCTGTTGGGCCTCTTACAGCTTATTATAAAATACCTCTTCACCATGTGCTTCTGATGTTTGATGATATGGAGTTACCGTGTGGCATATTACGGCTTAATCAAAATGGTGGACATGGAGGCCATAATGGGGTGAAGAGTGTGATGCGAGCTTTCAAAAATATTCAGGACTTTGCTCGTTTGCGTATTGGTATTGG
CAAGCCACCCAGAAAAATGGATCCCAAGGCTTATCTGCTCCAAATATTTAGTTCAAGTGCTCGTGAAAAGGTAAACATTGCCTTGAAAGAAGGAGTTGAAGCCGCAAGGCTTCTTACATCAGAAGGCTTTTTCGAGAGTGCTCATCACTTCAACCTAAAACAGAAGTATAAGCATCAGAAAGTTGATTACTTGGACTTTG
GCAGAAAGCATTGTTAATGACATTAGTTGAATGGATATGGCTTGAGGATGGTTACCAGGGAGCAAACGACATACAAATGACAAACTCGCTTCTCTCCTCTGCCTGTTGAAATTCCAGGCAGTTGTCTATTTCTTGCTCTTCAATTTTCAGTAATGCATATAACGTGATGTCTTGTTCTGCATTGAA

>TRINITY_DN97159_c0_g1_i3 from sample A4 / Example unspliced isoform:

ATTTCTATCAACACGACTCTTTGTAAAGCATTATGTGGAAAAGGTTGGGCCTCTTACAGCTTATTATAAAATACCTCTTCACCATGTGCTTCTGATGTTTGATGATATGGAGTTACCGTGTGGCATATTACGGCTTAATCAAAATGGTGGACATGGAGGCCATAATGGGGTGAAGAGTGTGATGCGAGCTTTCAAAAATA
TTCAGGACTTTGCTCGTTTGCGTATTGgttagcacttactcttagaaactcacaaattagaaataaatgtatcctctagtagtgctttcaattaaacaaaatcaaaatcatacaggtgaggtacatcttcacttgtgtttacagGTATTGGCAAGCCACCCAGAAAAATGGATCCCAAGGCTTATCTGCTCCAAATATTT
AGTTCAAGTGCTCGTGAAAAGGTAAACATTGCCTTGAAAGAAGGAGTTGAAGCCGCAAGGCTTCTTACATCAGAAGGCTTTTTCGAGAGTGCTCATCACTTCAACCTAAAACAGAAGTATAAGCATCAGAAAGTTGATTACTTGGACTTTGGCAGAAAGCATTGTTAATGACATTAGTTGAATGGATATGGCTTGAGGAT
GGTTACCAGGGAGCAAACGACATACAAATGACAAACTCGCTTCTCTCCTCTGCCTGTTGAAATTCCAGGCAGTTGTCTATTTCTTGCTCTTCAATTTTCAGTAATGCATATAACGTGATGTCTTGTTCTGCATTGAA

Intron 7 GTAAGTATAA ... TTGAATGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	23.08	50	1	15
A2	30.43	16	1	7
A3	35.71	9	0	5
A4	38.46	8	0	5
A5	8	23	0	2
A6	23.29	112	0	34
A7	20.45	105	0	27
A8	20.09	175	4	44
A9	23.94	108	0	34
A10	20.57	112	0	29

>TRINITY_DN46810_c0_g2_i10 from sample A7 / Example spliced isoform

TTTCTGTGTACATATTTGCCGGATCTCAGTTTTACTTTGTAAATATGATTGGCTTTAAATATGTCTATCATAGTTAGCATGCAGAAAGTATAAAACATTGAGGTTGACAGAAATTGTCTTAGGAGGCAGATGCAAACAATAAAATTTGATATATGCTACAATATATTTCATTCTTATGTTGTCTGTCTCTATGCCATTTT
TTGTTTGGATTTTAGCAGCAGCTCCCATCACAGAAAATGCAGAAAATGCTTCAAGTACAAATCAAATTTGTAATCCCCCTTTTATTCATGCTTTGGCGGTTCCAGAAGACAATATGGATGGTAAAAATAACCAGGTTGTTGCTGCAGCAAGAGGTGACGGTACCCTTGAAATTATTGATCTCAGATCTGAGTCGCACATG
AAAGGAGTGAAAACTAAGCAGTCCTCACGTGCTAGAAAAGGATTTCAGTCCAAATCATCAAAAAATACAAATGTAAATGAGAGCAATGCAAGTGGGGAGATTACAAAAGGGATGAGGATCCAGTTAAATGCAGGTCTGGGAGGTCACACGACTGCTGCTTCCTGTGTGGCATTCTCAAGGTTTGGTGAGACTGGGAAGTT
TATTATTTCTGGCAGCAATGATGCATCTGTCAAGGTATGGAATTGGACAAAGCAGATTGGAAGTGAAGATCCTTTAAGTTCCAGCATTAATAACAAAAGAAAAGTCAATTGGTTGTGCACCACTTCACGCGATTCAGAAAACCTTATTGTCTGTGACACTTCCAAAGTTCTGAAGGCTTACACTATTTTGTGATGTAAGC

AGATTATTAATGGAGGATCTTTATTTATCATAGACTTAGGCCTTGCAATCCAGAGCTGGTACACGTCATGAATTAGATCTTCAAAGGTAGTTTTTGAACAGGATGATCAAAATGTTAAATGGATGAAATTGCTTTCATTTATCTTTTATAATGATGCTCATAGACAACACTTGCTCAAGATTTGGGGCGGAGGTAGAGTC
CTTGGGGGATGTTAAATTATTCTTCCCCTGATAATTCAGGTTAAGTCATTGTTGTCTTTGTAGTTTATGTGTCACGCAAGGATGTAATTATGGCCCCTGTGAATTTATGTTAGTGTACTCACTCAAAGAGCTTGAGTTGGGGGTTTGTGGTGTTCAACATGATTTGTAGCTTTGGTTCAGTACCCAAGTTTTTTTCGGGT
GACAATTTCAGTGTATTGCATTCCTCGACCATTGTTTTATTGACATTTCTCTGAGATCTGGGCATAGTCAATTACAGATTTTATAATTTCCTTGATTCCCTTGCGCAAATGATTCCATAAACGAAATTTTTTCTGGTGCACAATACCATAAAATGGATTTCCTTACAATCATAAATATGTTCTCATTCTTTCTATACCAA
TTGATTTTTCAAAATGGGAATAGATGGGGAATATTTGAAATAATTGTTCATTAGTAATATTGATGAATAATAATGGAAAACAAAAAAAGATTCGTATTAAAAGAATACTAGATTCGGTAAACTCGAGAAGTCCAGTTCGATCATGATCCGAACAAAGAAAGAGTTAAACGATCGAGCATTGCATAATGAGAATGAAATGC
CCACCTAGCAATTGTGTGCACATATCCATATAGATAAAGGAATATCGGGAAAAATATGGTCATCATGCATGACACAGGATCATTGCAAAAGAATTAGTTCTCATACAATTGATAACACGATCACTACAGATCCATATATGATCATCATATGGAATGGATCAATTAATCTGTCTAAAATTATTGATTAGGCAATCCGAATA
AGATCGTCAAATCAACAGGGATGATTGAGGATTTCCTAAAATAGGAGGAAGTTTGATAAAATGTCCTTTTGTCTTTCCAGGGGAGATTGAATAATTACCTTATTTATTATCTATTTTTTTCCAAAAGATGGAACTGTTCGTACCCGAACAAAAAGACTTTGTAAGGAAGTTGCTATTTACTAATTTTGTTAATGAAAAC

>TRINITY_DN46810_c0_g2_i1 from sample A7 / Example unspliced isoform:

CTTACACTATTTTGTGATgtaagtataaagctttatacacattttatggattcagacatcttttgagccttgaacaattgataggttaactgtgttgtaggatgaactcttcatatcgcaaagtatgcctgcactgcaagcttaggcatcaattacatcagatgtacgacctagtttccctattttctgtagtctagcat
taggacagtgtgttcaagtttatttacaaataatttacaaaagaagattcacaccgtgacattcaagtttgaatgcagGTAAGCAGATTATTAATGGAGGATCTTTATTTATCATAGACTTAGGCCTTGCAATCCAGAGCTGGTACACGTCATGAATTAGATCTTCAAAGGTAGTTTTTGAACAGGATGATCAAAATGTT
AAATGGATGAAATTGCTTTCATTTATCTTTTATAATGATGCTCATAGAC

Intron 8 GTAAGTATAA ... TGTGTTGTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	4.46	24	1	1
A2	5.83	16.5	1	1
A3	58.18	4	0	4
A4	16.23	10.5	0	2
A5	0	14	0	0
A6	6.55	88.5	0	6
A7	1.19	86	0	1
A8	4.01	129.5	4	5
A9	0.89	115.5	0	1
A10	4.69	66.5	0	3

>TRINITY_DN46810_c0_g2_i7 from sample A7 / Example spliced isoform

TTATCGTTATGCAGTGCCTCTTACTTTAGGTTGCTGTATTAATTTTTCATTGTAAGAAATGCAAAATGAATAGTTTGTCAGCATTCATGAAAGTAACCCTGCACCATGCCGGATATAATTTGTTCTAATTTCGATTCTCATATGCACTGAATATAATATTGTTGTGTGTTCTCTCTATGTTTTCTTTAAATATTCTTTTA
CAATTTAAGCAGGTCAATTGGTTGTGCACCACTTCACGCGATTCAGAAAACCTTATTGTCTGTGACACTTCCAAAGTTCTGAAGGCTTACACTATTTTGTGATGATGAACTCTTCATATCGCAAAGTATGCCTGCACTGCAAGCTTAGGCATCAATTACATCAGATGTAAGCAGATTATTAATGGAGGATCTTTATTTAT
CATAGACTTAGGCCTTGCAATCCAGAGCTGGTACACGTCATGAATTAGATCTTCAAAGGTAGTTTTTGAACAGGATGATCAAAATGTTAAATGGATGAAATTGCTTTCATTTATCTTTTATAATGATGCTCATAGAC

>TRINITY_DN46810_c0_g2_i1 from sample A7 / Example unspliced isoform:

CTTACACTATTTTGTGATgtaagtataaagctttatacacattttatggattcagacatcttttgagccttgaacaattgataggttaactgtgttgtagGATGAACTCTTCATATCGCAAAGTATGCCTGCACTGCAAGCTTAGGCATCAATTACATCAGATGTACGACCTAGTTTCCCTATTTTCTGTAGTCTAGCAT
TAGGACAGTGTGTTCAAGTTTATTTACAAATAATTTACAAAAGAAGATTCACACCGTGACATTCAAGTTTGAATGCAGGTAAGCAGATTATTAATGGAGGATCTTTATTTATCATAGACTTAGGCCTTGCAATCCAGAGCTGGTACACGTCATGAATTAGATCTTCAAAGGTAGTTTTTGAACAGGATGATCAAAATGTT
AAATGGATGAAATTGCTTTCATTTATCTTTTATAATGATGCTCATAGAC