sp|O49485|SERA1_ARATH ----> D-3-phosphoglycerate dehydrogenase 1, chloroplastic

Intron 1 GTAAAGTTCA ... TGCATGGCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	11.11	20	0	5
A2	33.33	15	9	6
A3	17.24	24	3	7
A4	16.98	22	3	6
A5	66.67	2	4	4
A6	16.13	52	10	10
A7	19.15	76	24	12
A8	22.96	52	16	15
A9	14.93	57	15	5
A10	12.5	28	3	5

>TRINITY_DN102026_c0_g1_i2 from sample A2 / Example spliced isoform

TGAATGCCGAAAATAAAGTTCTGATCAATCCCGTGAGTCCAGTGAGTCCAGGGTAGCATCTACAGTGGACGCCGGTTTTCACTTATTGGAGAGATTGATCAGAATAGTTACGAAGCATGGCTGAAAACAGCAGCCCAACTGCTGGTACAATTGCGACACGGGTGCTTTTCTGTGGTTGATGCTATACCCCTGGACAAAGT
TCCTGATATTATTGGAAGTTATGAAATATGCGTTGTTCGAGGGATGACGCTTGATGCAAATGTTATTTCTCTTGCAACACAAATGAAGTTAATTGTACAGTTTGGTGTAGGGCTGGAAGGGGTAGATATTGAGGCTGCCACAAAATTTGGGATCAAAGTTGCAAGGATCCCTGGTAACACCACGGGAAATTCTTTATCGT
GTGCAGAACATGCGATATATTTGATTCTGGGTCTTCTTCGTGACCAGAAAGGCATGGAGAAAGCATTCAAAGAGAGGTGGCTGGGTGTTCCAACTGGAGAAACACTCTATGGAAAAACGGTTTTCATTGTTGGATATGGAAATATTGGGAAGGACCTTGCAGTTCGTTTAAGACCTTTTGGTGTTAAAGTTCTCGCTACT
AGAAGGCGTTGGGGCTCAAAATCTTCTGTGGATTGGAACAAACGAGATGCCATTGATACTTATCTAATACAAAGCACAGACAATGGAAACATTGAGGATGACCTGATTGATGAGAAAGGTGGCAATGAGTGCCTTTATGACTTTGCAAGTCAAGCAGATATAGTAGTTACTTGTGCCGCATTGACTACAGAGACAGTTGG
CATGGTGAATGCAAAGTTTCTATCTTCGATGAAAAAGGGTGCATTTCTTGTCAATGTTGCCCGAGGAGGTCTCTTGGATTATGGAGCAGTCAAAGCTTCCCTTGAATGTGGTCACTTGGGAGGCTTGGGTACGGATGTTACTTGGTTTGAACCATTTGATCCTGAAGATCCTATTCTACAACATCACAAAGTCTTGATAA
CACCTCATGTTGCAGGAGTTACAGAACTTTCTTATAGAAACATGGCCAAGGTAATAGGTGATTGTGCTATTTGCCTTCACAATGGTGATTCTTTTGTTGGCATAGAAATTGTGAATTGAAATAAATTTGATACTTGAAAGACTAACGACTTTTTTGTCTTGTCTATAACCATAATTATTCAACATTTATGCAAGAAAATG
GAGTTTATTTTACCAAAGGTGGCTTGTCAAATTGGTGAAGATAGAGCATTCCAATCTCACTTAAGACTTTTTTTTGCTCGTGCTTGTGTTTGTTGTACATCAATGCTTGTGACAACAATGAGGG

>TRINITY_DN102026_c0_g1_i1 from sample A2 / Example unspliced isoform:

TGAATGCCGAAAATAAAGTTCTGATCAATCCCGTGAGTCCAGTGAGTCCAGGGTAGCATCTACAGTGGACGCCGGTTTTCACTTATTGGAGAGATTGATCAGAATAGTTACGAAGCATGGCTGAAAACAGCAGCCCAACTGCTGGTACAATTGCGACACGGGTGCTTTTCTGTGGTAGTAACTTCCCTGCTAGCTTTGAA
TATACCAAACAATATTTACTTCCTCATCCCTTCATCCAGGTTGATGCTATACCCCTGGACAAAGTTCCTGATATTATTGGAAGTTATGAAATATGCGTTGTTCGAGGGATGACGCTTGATGCAAATGTTATTTCTCTTGCAACACAAATGAAGTTAATTGTACAGTTTGGTGTAGGGCTGGAAGGGGTAGATATTGAGGC
TGCCACAAAATTTGGGATCAAAGTTGCAAGGATCCCTGGTAACACCACGGGAAATTCTTTATCGTGTGCAGAACATGCGATATATTTGATTCTGGGTCTTCTTCGTGACCAGAAAGGCATGGAGAAAGCATTCAAAGAGAGGTGGCTGGGTGTTCCAACTGGAGAAACACTCTATGGAAAAACGGTTTTCATTGTTGGAT
ATGGAAATATTGGGAAGGACCTTGCAGTTCGTTTAAGACCTTTTGGTGTTAAAGTTCTCGCTACTAGAAGGCGTTGGGGCTCAAAATCTTCTGTGGATTGGAACAAACGAGATGCCATTGATACTTATCTAATACAAAGCACAGACAATGGAAACATTGAGGATGACCTGATTGATGAGAAAGGTGGCAATGAGTGCCTT
TATGACTTTGCAAGTCAAGCAGATATAGTAGTTACTTGTGCCGCATTGACTACAGAGACAgtaaagttcaactctaccatggcctttcttcatttcctgtaactgtagtctgaaatataataagcagcacttggaagggagataatggtatcaagcaaccttattttagagctttgcatggcagGTTGGCATGGTGAATG
CAAAGTTTCTATCTTCGATGAAAAAGGGTGCATTTCTTGTCAATGTTGCCCGAGGAGGTCTCTTGGATTATGGAGCAGTCAAAGCTTCCCTTGAATGTGGTCACTTGGGAGGCTTGGGTACGGATGTTACTTGGTTTGAACCATTTGATCCTGAAGATCCTATTCTACAACATCACAAAGTCTTGATAACACCTCATGTT
GCAGGAGTTACAGAACTTTCTTATAGAAACATGGCCAAGGTAATAGGTGATTGTGCTATTTGCCTTCACAATGGTGATTCTTTTGTTGGCATAGAAATTGTGAATTGAAATAAATTTGATACTTGAAAGACTAACGACTTTTTTGTCTTGTCTATAACCATAATTATTCAACATTTATGCAAGAAAATGGAGTTTATTTT
ACCAAAGGTGGCTTGTCAAATTGGTGAAGATAGAGCATTCCAATCTCACTTAAGACTTTTTTTTGCTCGTGCTTGTGTTTGTTGTACATCAATGCTTGTGACAACAATGAGGG

Intron 2 GTATGCTCTT ... ATGGTACCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	27.59	21	11	5
A2	17.86	23	6	4
A3	20	18	5	4
A4	26.32	42	19	11
A5	23.81	8	1	4
A6	23.94	27	9	8
A7	18.68	37	10	7
A8	19.15	19	5	4
A9	17.65	28	6	6
A10	19.3	23	5	6

>TRINITY_DN117923_c5_g3_i4 from sample A1 / Example spliced isoform

GCCGAAAATAAAGTTCTGATCAATCCCGTGAGTCCAGTGAGTCCAGGGTAGCATCTACAGTGGACGCCGGTTTTCACTTATTGGAGAGATTGATCAGAATAGTTACGAAGCATGGCTGAAAACAGCAGCCCAACTGCTGGTACAATTGCGACACGGGTGCTTTTCTGTGGTAGTAACTTCCCTGCTAGCTTTGAATATAC
CAAACAATATTTACTTCCTCATCCCTTCATCCAGGTTGATGCTATACCCCTGGACAAAGTTCCTGATATTATTGGAAGTTATGAAATATGCGTTGTTCGAGGGATGACGCTTGATGCAAATGTTATTTCTCTTGCAACACAAATGAAGTTAATTGTACAGTTTGGTGTAGGGCTGGAAGGGGTAGATATTGAGGCTGCCA
CAAAATTTGGGATCAAAGTTGCAAGGATCCCTGGTAACACCACGGGAAATTCTTTATCGTGTGCAGAACATGCGATATATTTGATTCTGGGTCTTCTTCGTGACCAGAAAGGCATGGAGAAAGCATTCAAAGAGAGGTGGCTGGGTGTTCCAACTGGAGAAACACTCTATGGAAAAACGGTTTTCATTGTTGGATATGGA
AATATTGGGAAGGACCTTGCAGTTCGTTTAAGACCTTTTGGTGTTAAAGTTCTCGCTACTAGAAGGCGTTGGGGCTCAAAATCTTCTGTGGATTGGAACAAACGAGATGCCATTGATACTTATCTAATACAAAGCACAGACAATGGAAACATTGAGGATGACCTGATTGATGAGAAAGGTGGCAATGAGTGCCTTTATGA
CTTTGCAAGTCAAGCAGATATAGTAGTTACTTGTGCCGCATTGACTACAGAGACAGTTGGCATGGTGAATGCAAAGTTTCTATCTTCGATGAAAAAGGGTGCATTTCTTGTCAATGTTGCCCGAGGAGGTCTCTTGGATTATGGAGCAGTCAAAGCTTCCCTTGAATGTGGTCACTTGGGAGGCTTGGGTACGGATGTTA
CTTGGTTTGAACCATTTGATCCTGAAGATCCTATTCTACAACATCACAAAGTCTTGATAACACCTCATGTTGCAGGAGTTACAGAACTTTCTTATAGAAACATGGCCAAGGTAATAGGTGATTGTGCTATTTGCCTTCACAATGGTGATTCTTTTGTTGGCATAGAAATTGTGAATTGAAATAAATTTGATACTTGAAAG
ACTAACGACTTTTTTGTCTTGTCTATAACCATAATTATTCAACATTTATGCAAGAAAATGGAGTTTATTTTACCAAAGGTGGCTTGTCAAATTGGTGAAGATAGAGCATTCCAATCTCACTTAAGACTTTTTTTTGCCCGTGC

>TRINITY_DN117923_c5_g3_i2 from sample A1 / Example unspliced isoform:

GCCGAAAATAAAGTTCTGATCAATCCCGTGAGTCCAGTGAGTCCAGGGTAGCATCTACAGTGGACGCCGGTTTTCACTTATTGGAGAGATTGATCAGAATAGTTACGAAGCATGGCTGAAAACAGCAGCCCAACTGCTGGTACAATTGCGACACGGGTGCTTTTCTGTGGTAGTAACTTCCCTGCTAGCTTTGAATATAC
CAAACAATATTTACTTCCTCATCCCTTCATCCAGGTTGATGCTATACCCCTGGACAAAGTTCCTGATATTATTGGAAGTTATGAAATATGCGTTGTTCGAGGGATGACGCTTGATGCAAATGTTATTTCTCTTGCAACACAAATGAAGTTAATTGTACAGTTTGGTGTAGGGCTGGAAGgtatgctcttttttgatttga
aaatgacggctttctttatttattattttccccatgaaatgttgctatttgattctaggtatgaaattacaaatccatcttacttgtaatatcttctctttttcatatgttaggcagttagattgatacttattttagttttctatagaattcagctcttactatgttagatttgatagcctaacttttctatttgtgac
gacatttttggtaaagtgaactaagcaaatatcatcaaatggaactttagtcctgaataaacacacatattatggtaccagGGGTAGATATTGAGGCTGCCACAAAATTTGGGATCAAAGTTGCAAGGATCCCTGGTAACACCACGGGAAATTCTTTATCGTGTGCAGAACATGCGATATATTTGATTCTGGGTCTTCTT
CGTGACCAGAAAGGCATGGAGAAAGCATTCAAAGAGAGGTGGCTGGGTGTTCCAACTGGAGAAACACTCTATGGAAAAACGGTTTTCATTGTTGGATATGGAAATATTGGGAAGGACCTTGCAGTTCGTTTAAGACCTTTTGGTGTTAAAGTTCTCGCTACTAGAAGGCGTTGGGGCTCAAAATCTTCTGTGGATTGGAA
CAAACGAGA

Intron 3 GTAGTAACTT ... CTTCATCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	44.93	19	18	13
A2	55.26	17	27	15
A3	58.49	22	35	27
A4	43.86	16	14	11
A5	64.38	13	32	15
A6	57.58	28	49	27
A7	54.95	41	64	36
A8	68.83	12	29	24
A9	58.47	38	62	45
A10	68.14	18	46	31

>TRINITY_DN117923_c5_g3_i3 from sample A1 / Example spliced isoform

GCCGAAAATAAAGTTCTGATCAATCCCGTGAGTCCAGTGAGTCCAGGGTAGCATCTACAGTGGACGCCGGTTTTCACTTATTGGAGAGATTGATCAGAATAGTTACGAAGCATGGCTGAAAACAGCAGCCCAACTGCTGGTACAATTGCGACACGGGTGCTTTTCTGTGGTTGATGCTATACCCCTGGACAAAGTTCCTG
ATATTATTGGAAGTTATGAAATATGCGTTGTTCGAGGGATGACGCTTGATGCAAATGTTATTTCTCTTGCAACACAAATGAAGTTAATTGTACAGTTTGGTGTAGGGCTGGAAGG

>TRINITY_DN117923_c5_g3_i2 from sample A1 / Example unspliced isoform:

GCCGAAAATAAAGTTCTGATCAATCCCGTGAGTCCAGTGAGTCCAGGGTAGCATCTACAGTGGACGCCGGTTTTCACTTATTGGAGAGATTGATCAGAATAGTTACGAAGCATGGCTGAAAACAGCAGCCCAACTGCTGGTACAATTGCGACACGGGTGCTTTTCTGTGgtagtaacttccctgctagctttgaatatac
caaacaatatttacttcctcatcccttcatccagGTTGATGCTATACCCCTGGACAAAGTTCCTGATATTATTGGAAGTTATGAAATATGCGTTGTTCGAGGGATGACGCTTGATGCAAATGTTATTTCTCTTGCAACACAAATGAAGTTAATTGTACAGTTTGGTGTAGGGCTGGAAGGTATGCTCTTTTTTGATTTGA
AAATGACGGCTTTCTTTATTTATTATTTTCCCCATGAAATGTTGCTATTTGATTCTAGGTATGAAATTACAAATCCATCTTACTTGTAATATCTTCTCTTTTTCATATGTTAGGCAGTTAGATTGATACTTATTTTAGTTTTCTATAGAATTCAGCTCTTACTATGTTAGATTTGATAGCCTAACTTTTCTATTTGTGAC
GACATTTTTGGTAAAGTGAACTAAGCAAATATCATCAAATGGAACTTTAGTCCTGAATAAACACACATATTATGGTACCAGGGGTAGATATTGAGGCTGCCACAAAATTTGGGATCAAAGTTGCAAGGATCCCTGGTAACACCACGGGAAATTCTTTATCGTGTGCAGAACATGCGATATATTTGATTCTGGGTCTTCTT
CGTGACCAGAAAGGCATGGAGAAAGCATTCAAAGAGAGGTGGCTGGGTGTTCCAACTGGAGAAACACTCTATGGAAAAACGGTTTTCATTGTTGGATATGGAAATATTGGGAAGGACCTTGCAGTTCGTTTAAGACCTTTTGGTGTTAAAGTTCTCGCTACTAGAAGGCGTTGGGGCTCAAAATCTTCTGTGGATTGGAA
CAAACGAGA

Intron 4 GTACAATTGC ... CTTCATCCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	57.38	13	22	13
A2	64.1	14	35	15
A3	56.03	31	52	27
A4	40.23	26	24	11
A5	79.66	6	32	15
A6	75.76	12	48	27
A7	67.07	27	74	36
A8	69.23	12	30	24
A9	68.42	27	72	45
A10	75.24	13	48	31

>TRINITY_DN94551_c0_g1_i3 from sample A4 / Example spliced isoform

TGTGAATGCCGAAAATAAAGTTCTGATCAATCCCGTGAGTCCAGTGAGTCCAGGGTAGCATCTACAGTGGACGCCGGTTTTCACTTATTGGAGAGATTGATCAGAATAGTTACGAAGCATGGCTGAAAACAGCAGCCCAACTGCTGGTTGATGCTATACCCCTGGACAAAGTTCCTGATATTATTGGAAGTTATGAAATA
TGCGTTGTTCGAGGGATGACGCTTGATGCAATGTTATTTCTCTTGCAACACAAATGAAGTTAATTGTACAGTTTGGTGTAGGGCTGGAAGGGGTAGATATTGAGGCTGCCACAAAATTTGGGATCAAAGTTGCAAGGATCCCTGGTAACACCACGGGAAATTCTTTATCGTGTGCAGAACATGCGATATATTTGATTCTG
GGTCTTCTTCGTGACCAGAAAGGCATGGAGAAAGCATTCAAAGAGAGGTGGCTGGGTGTTCCAACTGGAGAAACACTCTATGGAAAAACGGTTTTCATTGTTGGATATGGAAATATTGGGAAGGACCTTGCAGTTCGTTTAAGACCTTTTGGTGTTAAAGTTCTCGCTACTAGAAGGCGTTGGGGCTCAAAATCTTCTGT
GGATTGGAACAAACGAGATGCCATTGATACTTATCTAATACAAAGCACAGACAATGGAAACATTGAGGATGACCTGATTGATGAGAAAGGTGGCAATGAGTGCCTTTATGACTTTGCAAGTCAAGCAGATATAGTAGTTACTTGTGCCGCATTGACTACAGAGACAGTTGGCATGGTGAATGCAAAGTTTCTATCTTCGA
TGAAAAAGGGTGCATTTCTTGTCAATGTTGCCCGAGGAGGTCTCTTGGATTATGGAGCAGTCAAAGCTTCCCTTGAATGTGGTCACTTGGGAGGCTTGGGTACGGATGTTACTTGGTTTGAACCATTTGATCCTGAAGATCCTATTCTACAACATCACAAAGTCTTGATAACACCTCATGTTGCAGGAGTTACAGAACTT
TCTTATAGAAACATGGCCAAGGTAATAGGTGATTGTGCTATTTGCCTTCACAATGGTGATTCTTTTGTTGGCATAGAAATTGTGAATTGAAATAAATTTGATACTTGAAAGACTAACGACTTTTTTGTCTTGTCTATAACCATAATTATTCAACATTTATGCAAGAAAATGGAGTTTATTTTACCAAAGGTGGCTTGTCA
AATTGGTGAAGATAGAGCATTCCAATCTCACTTAAGACTTTTTTTTGCTCGTGCTTGTGTTTGTTGTACATCAATGCTTGTGACAACAATGAGGGTCATGTGTAAGACCTAGAAAAATTGGTAGAATATGCATTGTCAAATGTCAACAACTTATCTAAAAACTTACTTTCATTTATTAAATGATATTAAAATGATTAAAA
AGGTATCCTTAGTAAAACTTTATTTTGTATTATCTAACATCGAAATGTTATCAAACACTAAATCATGAAAACATGCAATTTTTCTTAGCTAAGCCATAACTTTTCATTGAACTTCCTTG

>TRINITY_DN94551_c0_g1_i1 from sample A4 / Example unspliced isoform:

TGTGAATGCCGAAAATAAAGTTCTGATCAATCCCGTGAGTCCAGTGAGTCCAGGGTAGCATCTACAGTGGACGCCGGTTTTCACTTATTGGAGAGATTGATCAGAATAGTTACGAAGCATGGCTGAAAACAGCAGCCCAACTGCTGgtacaattgcgacacgggtgcttttctgtggtagtaacttccctgctagctttg
aatataccaaacaatatttacttcctcatcccttcatccagGTTGATGCTATACCCCTGGACAAAGTTCCTGATATTATTGGAAGTTATGAAATATGCGTTGTTCGAGGGATGACGCTTGATGCAAATGTTATTTCTCTTGCAACACAAATGAAGTTAATTGTACAGTTTGGTGTAGGGCTGGAAGGGGTAGATATTGAG
GCTGCCACAAAATTTGGGATCAAAGTTGCAAGGATCCCTGGTAACACCACGGGAAATTCTTTATCGTGTGCAGAACATGCGATATATTTGATTCTGGGTCTTCTTCGTGACCAGAAAGGCATGGAGAAAGCATTCAAAGAGAGGTGGCTGGGTGTTCCAACTGGAGAAACACTCTATGGAAAAACGGTTTTCATTGTTGG
ATATGGAAATATTGGGAAGGACCTTGCAGTTCGTTTAAGACCTTTTGGTGTTAAAGTTCTCGCTACTAGAAGGCGTTGGGGCTCAAAATCTTCTGTGGATTGGAACAAACGAGATGCCATTGATACTTATCTAATACAAAGCACAGACAATGGAAACATTGAGGATGACCTGATTGATGAGAAAGGTGGCAATGAGTGCC
TTTATGACTTTGCAAGTCAAGCAGATATAGTAGTTACTTGTGCCGCATTGACTACAGAGACAGTTGGCATGGTGAATGCAAAGTTTCTATCTTCGATGAAAAAGGGTGCATTTCTTGTCAATGTTGCCCGAGGAGGTCTCTTGGATTATGGAGCAGTCAAAGCTTCCCTTGAATGTGGTCACTTGGGAGGCTTGGGTACG
GATGTTACTTGGTTTGAACCATTTGATCCTGAAGATCCTATTCTACAACATCACAAAGTCTTGATAACACCTCATGTTGCAGGAGTTACAGAACTTTCTTATAGAAACATGGCCAAGGTAATAGGTGATTGTGCTATTTGCCTTCACAATGGTGATTCTTTTGTTGGCATAGAAATTGTGAATTGAAATAAATTTGATAC
TTGAAAGACTAACGACTTTTTTGTCTTGTCTATAACCATAATTATTCAACATTTATGCAAGAAAATGGAGTTTATTTTACCAAAGGTGGCTTGTCAAATTGGTGAAGATAGAGCATTCCAATCTCACTTAAGACTTTTTTTTGCTCGTGCTTGTGTTTGTTGTACATCAATGCTTGTGACAACAATGAGGGTCATGTGTA
AGACCTAGAAAAATTGGTAGAATATGCATTGTCAAATGTCAACAACTTATCTAAAAACTTACTTTCATTTATTAAATGATATTAAAATGATTAAAAAGGTATCCTTAGTAAAACTTTATTTTGTATTATCTAACATCGAAATGTTATCAAACACTAAATCATGAAAACATGCAATTTTTCTTAGCTAAGCCATAACTTTT
CATTGAACTTCCTTG