sp|Q9SJ12|ATP7_ARATH ----> Probable ATP synthase 24 kDa subunit, mitochondrial

Intron 1 GTGCAATGAT ... TGTGTTATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	20.31	51	11	15
A2	17.65	35	8	7
A3	22.94	42	9	16
A4	28.57	15	7	5
A5	10.34	13	1	2
A6	17.14	58	9	15
A7	18.23	166	26	48
A8	17.39	152	28	36
A9	15.13	143	26	25
A10	16.3	113	29	15

>TRINITY_DN115348_c0_g1_i3 from sample A1 / Example spliced isoform

GTTTTACAAAGGCTTTTAAGTCCGTGTCGAATCTTTTATGTATATGTATAATAGCGTTCGAGCGGCCAAGATTACAAACTAATCAGAGAGACCAAACTCCCGAGAAGAGAGGGGACTACAGGAGGAGCAGGAAGAACAAGATCGGAAGATGGCGTCTCTTGCTCGTGCTCTGCGTCGGCCGATATCGGCAAAAAGTGGGC
AGGCACTGTCTCAAGGCAGATCAATAGGAGCAGTGCACTTTTCAACAAAAGCTCCTATGCCACCGCTTAAAGGCGATGAGTTCTTGAAGAATGCATTTTTTGAGGTGAAGAAAAAATTTGAAACGGCTTTAGGGATTTTACGGAAGGAAAAGATCACCATTGATCCTGATGATCCAAAAGCAGTGTCCCACTATGCACAG
GTCATGAAGACTGTGAGAGAAAAGATCACCATTGATCCTGATGATCCAAAAGCAGTGTCCCACTATGCACAGGTCATGAAGACTGTGAGAGAAAAGGCTGGTTTGTATTCAGAATCACAACGTATGAGCAATACAATTCGTGATTTTACAGAAGGAATTCCAGATGCTCGTTCATACTTAGAGAAATTGTCAGAAATACG

AGTAAAGAGTGGCATCAAGGATGAGATAGGTGCTGAGAAGATGATGATGGAGGCATTAGAAAAGGTAGAGAAGCAACTGAAGAAGCCATTGATGAGGTCTGACAAAAGGAGCATGACACTTCTCCAAGCTGAATTTGATGTAATAAATAAAAAACTCGGCATTCGTAAAGAGGACCTAGCTAAACTTGAGGAAGAGGTGG
AACTTGATATTGCAAAGGTACAGTTGGAGGAGATTAAGAAAGATGCAGTGGATGCTATTGAAACACACAAGAAAAGGCAAGGGGCTAAAGCTGAGGGCATAGAAGTCGATGTGAAATCTCTGGATATGCGCAACTTTCTTTGAATGTTCTTGAGGGTGTGTTTTGGATACATCAATGCCATTTATTAGAACAGCAATTGG
GCTGTGGAGATTATTTTTGAATGAAGATCTTTCCTTCTATTCATCTTTTGAGGAAAGATCAGATTCTGTTTTTTGATGCTTCCAACCTAGAATGTATCAAACCTGTGCTGTATTTGGTTGAGTCTCAGTGAACCTGAATAAGAGAGGTTATTCAATCACAACATGCCTAATGTTTGGTACATAATTGGAACAATCATTGT
GAGCTTTTGGTCAAGTGTATCATTTGCAGTATTTTTATACAACAGATCAAAAGGAATAAAAATATGAAATATAGAGAACTGTTTTGCTAAAAA

>TRINITY_DN115348_c0_g1_i2 from sample A1 / Example unspliced isoform:

TCAAGGCAATGGGTGGTTATTTGACAGATTCAGGCGAGAGTTCTTGAAGAATGCATTTTTTGAGGTGAAGAAAAAATTTGAAACGGCTTTAGGGATTTTACGGAAGGAAAAGATCACCATTGATCCTGATGATCCAAAAGCAGTGTCCCACTATGCACAGGTCATGAAGACTGTGAGAGAAAAGATCACCATTGATCCTG
ATGATCCAAAAGCAGTGTCCCACTATGCACAGGTCATGAAGACTGTGAGAGAAAAGGCTGGTTTGTATTCAGAATCACAACGTATGAGCAATACAATTCGTGATTTTACAGAAGGAATTCCAGATGCTCGTTCATACTTAGAGAAATTGTCAGAAATACGAGTAAAgtgcaatgatttgagtatcagctctttacattct
attcctcttcaagccccaaacgagttaatcacagatatgctcctttctaatgcctctgttttaagagcttagagtatattcttaaactctggtgtgattatttatttataatgttgatagaggttatggtattgctttgataaagctttgttatttgtgttatagGAGTGGCATCAAGGATGAGATAGGTGCTGAGAAGA
TGATGATGGAGGCATTAGAAAAGGTAGAGAAGCAACTGAAGAAGCCATTGATGAGGTCTGACAAAAGGAGCATGACACTTCTCCAAGCTGAATTTGATGTAATAAATAAAAAACTCGGCATTCGTAAAGAGGACCTAGCTAAACTTGAGGAAGAGGTGGAACTTGATATTGCAAAGGTACAGTTGGAGGAGATTAAGAAA
GATGCAGTGGATGCTATTGAAACACACAAGAAAAGGCAAGGGGCTAAAGCTGAGGGCATAGAAGTCGATGTGAAATCTCTGGATATGCGCAACTTTCTTTGAATGTTCTTGAGGGTGTGTTTTGGATACATCAATGCCATTTATTAGAACAGCAATTGGGCTGTGGAGATTATTTTTGAATGAAGATCTTTCCTTCTATT
CATCTTTTGAGGAAAGATCAGATTCTGTTTTTTGATGCTTCCAACCTAGAATGTATCAAACCTGTGCTGTATTTGGTTGAGTCTCAGTGAACCTGAATAAGAGAGGTTATTCAATCACAACATGCCTAATGTTTGGTACATAATTGGAACAATCATTGTGAGCTTTTGGTCAAGTGTATCATTTGCAGTATTTTTATACA
ACAGATCAAAAGGAATAAAAATATGAAATATAGAGAACTGTTTTGCTAAAAA

Intron 2 GTAATATTTG ... GATTCTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	26.74	63	23	0
A2	28.4	58	23	0
A3	14.42	89	15	2
A4	21.74	18	5	2
A5	29.41	36	15	0
A6	13.22	210	32	2
A7	13.52	499	78	3
A8	15.9	439	83	0
A9	19.28	427	102	2
A10	13.91	359	58	0

>TRINITY_DN104995_c0_g1_i3 from sample A3 / Example spliced isoform

ATTTAATAAAAAAAACCTGTTTTTGGCTTCAGGGCTGGTTTGTATTCAGAATCACAACGTATGAGCAATACAATTCGTGATTTTACAGAAGGAATTCCAGATGCTCGTTCATACTTAGAGAAATTGTCAGAAATACGAGTAAAGAGTGGCATCAAGGATGAGATAGGTGCTGAGAAGATGATGATGGAGGCATTAGAAAA
GGTAGAGAAGCAACTGAAGAAGCCATTGATGAGGTCTGACAAAAGGAGCATGACACTTCTCCAAGCTGAATTTGATGTAATAAATAAAAAACTCGGCATTCGTAAAGAGGACCTAGCTAAACTTGAGGAAGAGGTGGAACTTGATATTGCAAAGGTACAGTTGGAGGAGATTAAGAAAGATGCAGTGGATGCTATTGAAA
CACACAAGAAAAGGCAAGGGGCTAAAGCTGAGGGCATAGAAGTCGATGTGAAATCTCTGGATATGCGCAACTTTCTTTGAATGTTCTTGAGGGTGTGTTTTGGATACATCAATGCCATTTATTAGAACAGCAATTGGGCTGTGGAGATTATTTTTGAATGAAGATCTTTCCTTCTATTCATCTTTTGAGGAAAGATCAGA
TTCTGTTTTTTGATGCTTCCAACCTAGAATGTATCAAACCTGTGCTGTATTTGGTTGAGTCTCAGTGAACCTGAATAAGAGAGGTTATTCAATCACAACATGCCTAATGTTTGGTACATAATTGGAACAATCATTGTGAGCTTTTGGTCAAGTGTATCATTTGCAGTATTTTTATACAACAGATCAAAAGGAATAAAAAT
ATGAAATATAGAGAACTGTTTTGCTG

>TRINITY_DN104995_c0_g1_i1 from sample A3 / Example unspliced isoform:

GCGGCCAAGATTACAAACTAATCAGAGAGACCAAACTCCCGAGAAGAGAGGGGACTACAGGAGGAGCAGGAAGAACAAGATCGGAAGATGGCGTCTCTTGCTCGTGCTCTGCGTCGGCCGATATCGGCAAAAAGTGGGCAGGCACTGTCTCAAGGCAGATCAATAGGAGCAGTGCACTTTTCAACAAAAGCTCCTATGCC
ACCGCTTAAAGGCGATGAGTTCTTGAAGAATGCATTTTTTGAGGTGAAGAAAAAATTTGAAACGGCTTTAGGGATTTTACGGAAGGAAAAGATCACCATTGATCCTGATGATCCAAAAGCAGTGTCCCACTATGCACAGGTCATGAAGACTGTGAGAGAAAAGGCTGGTTTGTATTCAGAATCACAACGTATGAGCAATA
CAATTCGTGATTTTACAGAAGGAATTCCAGATGCTCGTTCATACTTAGAGAAATTGTCAGAAATACGAGTAAAGAGTGGCATCAAGGATGAGATAGGTGCTGAGAAGATGATGATGGAGGCATTAGAAAAGGTAGAGAAGCAACTGAAGAAGCCATTGATGAGGTCTGACAAAAGGAGCATGACACTTCTCCAAGCTGAA
TTTGATGTAATAAATAAAAAACTCGGCATTCGTAAAGAGGACCTAGCTAAACTTGAGGAAGAGGTGGAACTTGATATTGCAAAGGTACAGTTGGAGGAGATTAAGAAAGATGCAGTGGATGCTATTGAAACACACAAGAAAAGgtaatatttgctttcatgaatgtatgcttctttttagagggattttatcttgtcaat
gtaacttatggttgaattgaattttctgtttaaaaaaaaagaatttggcacattactactagggatggatttgttcttttgaattaatatttacctggtgcaacccaacttccatgatatagatgagctatgcatacaagtcccttttgttttctgcttatgtataaagacttttagaaagatggttcaactattgcata
ctgtagcatttgtagaatcttattgcctagtatggcccagcagcaatacatgtaactagtgcgttggattctgcagGCAAGGGGCTAAAGCTGAGGG

Intron 3 GTAATATTTG ... GATTCTGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	23.13	61.5	23	14
A2	22.3	57.5	23	10
A3	16.43	89	15	20
A4	25.55	17.5	5	7
A5	20	36	15	3
A6	13.18	207.5	32	31
A7	13.16	495	78	72
A8	13.45	437.5	83	53
A9	15.48	423	102	53
A10	14.61	356.5	58	64

>TRINITY_DN122892_c2_g2_i2 from sample A2 / Example spliced isoform

ACTCGGCATTCGTAAAGAGGACCTAGCTAAACTTGAGGAAGAGGTGGAACTTGATATTGCAAAGGTACAGTTGGAGGAGATTAAGAAAGATGCAGTGGATGCTATTGAAACACACAAGAAAAGGCAAGGGGCTAAAGCTGAGGGCATAGAAGTCGATGTGAAATCTCTGGATATGCGCAACTTTCTTTGAATGTTCTTGA
GGGTGTGTTTTGGATACATCAATGCCATTTATTAGAACAGCAATTGGGCTGTGGAGATTATTTTTGAATGAAGATCTTTCCTTCTATTCATCTTTTGAGGAAAGATCAGATTCTGTTTTTTGATGCTTCCAACCTAGAATGTATCAAACCTGTGCTGTATTTGGTTGAGTCTCATGAAGTGTTTAAACCAAATGTACCTG
ATGGCGAAGAGCTTTTGAAGGCTATACAAAATGCACAGATTGTTTTGTAATGGAATTCTGAATATGGAATATACGGTTTCACA

>TRINITY_DN122892_c2_g2_i1 from sample A2 / Example unspliced isoform:

CACATTTAGAGAGGTAATGGTGTGGTTGTTTGAGACCGAAGTATAAATTTTTTTGTAATAACTTGTACAATTATTTGTACTGCAATTGTATGAAGTAAGATGTTTCATAACCACAATATGATGGATATATCATAAGAACTGCATACACTATGATATTGACTGTACTTTCATGTCTTCTATGATCTGCACAACATAGACTC
GGCATTCGTAAAGAGGACCTAGCTAAACTTGAGGAAGAGGTGGAACTTGATATTGCAAAGGTACAGTTGGAGGAGATTAAGAAAGATGCAGTGGATGCTATTGAAACACACAAGAAAAGgtaatatttgctttcatgaatgtatgcttctttttagagggattttatcttgtcaatgtaacttatggttgaattgaattt
tctgttttaaaaaaaaagaatttggcacattactactagggatggatttgttcttttgaattaatatttacctggtgcaacccaacttccatgatatagatgagctatgcatacaagtcccttttgttttctgcttatgtataaagacttttagaaagatggttcaactattgcatactgtagcatttgtagaatcttat
tgcctagtatggcccagcagcaatacatgtaactagtgcgttggattctgcagGCAAGGGGCTAAAGCTGAGGGCATAGAAGTCGATGTGAAATCTCTGGATATGCGCAACTTTCTTTGAATGTTCTTGAGGGTGTGTTTTGGATACATCAATGCCATTTATTAGAACAGCAATTGGGCTGTGGAGATTATTTTTGAATG
AAGATCTTTCCTTCTATTCATCTTTTGAGGAAAGATCAGATTCTGTTTTTTGATGCTTCCAACCTAGAATGTATCAAACCTGTGCTGTATTTGGTTGAGTCTCAGTGAACCTGAATAAGAGAGGTTATTCAATCACAACATGCCTAATGTTTGGTACATAATTGGAACAATCATTGTGAGCTTTTGGTCAAGTGTATCAT
TTGCAGTATTTTTATACAACAGATCAAAAGGAATAAAAATATGAAATATAGAGAACTGTTCTG