sp|Q9FFZ1|PPH_ARATH ----> Pheophytinase, chloroplastic

Intron 1 GTAAGTCTTT ... TGTAGACCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	60.65	61	52	94
A2	41.59	66	39	47
A3	55.11	79	49	97
A4	51.19	82	58	86
A5	53.28	57	11	65
A6	52.9	268	37	301
A7	56.59	257	45	335
A8	51.99	145	7	157
A9	50	246	41	246
A10	57.48	199	55	269

>TRINITY_DN131376_c0_g3_i4 from sample A1 / Example spliced isoform

GTCTGGGACAAGCCAAGCCGACCCGGAAAGTTTCAGTTGAGCACAATCCAACACGGAACGCGGACGCTGATTTTCTTGAGGGTTCCGTGTTCGAATACTGTAATAGGTGAGCCAGTTTATGTTGTGGGTAACTCACTAGGAGGATTTGTGGGATTGTACTTTGCTGCATGCAATCCTCAACTAGTAAAGGGAATAACATT
GCTAAATGCAACACCGTTTTGGGCATTTATTCCTAATCCTTCAAGGTCACCAAGAGTAGCAAAACTGTTTCCCTGGTCCGGCAATTTTCCTCTGCCTGCTCGTGCAAAAAA

>TRINITY_DN131376_c0_g3_i6 from sample A1 / Example unspliced isoform:

GTCTGGGACAAGCCAAGCCGACCCGGAAAGTTTCAGTTGAGCACAATCCAACACGGAACGCGGACGCTGATTTTCTTGAGGGTTCCGTGTTCGAATACTgtaagtcttttcttcgtagtcctagctaccacaaaatatcagcacttgtaactataaatgcagaagaatttgctcagtaaactttaaatctccgaatattg
aggaaaacagtacactccgaatattgccattatcagctttgtatcataagtttggatgagtttgaacagtagtttcggaattgtggtttcgaatcgcggccaaacgaactgattctttgcagccgaggacgacttcaaatttcaattcagttcgcggtaaagctgttcatatatacgattgaaattggtagatttgtggt
caccgttgatgaatgacgctgaattctttaatattcctcctaagttgtaaagttgtttaaatataggataaatattggcagatttatcgtaaacgttgataatggcggttgaattcgctaatatcccccgtaggcttcctggggttaagtctggtggcaatttgaaagcttatttagttcctttgcagtccgtagcctac
tcttggtctccttctgttgcttctttccggatcgctaagacgaagcttgtaaaatccctgcgaggtaaggcttcgggagggtccaaaaggggttttagtcctaaacatagagttagatgcaaacctcttgcattaaatgctaaagaacgtcttgaacgtcctaaagggggtccggaagaagcaattgagcaatatgagcg
gtatactgtggcgtttgaggaaaatgatactattagcagagaaaactacgaggagctttccacggcttttacatctgctatttcttcaatggaatctttaattgatagctattattttgctgaagcaagaaaaagtttaaacaagaacttatcggtggaacctcctaaagttgaaagtcccattgaaaaaaagccaccta
cactggttaggattcccagcttgccagatggcaatcgtggttctccgatcgaaagctgtttatgggagtggaagtataaatggactgttcattatgagaaggcagggtcgcagaatacagatgctccggcagtgctctttttgcctgggtttggtgtggggtcttttcattatgaaaatcaattgcgtgacctaggacta
gattacagagtctgggctattgattttctagggcagggccggtcgctgccatccgatgatcctgcgccgcgagttgaaggaaatgcatctgacgaagctcatcagtactggggctttgggccagaggtggagccatgggcaaacgagctagtgtattcggtggatttgtggcgtgatcagattcaaaattttgtagacca
gGTAATAGGTGAGCCAGTTTATGTTGTGGGTAACTCACTAGGAGGATTTGTGGGATTGTACTTTGCTGCATGCAATCCTCAACTAGTAAAGGGAATAACATTGCTAAATGCAACACCGTTTTGGGCATTTATTCCTAATCCTTCAAGGTCACCAAGAGTAGCAAAACTGTTTCCCTGGTCCGGCAATTTTCCTCTGCCTG
CTCGTGCAAAAAA

Intron 2 GTAAAGCTGT ... CAGGTAATAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	61.27	67	50	106
A2	65.33	26	24	49
A3	64.33	61	48	110
A4	64.23	49	34	88
A5	69.66	27	16	62
A6	67.77	156	22	328
A7	73.19	126	41	344
A8	73.8	60	8	169
A9	68.3	123	44	265
A10	67.76	147	52	309

>TRINITY_DN131376_c0_g3_i5 from sample A1 / Example spliced isoform

GTCTGGGACAAGCCAAGCCGACCCGGAAAGTTTCAGTTGAGCACAATCCAACACGGAACGCGGACGCTGATTTTCTTGAGGGTTCCGTGTTCGAATACTGTAAGTCTTTTCTTCGTAGTCCTAGCTACCACAAAATATCAGCACTTGTAACTATAAATGCAGAAGAATTTGCTCAGTAAACTTTAAATCTCCGAATATTG
AGGAAAACAGTACACTCCGAATATTGCCATTATCAGCTTTGTATCATAAGTTTGGATGAGTTTGAACAGTAGTTTCGGAATTGTGGTTTCGAATCGCGGCCAAACGAACTGATTCTTTGCAGCCGAGGACGACTTCAAATTTCAATTCAGTTCGCGGTGAGCCAGTTTATGTTGTGGGTAACTCACTAGGAGGATTTGTG
GGATTGTACTTTGCTGCATGCAATCCTCAACTAGTAAAGGGAATAACATTGCTAAATGCAACACCGTTTTGGGCATTTATTCCTAATCCTTCAAGGTCACCAAGAGTAGCAAAACTGTTTCCCTGGTCCGGCAATTTTCCTCTGCCTGCTCGTGCAAAAAA

>TRINITY_DN131376_c0_g3_i6 from sample A1 / Example unspliced isoform:

GTCTGGGACAAGCCAAGCCGACCCGGAAAGTTTCAGTTGAGCACAATCCAACACGGAACGCGGACGCTGATTTTCTTGAGGGTTCCGTGTTCGAATACTGTAAGTCTTTTCTTCGTAGTCCTAGCTACCACAAAATATCAGCACTTGTAACTATAAATGCAGAAGAATTTGCTCAGTAAACTTTAAATCTCCGAATATTG
AGGAAAACAGTACACTCCGAATATTGCCATTATCAGCTTTGTATCATAAGTTTGGATGAGTTTGAACAGTAGTTTCGGAATTGTGGTTTCGAATCGCGGCCAAACGAACTGATTCTTTGCAGCCGAGGACGACTTCAAATTTCAATTCAGTTCGCGgtaaagctgttcatatatacgattgaaattggtagatttgtggt
caccgttgatgaatgacgctgaattctttaatattcctcctaagttgtaaagttgtttaaatataggataaatattggcagatttatcgtaaacgttgataatggcggttgaattcgctaatatcccccgtaggcttcctggggttaagtctggtggcaatttgaaagcttatttagttcctttgcagtccgtagcctac
tcttggtctccttctgttgcttctttccggatcgctaagacgaagcttgtaaaatccctgcgaggtaaggcttcgggagggtccaaaaggggttttagtcctaaacatagagttagatgcaaacctcttgcattaaatgctaaagaacgtcttgaacgtcctaaagggggtccggaagaagcaattgagcaatatgagcg
gtatactgtggcgtttgaggaaaatgatactattagcagagaaaactacgaggagctttccacggcttttacatctgctatttcttcaatggaatctttaattgatagctattattttgctgaagcaagaaaaagtttaaacaagaacttatcggtggaacctcctaaagttgaaagtcccattgaaaaaaagccaccta
cactggttaggattcccagcttgccagatggcaatcgtggttctccgatcgaaagctgtttatgggagtggaagtataaatggactgttcattatgagaaggcagggtcgcagaatacagatgctccggcagtgctctttttgcctgggtttggtgtggggtcttttcattatgaaaatcaattgcgtgacctaggacta
gattacagagtctgggctattgattttctagggcagggccggtcgctgccatccgatgatcctgcgccgcgagttgaaggaaatgcatctgacgaagctcatcagtactggggctttgggccagaggtggagccatgggcaaacgagctagtgtattcggtggatttgtggcgtgatcagattcaaaattttgtagacca
ggtaatagGTGAGCCAGTTTATGTTGTGGGTAACTCACTAGGAGGATTTGTGGGATTGTACTTTGCTGCATGCAATCCTCAACTAGTAAAGGGAATAACATTGCTAAATGCAACACCGTTTTGGGCATTTATTCCTAATCCTTCAAGGTCACCAAGAGTAGCAAAACTGTTTCCCTGGTCCGGCAATTTTCCTCTGCCTG
CTCGTGCAAAAAA