sp|Q9CA58|PP120_ARATH ----> Putative pentatricopeptide repeat-containing protein At1g74580

Intron 1 GTGTGTTCCA ... AACATGACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	21.21	13	6	1
A2	33.33	2	2	0
A3	0	1	0	0
A4	42.86	4	3	3
A5	33.33	1	0	1
A6	12	11	0	3
A7	20.83	19	7	3
A8	25.93	20	10	4
A9	9.68	14	3	0
A10	20	4	1	1

>TRINITY_DN81597_c0_g1_i1 from sample A4 / Example spliced isoform

ACCCTAGCAAATCACTCCAAGAAGATAAGTACAAAGAGAAGAGTATGATAAGGATAATGAATGCAAGGACTCTCTCCTGCCTTTGTAGATATACGAGATGTAAGGGAGGCCAACAATACAATGGGGGCCTAAGCCAAATTGTTTTCAACTTGGTCTTAAGAAAGGTTCTCAGTTAGACATGAAAAGTTAAGTTGGCCTTA
GTCAGGTTGTTAACGCACTAAGCCTTCCAACTTGAAATGAGAATAATTTGAAAGATATATGAACTTCATTGTGAGTTCATTGCACAAGTTAAGGGATACACTCTCTTCCCTCTTTTGCCTCCATGGTAGAAGCTGTGTGACAAGTTGGTCTATATGTGGGCTCTTTACAAGTTTGCCCACCGGGGTTTGAACCTGGGTCG
TTAATGCAGCGACACCTCATCTCAACCACGCCATAGGCCAATGGACTATGCCATTTATCTTGTTGAATTGCATTCAAACAAAGTTCATAGCATTTCCAGCAAGGATTTCTCATGAGGCATTATGGATATGCTCAAGTCTAATGCTGAACTGAGGATCCTGTCAAGAGGAGTTTCCCAACGGTATTCTTGTTCACAACTGG
ATATACATTGCAGGAGTTATCTATTGATTGGCAGGACATTTTCCAC

>TRINITY_DN81597_c0_g1_i2 from sample A4 / Example unspliced isoform:

ACCCTAGCAAATCACTCCAAGAAGATAAGTACAAAGAGAAGAGTATGATAAGGATAATGAATGCAAGGACTCTCTCCTGCCTTTGTAGATATACGAGATGTAAGGGAGGCCAACAATACAATGGGGGCCTAAGCCAAATTGTTTTCAACTTGGTCTTAAGAAAGGTTCTCAGTTAGACATGAAAAGTTAAGTTGGCCTTA
GTCAGGTTGTTAACGCACTAAGCCTTCCAACTTGAAATGAGAATAATTTGAAAGATATATGAACTTCATTGTGAGTTCATTGCACAAGTTAAGGGATACACTGCCTTCCCTCTTTTGCCTCCATGGTAGAAGCTGTGTGACAAGTTGGTCTATATGTGGGCTCTTTACAAGTTTGCCCACCGGGGTTTGAACCTGGGTCA
TTAATGGAGCAACACCTCATCTCAACCACGCCATAGGCCAATGGACTATGCCATTTATCTTGTTGAATTGCATTCAAACAAAGTTCATAGCATTTCCAGCAAGGATTTCTCATGAGGCATTATGGATATGCTCAAGgtgtgttccattgggttatcaaaatttgggattccatttaattgaatgtttatcaatttgtcta
tcaatagaggcttttgtgatgttatgaaccaaaatatatcaaggttaaatttgtagaaaatgttgttcaaagatataaaaggcctaaggccctaatccatatacatgcatgcgcaacatgacagTCTAATGCTGAACTGAGGATCCTGTCAAGAGGAGTTTCCCAACGGTATTCTTGTTCACAACTGGATATACATTGCA
GGAGTTATCTATTGATTGGCAGGACATTTTCCAC

Intron 2 GTAAGAATAT ... ATAATTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	40	12	8	8
A2	50	8	11	5
A3	28.57	5	2	2
A4	30.43	8	5	2
A5	25	6	4	0
A6	15.79	16	2	4
A7	16.13	13	1	4
A8	35	13	3	11
A9	20	6	1	2
A10	16.28	18	2	5

>TRINITY_DN124201_c3_g2_i2 from sample A1 / Example spliced isoform

AGGAGATGCAATAATGAATGAGAAGGACTCATTCCTTCCTCTATTTATATGAGAGGTAAGGGAGGCCAACAATACAATGGGGGCCTAAGCCAAATTGTTTTCAACTTGGTCTTAAGAAAGGTTCTCAGTTAGACATGAAAAGTTAAGTTGGCCTTAGTCAGGTTGTTAACGCACTAAGCCTTCCAACTTGAAATGAGAAT
AATTTGAAAGATATATGAACTTCATTGTGAGTTCATTGCACAAGTTAAGGGATACACTCTCTTCCCTCTTTTGCCTCCATGGTAGAAGCTGTGTGACAAGTTGGTCTATATGTGGGCTCTTTACAAGTTTGCCCACCGGGGTTTGAACCTGGGTCGTTAATGCAGCGACACCTCATCTCAACCACGCCATAGGCCAATGG
ACTATGCCATTTATCTTGTTGAATTGCATTCAAACAAAGTGAGTTTGAACATTCTTTAATATAGAAGAGACCCTTCAATGGTTCAGTTTTAAAGCCTTAGCATTTTCTTTATCTTTTGCTTTGACATACTCGTGCTTTGGTTGTTCAGGTTCATAGCATTTCCAGCAAGGATTTCTCATGAGGCATTATGGATATGCTCA
AGGTGTGTTCCATTGGGTTATCAAAATTTGGGATTCCATTTAATTGAATGTTTATCAATTTGTCTATCAATAGAGGCTTTTGTGATGTTATGAACCAAAATATATCAAGGTTAAATTTGTAGAAAATGTTGTTCAAAGATATAAAAGGCCTAAGGCCCTAATCCATATACATGCATGTGCAACATGACAG

>TRINITY_DN124201_c3_g2_i1 from sample A1 / Example unspliced isoform:

AGGAGATGCAATAATGAATGAGAAGGACTCATTCCTTCCTCTATTTATATGAGAGGTAAGGGAGGCCAACAATACAATGGGGGCCTAAGCCAAATTGTTTTCAACTTGGTCTTAAGAAAGGTTCTCAGTTAGACATGAAAAGTTAAGTTGGCCTTAGTCAGGTTGTTAACGCACTAAGCCTTCCAACTTGAAATGAGAAT
AATTTGAAAGATATATGAACTTCATTGTGAGTTCATTGCACAAGTTAAGGGATACACTCTCTTCCCTCTTTTGCCTCCATGGTAGAAGCTGTGTGACAAGTTGGTCTATATGTGgtaagaatattactgctatttatctttttcttctcctttttttcttcttcttttctaatttttttattgaattagtgcttcataga
atcctgtcaaacttagcctactgataattacagGGCTCTTTACAAGTTTGCCCACCGGGGTTTGAACCTGGGTCGTTAATGCAGCGACACCTCATCTCAACCACGCCATAGGCCAATGGACTATGCCATTTATCTTGTTGAATTGCATTCAAACAAAGTTCATAGCATTTCCAGCAAGGATTTCTCATGAGGCATTATGG
ATATGCTCAAGGTGTGTTCCATTGGGTTATCAAAATTTGGGATTCCATTTAATTGAATGTTTATCAATTTGTCTATCAATAGAGGCTTTTGTGATGTTATGAACCAAAATATATCAAGGTTAAATTTGTAGAAAATGTTGTTCAAAGATATAAAAGGCCTAAGGCCCTAATCCATATACATGCATGTGCAACATGACAG

Intron 3 GTAAGAATAT ... ATAATTACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	40	12	8	8
A2	50	8	11	5
A3	28.57	5	2	2
A4	33.64	7	5	2
A5	25	6	4	0
A6	15.79	16	2	4
A7	16.13	13	1	4
A8	31.58	13	3	9
A9	20	6	1	2
A10	16.28	18	2	5

>TRINITY_DN110430_c1_g1_i3 from sample A2 / Example spliced isoform

GACATAATAACATACAACACAGTATTGGATGGGCTCTGCAAGGAAAGAAAAGCTGATGAGGTATTGGAAATATACAAAGAAATGTTGGCCAAAGGTTGTGTTCCAAATGTCATCACTTACAACATAGTAATAGAAAGTCTTTGCAAGGCACTCAGGGTCAAAGAGGCTACTCAGTTATTTGAGAAGATGTTGGGTGAAGG
TTGCACTCCAGATGTGGTCAGCTGTAGCACACTAATCCATGGCTTCTGTAAAAATGGTTGCCTCAAGGAGGCATGTCAACTTCTGAGAAGGATGAAAATTCTGAAAATTGTCCCTACTGTAGCAACCTACAACATTCTCATATATGCATTCTGTAATAAGTTGAAAATTCGTATGGCCACCAAGGTTTTCCATGAGATGG
TAAAGAGGGGCTGTGTTCCAGATGTTTTTACTTACAGTGTGCTAGTTGATGGCTTCTGTAAGACAGGTAATATAGACTCCAGTTATGATTTTCTTATTGAAATGTTGAACAAGGAACTCATTCCATCTACTATTACATTTGGTCGAGTGATAAATTGCCTTTGTAAGAGTTACAGGGTACAGGAGGCAGTTGGTATCGTT
TACACCATGGTGAATAAGGGTATCGTTCCAGATATTGTTGAATCAATCTTTGACGTTGATAAGAAAGAGGTGGCAGCCCCAAAGATCCTTTTGGAGGATATGTTGATGAAAGGACTTGTGACTTACCAGGCATATGATCTGCTTTTTAAAGGAATAAGAGAGAAGAAAAAGTATAGAAGTAACCTGAAATGCTAATCAAA
GGTGTAAACTGTATCACCTTAATTCATATACCAATGGATTCTGAGCTTAAACATTTCAAAATGGAAATGTTATGCTTTGATAGTCTTATCAGTGAGTGAATGATAACATTATCATTTCCAATGTCTCCTTTACAAGGGCAAACCCTAGTCATAAGAGCAAACTCAAAACGGAAACGTTCTCTTTCCCTTCCATAGCTTCT
CTTAGGGTTTCCTCATAAAGAAGACAAGTACAAAGAGGAGATGCAATAATGAATGAGAAGGACTCATTCCTTCCTCTATTTATATGAGAGGTAAGGGAGGCCAACAATACAATGGGGGCCTAAGCCAAATTGTTTTCAACTTGGTCTTAAGAAAGGTTCTCAGTTAGACATGAAAAGTTAAGTTGGCCTTAGTCAGGTTG
TTAACGCACTAAGCCTTCCAACTTGAAATGAGAATAATTTGAAAGATATATGAACTTCATTGTGAGTTCATTGCACAAGTTAAGGGATACACTGCCTTCCCTCTTTTGCCTCCATGGTAGAAGCTGTGTGACAAGTTGGTCTATATGTGGGCTCTTTACAAGTTTGCCCACCGGGGTTTGAACCTGGGTCGTTAATGCAG
CGACACCTCATCTCAACCACGCCATAGGCCAATGGACTATGCCATTTATCTTGTTGAATTGCATTCAAACAAAGTGAGTTTGAACATTCTTTAATATAGAAGAGAC

>TRINITY_DN110430_c1_g1_i2 from sample A2 / Example unspliced isoform:

GACATAATAACATACAACACAGTATTGGATGGGCTCTGCAAGGAAAGAAAAGCTGATGAGGTATTGGAAATATACAAAGAAATGTTGGCCAAAGGTTGTGTTCCAAATGTCATCACTTACAACATAGTAATAGAAAGTCTTTGCAAGGCACTCAGGGTCAAAGAGGCTACTCAGTTATTTGAGAAGATGTTGGGTGAAGG
TTGCACTCCAGATGTGGTCAGCTGTAGCACACTAATCCATGGCTTCTGTAAAAATGGTTGCCTCAAGGAGGCATGTCAACTTCTGAGAAGGATGAAAATTCTGAAAATTGTCCCTACTGTAGCAACCTACAACATTCTCATATATGCATTCTGTAATAAGTTGAAAATTCGTATGGCCACCAAGGTTTTCCATGAGATGG
TAAAGAGGGGCTGTGTTCCAGATGTTTTTACTTACAGTGTGCTAGTTGATGGCTTCTGTAAGACAGGTAATATAGACTCCAGTTATGATTTTCTTATTGAAATGTTGAACAAGGAACTCATTCCATCTACTATTACATTTGGTCGAGTGATAAATTGCCTTTGTAAGAGTTACAGGGTACAGGAGGCAGTTGGTATCGTT
TACACCATGGTGAATAAGGGTATCGTTCCAGATATTGTTGAATCAATCTTTGACGTTGATAAGAAAGAGGTGGCAGCCCCAAAGATCCTTTTGGAGGATATGTTGATGAAAGGACTTGTGACTTACCAGGCATATGATCTGCTTTTTAAAGGAATAAGAGAGAAGAAAAAGTATAGAAGTAACCTGAAATGCTAATCAAA
GGTGTAAACTGTATCACCTTAATTCATATACCAATGGATTCTGAGCTTAAACATTTCAAAATGGAAATGTTATGCTTTGATAGTCTTATCAGTGAGTGAATGATAACATTATCATTTCCAATGTCTCCTTTACAAGGGCAAACCCTAGTCATAAGAGCAAACTCAAAACAGAAATGTTCTCTTTCCCTTCCATAGCTTCT
CTTAGGGTTTCCTCATAAAGAAGACAAGTACAAAGAGGAGATGCAATAATGAATGAGAAGGACTCATTCCTTCCTCTATTTATATGAGAGGTAAGGGAGGCCAACAATACAATGGGGGCCTAAGCCAAATTGTTTTCAACTTGGTCTTAAGAAAGGTTCTCAGTTAGACATGAAAAGTTAAGTTGGCCTTAGTCAGGTTG
TTAACGCACTAAGCCTTCCAACTTGAAATGAGAATAATTTGAAAGATATATGAACTTCATTGTGAGTTCATTGCACAAGTTAAGGGATACACTCTCTTCCCTCTTTTGCCTCCATGGTAGAAGCTGTGTGACAAGTTGGTCTATATGTGgtaagaatattactgctatttatctttttcttctccttcttcttcttcttc
ttttctaatttttttattgaattagtgcttcatagaatcctgtcaaactcagcctaccgataattacagGGCTCTTTACAAGTTTGCCCACCGGGGTTTGAACCTGGGTCGTTAATGCAGCGACACCTCATCTCAACCACGCCATAGGCCAATGGACTATGCCATTTATCTTGTTGAATTGCATTCAAACAAAGTGAGTT
TGAACATTCTTTAATATAGAAGAGAC

Intron 4 GTGAGTTTGA ... GGTTGTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	42.86	6	2	7
A2	41.18	5	7	0
A3	16.67	5	2	0
A4	33.33	6	3	3
A5	0	1	0	0
A6	20	10	5	0
A7	17.24	12	4	1
A8	18.18	18	6	2
A9	5.26	9	1	0
A10	26.32	7	5	0

>TRINITY_DN124201_c3_g2_i1 from sample A1 / Example spliced isoform

AGGAGATGCAATAATGAATGAGAAGGACTCATTCCTTCCTCTATTTATATGAGAGGTAAGGGAGGCCAACAATACAATGGGGGCCTAAGCCAAATTGTTTTCAACTTGGTCTTAAGAAAGGTTCTCAGTTAGACATGAAAAGTTAAGTTGGCCTTAGTCAGGTTGTTAACGCACTAAGCCTTCCAACTTGAAATGAGAAT
AATTTGAAAGATATATGAACTTCATTGTGAGTTCATTGCACAAGTTAAGGGATACACTCTCTTCCCTCTTTTGCCTCCATGGTAGAAGCTGTGTGACAAGTTGGTCTATATGTGGTAAGAATATTACTGCTATTTATCTTTTTCTTCTCCTTTTTTTCTTCTTCTTTTCTAATTTTTTTATTGAATTAGTGCTTCATAGA
ATCCTGTCAAACTTAGCCTACTGATAATTACAGGGCTCTTTACAAGTTTGCCCACCGGGGTTTGAACCTGGGTCGTTAATGCAGCGACACCTCATCTCAACCACGCCATAGGCCAATGGACTATGCCATTTATCTTGTTGAATTGCATTCAAACAAAGTTCATAGCATTTCCAGCAAGGATTTCTCATGAGGCATTATGG
ATATGCTCAAGGTGTGTTCCATTGGGTTATCAAAATTTGGGATTCCATTTAATTGAATGTTTATCAATTTGTCTATCAATAGAGGCTTTTGTGATGTTATGAACCAAAATATATCAAGGTTAAATTTGTAGAAAATGTTGTTCAAAGATATAAAAGGCCTAAGGCCCTAATCCATATACATGCATGTGCAACATGACAG

>TRINITY_DN124201_c3_g2_i2 from sample A1 / Example unspliced isoform:

AGGAGATGCAATAATGAATGAGAAGGACTCATTCCTTCCTCTATTTATATGAGAGGTAAGGGAGGCCAACAATACAATGGGGGCCTAAGCCAAATTGTTTTCAACTTGGTCTTAAGAAAGGTTCTCAGTTAGACATGAAAAGTTAAGTTGGCCTTAGTCAGGTTGTTAACGCACTAAGCCTTCCAACTTGAAATGAGAAT
AATTTGAAAGATATATGAACTTCATTGTGAGTTCATTGCACAAGTTAAGGGATACACTCTCTTCCCTCTTTTGCCTCCATGGTAGAAGCTGTGTGACAAGTTGGTCTATATGTGGGCTCTTTACAAGTTTGCCCACCGGGGTTTGAACCTGGGTCGTTAATGCAGCGACACCTCATCTCAACCACGCCATAGGCCAATGG
ACTATGCCATTTATCTTGTTGAATTGCATTCAAACAAAgtgagtttgaacattctttaatatagaagagacccttcaatggttcagttttaaagccttagcattttctttatcttttgctttgacatactcgtgctttggttgttcagGTTCATAGCATTTCCAGCAAGGATTTCTCATGAGGCATTATGGATATGCTCA
AGGTGTGTTCCATTGGGTTATCAAAATTTGGGATTCCATTTAATTGAATGTTTATCAATTTGTCTATCAATAGAGGCTTTTGTGATGTTATGAACCAAAATATATCAAGGTTAAATTTGTAGAAAATGTTGTTCAAAGATATAAAAGGCCTAAGGCCCTAATCCATATACATGCATGTGCAACATGACAG