sp|Q9SZ52|PP344_ARATH ----> Pentatricopeptide repeat-containing protein At4g31850, chloroplastic

Intron 1 GTATTCCCTT ... TGTAATTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	60.98	16	24	26
A2	63.44	17	26	33
A3	68.29	13	27	29
A4	61.82	21	32	36
A5	70.73	6	19	10
A6	77.78	1	4	3
A7	51.72	7	7	8
A8	66.67	1	2	2
A9	85.71	1	5	7
A10	44.83	8	7	6

>TRINITY_DN47983_c1_g5_i2 from sample A10 / Example spliced isoform

TAGAAATCGGTGGTCGAAAACAGAAAGCAGGTCCGGCCAGTCGCTAAAGATAACGTCCCTTCATGAATTTCACTGGATATCTTCGAGACCGAGCCAATCCAAATAGACACTGACATATAGCATTAGCCGAAGTTAACCGGGGCAGGAGTGATGGAGACATGCTTAATAGAAATTTCCAATGGAGGACAAGTGGAGTTGTT
CTGTAGTTGTACAGATAGAGCAGGAGTAGGAGGAGGGTCTGCTGCAGTGGGGTACTTTGGGTTCAAAAGACGAACAAAAACAAGTGGTTCATTAGCTTTTAATTTGTGTTCCATGAAGGTCTCTTGCGTACAAACTGTACTTGCAATTAACGCGCATCCAAATCCCAAAACTAATATGACTTACACGCTAATGCATCAGG
CTGGTACTGCCAGTGGGTTAACTTCCGACCATGTAATACAAGTCCTTAAATCACATTCTGATCCAGAGCAGGCATTGGGTTTTTTCTTCTGGGCTGCCAGACAAAAACAGTTTATGCACACCACAGATTCCTACAACTCCATGCTAAAAATCCTGGGAAGAACCCACAAGGTCAAGGAAATGGCATATGTTTTAGATTTG
ATGCAAACTCAACGCTGTAGACTTAATTCCCAGACCTATTTAATAATTCTCCGCAACCTCGGAATAGCAGGAGGTATAGAGCAAGTTCCTCAAGCCCTGGATGAGATGAAGAAATCCGGGCTTATGCTGAGTGGCTTTGCTTACAATGGTCTCATAGGATTACTGATCAAATCAGGCTTTCGGGAAGAAGCCATGGTGGT
GTACAGGAAGATGATATCAGAAGGATTGTTGCCCAGCCTAAAATGTTATTCTGTACTAATGGGTGCCTGTGGAGAAAAGGGCGATACGGGGCAGGTGATGGGACTACTAGCTGAAATGCGAAAACATGGCTTGAGACCCAACCTGTACACCTTCACACTCTGCATAAAGATCCACGGGAGAGCTGGCAAGGTAGATGAAG
CATGCGGCCTGTGGAGACAAATGAAGGAGGAGGGCTGCAAACCTGATGTCGTGGCTTTCACCACATTAATGGCTGCTCTCAGCAATGCAGGCAGATTGGATGAGGCGGCAGCATTACTGAAAGAGATGAGAAGCAGCAAATGTAGGCCTGATTCTATCACATACAATACTTTGATAGATAA

>TRINITY_DN47983_c1_g5_i3 from sample A10 / Example unspliced isoform:

TAGAAATCGGTGGTCGAAAACAGAAAGCAGGTCCGGCCAGTCGCTAAAGATAACGTCCCTTCATGAATTTCACTGGATATCTTCGAGACCGAGCCAATCCAAATAGACACTGACATATAGCATTAGCCGAAGgtattcccttgcctctgaacttcatgctctccatgcaaactttgaatgggttattctgattgtgttca
atgtttttttcactctctgaaaaatctatttccattttagacagtaaactattgggcccattgaattgctgtaatttagTTAACCGGGGCAGGAGTGATGGAGACATGCTTAATAGAAATTTCCAATGGAGGACAAGTGGAGTTGTTCTGTAGTTGTACAGATAGAGCAGGAGTAGGAGGAGGGTCTGCTGCAGTGGGGT
ACTTTGGGTTCAAAAGACGAACAAAAACAAGTGGTTCATTAGCTTTTAATTTGTGTTCCATGAAGGTCTCTTGCGTACAAACTGTACTTGCAATTAACGCGCATCCAAATCCCAAAACTAATATGACTTACACGCTAATGCATCAGGCTGGTACTGCCAGTGGGTTAACTTCCGACCATGTAATACAAGTCCTTAAATCA
CATTCTGATCCAGAGCAGGCATTGGGTTTTTTCTTCTGGGCTGCCAGACAAAAACAGTTTATGCACACCACAGATTCCTACAACTCCATGCTAAAAATCCTGGGAAGAACCCACAAGGTCAAGGAAATGGCATATGTTTTAGATTTGATGCAAACTCAACGCTGTAGACTTAATTCCCAGACCTATTTAATAATTCTCCG
CAACCTCGGAATAGCAGGAGGTATAGAGCAAGTTCCTCAAGCCCTGGATGAGATGAAGAAATCCGGGCTTATGCTGAGTGGCTTTGCTTACAATGGTCTCATAGGATTACTGATCAAATCAGGCTTTCGGGAAGAAGCCATGGTGGTGTACAGGAAGATGATATCAGAAGGATTGTTGCCCAGCCTAAAATGTTATTCTG
TACTAATGGGTGCCTGTGGAGAAAAGGGCGATACGGGGCAGGTGATGGGACTACTAGCTGAAATGCGAAAACATGGCTTGAGACCCAACCTGTACACCTTCACACTCTGCATAAAGATCCACGGGAGAGCTGGCAAGGTAGATGAAGCATGCGGCCTGTGGAGACAAATGAAGGAGGAGGGCTGCAAACCTGATGTCGTG
GCTTTCACCACATTAATGGCTGCTCTCAGCAATGCAGGCAGATTGGATGAGGCGGCAGCATTACTGAAAGAGATGAGAAGCAGCAAATGTAGGCCTGATTCTATCACATACAATACTTTGATAGATAA

Intron 2 GTATTCCCTT ... TCCATTTTAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	54.36	17	23.5	17
A2	60	18	26	28
A3	66.67	13	27	25
A4	68.78	15	32	34
A5	54.1	14	19	14
A6	37.5	5	4	2
A7	44	7	7	4
A8	50	2	2	2
A9	68.42	3	5	8
A10	28.57	10	7	1

>TRINITY_DN24599_c0_g1_i2 from sample A8 / Example spliced isoform

AAATCGGTGGTCGAAAACAGAAAGCAGGTCCGGCCAGTTGCTAAAGATAACGTCCCTTCATGAATTTCACTGGATATCTTCGAGACCGAGCCAATCCAAATAGACACTGACATATAGCATTAGCCGAAGACAGTAAACTATTGGGCCCATTGAATTGCTGTAATTTAGTTAACCGGGGCAGGAGTGATGGAGACATGCTT
AATAGAAATTTCCAATGGAGGACAAGTGGAGTTGTTCTGTAGTTGTACAGATAGAGCAGGAGTAGGAGGAGGGTCTGCTGCAGTGGGGTACTTTGGGTTCAAAAGACGAACAAAAACAAGTGGTTCATTAGCTTTTAATTTGTGTTCCATGAAGGTCTCTTGCGTACAAACTGTACTTGCAATTAACGCGCATCCAAATC
CCAAAACTAATATGACTTACACGCTAATGCATCAGGCTGGTACTGCCAGTGGGTTAACTTCCGACCATGTAATACAAGTCCTTAAATCACATTCTGATCCAGAGCAGGCATTGGGTTTTTTCTTCTGGGCTGCCAGACAAAAACAGTTTATGCACACCACAGATTCCTACAACTCCATGCTAAAAATCCTGGGAAGAACC
CACAAGGTCAAGGAAATGGCATATGTTTTAGATTTGATGCAAACTCAACGCTGTAGACTTAATT

>TRINITY_DN24599_c0_g1_i1 from sample A8 / Example unspliced isoform:

AAATCGGTGGTCGAAAACAGAAAGCAGGTCCGGCCAGTTGCTAAAGATAACGTCCCTTCATGAATTTCACTGGATATCTTCGAGACCGAGCCAATCCAAATAGACACTGACATATAGCATTAGCCGAAGgtattcccttgcctctgaacttcatgctctccatgcaaactttgaatgggttattctgattgtgttcaatg
tttttttcactctctgaaaaatctatttccattttagACAGTAAACTATTGGGCCCATTGAATTGCTGTAATTTAGTTAACCGGGGCAGGAGTGATGGAGACATGCTTAATAGAAATTTCCAATGGAGGACAAGTGGAGTTGTTCTGTAGTTGTACAGATAGAGCAGGAGTAGGAGGAGGGTCTGCTGCAGTGGGGTACT
TTGGGTTCAAAAGACGAACAAAAACAAGTGGTTCATTAGCTTTTAATTTGTGTTCCATGAAGGTCTCTTGCGTACAAACTGTACTTGCAATTAACGCGCATCCAAATCCCAAAACTAATATGACTTACACGCTAATGCATCAGGCTGGTACTGCCAGTGGGTTAACTTCCGACCATGTAATACAAGTCCTTAAATCACAT
TCTGATCCAGAGCAGGCATTGGGTTTTTTCTTCTGGGCTGCCAGACAAAAACAGTTTATGCACACCACAGATTCCTACAACTCCATGCTAAAAATCCTGGGAAGAACCCACAAGGTCAAGGAAATGGCATATGTTTTAGATTTGATGCAAACTCAACGCTGTAGACTTAATT