sp|Q9FM80|MTEF9_ARATH ----> Transcription termination factor MTERF9, chloroplastic

Intron 1 GTATCTTCCT ... CTATATACAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	4	5
A2	90	0.5	4	4
A3	44.44	5	8	0
A4	52	6	2	11
A5	100	0	2	4
A6	77.78	3	12	9
A7	42.86	24	28	8
A8	61.7	9	22	7
A9	59.84	16.5	25	24
A10	63.64	10	25	10

>TRINITY_DN44541_c0_g3_i2 from sample A8 / Example spliced isoform

CCAGCTATTCTTGCTCTCAATGTTGATCGGCAGTGGAGACCCAAGTTCGAGTTAATGAAAACATTGGGCCTCACTGCAAAAGAGTTTGGAAAAGTCTTATCCAGAGATTCCAGATTCTTTGGTTGCAGCCTAAAGAGAACTCTGTGTCCCAACATCCAGTATCTTCAAAACCTGCTGGGATCAGAGGCTAATGTTTCCAA
GGTTCTGAAACGGGTACCTCAGGTTCTGAATTATACTAATGGGCCTGAATATTTCGAAAAGAAATTAAAGCATTTGGCAAGTTTTGGTCTCCCGGAGGATGAGATCAAAGAGCTTGTTAGGAGGAACCCATTTTTACTAAATATTTCCATAGAGAAGGTGCAGAAGATAATGGACTTTTTCATACATACCGCAGGACTTC
CTGCAAAGATTCCTTTGACAAAGCCTGAGATCCTGGATTTCAGTTTGGAGGGCAGGATTAAGCCTCGCTACAGTGTGTTCAAGTCTATAAGTGCATTGCAACCTTCCAGGTGATAATCACGCTGGGTCATGACCCTGTGAGTCCAGGGCAGAGTGTTGTTTTGGCCAGTTTACTCAGTTGTAATGCAATCAACGAATATT
ATTAAAGGATACTCAGTTGTAATGCAATCGTGGAGAAATGACCTTTCGGAATGTATCAGGTAACACATTTTTGAAATATGAAGAAAGCACTCTTATTACAGACAATTAGTTGTTTATTTGTAACTTTACAACTAATGCATTGTTCCCTCTCTTTTAATTGTAAAATGGATAGATATGAAATTTTTACTTTGTTTGAATCA
TG

>TRINITY_DN44541_c0_g3_i1 from sample A8 / Example unspliced isoform:

CCAGCTATTCTTGCTCTCAATGTTGATCGGCAGTGGAGACCCAAGTTCGAGTTAATGAAAACATTGGGCCTCACTGCAAAAGAGTTTGGAAAAGTCTTATCCAGAGATTCCAGATTCTTTGGTTGCAGCCTAAAGAGAACTCTGTGTCCCAACATCCAGTATCTTCAAAACCTGCTGGGATCAGAGGCTAATGTTTCCAA
GGTTCTGAAACGGGTACCTCAGGTTCTGAATTATACTAATGGGCCTGAATATTTCGAAAAGAAATTAAAGCATTTGGCAAGTTTTGGTCTCCCGGAGGATGAGATCAAAGAGCTTGTTAGGAGGAACCCATTTTTACTAAATATTTCCATAGAGAAGGTGCAGAAGATAATGGACTTTTTCATACATACCGCAGGACTTC
CTGCAAAGATTCCTTTGACAAAGCCTGAGATCCTGGATTTCAGTTTGGAGGGCAGGATTAAGCCTCGCTACAGTGTGTTCAAGTCTATAAGTGCATTGCAACCTTCCAGgtatcttcctagtctctcatatgcccttaaattaagtgagaaaaagttcctcgaaaaatatgtgaagtgtagtccccatgccacaaagtta
cttgaaatctacagtggcaaatctgttgatcttgacattatacaatgacaatgcccacatctaaaagactataaattcaaggattctgatttcgtcaggtttggattgcatcgcgttgcttttatttatcgaaatagattccagtacattcgcaaatggaccatcagtctgttgagacccaatgtgatccctcatgatat
gagtaacgagtgagaattactatatacagGTGATAATCACGCTGGGTCATGACCCTGTGAGTCCAGGGCAGAGTGTTGTTTTGGCCAGTTTACTCAGTTGTAATGCAATCAACGAATATTATTAAAGGATACTCAGTTGTAATGCAATCGTGGAGAAATGACCTTTCGGAATGTATCAGGTAACACATTTTTGAAATATG
AAGAAAGCACTCTTATTACAGACAATTAGTTGTTTATTTGTAACTTTACAACTAATGCATTGTTCCCTCTCTTTTAATTGTAAAATGGATAGATATGAAATTTTTACTTTGTTTGAATCATG

Intron 2 GTATCTTCCT ... ATTTCGTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	100	0	4	3
A2	100	0	4	4
A3	60	4	8	4
A4	100	0	2	0
A5	100	0	2	6
A6	73.91	3	12	5
A7	58.02	17	28	19
A8	72	7	22	14
A9	67.74	10	25	17
A10	67.35	8	25	8

>TRINITY_DN44822_c0_g7_i4 from sample A9 / Example spliced isoform

TGAAAACATTGGGCCTCACTGCAGAAGGGTTTGGAAAAGTCTTATGCAGAGATTCCAGAATCTTTGGTTGCAGCCTAAAGAAAACTTTGTGTCCCAACATCCAGTATCTTCAAAACCTGCTGGGATCAGAGGCTGATGTTTCCAAGGTTCTGAAACGGGTACCTCAGGTTCTGAATAATACTAATGGGCCTGAATATTTC
GAAAAGAAATTAAAGCATTTGGCAAGTTTTGGTCTCCCGGAGGATGAGATCAAAGAGCTTGTTAGGAGGAACCCATTTTTACTAAATATTTCCATAGAGAAGGTGCAGAAGATAATGGACTTTTTCATACATACCGCAGGACTTTCTGCAAAGATTCCTTTGACAAAGCCTGAGATCCTGAATTTCAGTTTGGAGGGCAG
GATTAAGCCTCGCTACAGTGTGTTCAAGTCTATAAGTGCATTGCAACCTTCCAGGTTTGGATTGCATCGCGTTG

>TRINITY_DN44822_c0_g7_i2 from sample A9 / Example unspliced isoform:

TGAAAACATTGGGCCTCACTGCAGAAGGGTTTGGAAAAGTCTTATGCAGAGATTCCAGAATCTTTGGTTGCAGCCTAAAGAAAACTTTGTGTCCCAACATCCAGTATCTTCAAAACCTGCTGGGATCAGAGGCTGATGTTTCCAAGGTTCTGAAACGGGTACCTCAGGTTCTGAATAATACTAATGGGCCTGAATATTTC
GAAAAGAAATTAAAGCATTTGGCAAGTTTTGGTCTCCCGGAGGATGAGATCAAAGAGCTTGTTAGGAGGAACCCATTTTTACTAAATATTTCCATAGAGAAGGTGCAGAAGATAATGGACTTTTTCATACATACCGCAGGACTTTCTGCAAAGATTCCTTTGACAAAGCCTGAGATCCTGAATTTCAGTTTGGAGGGCAG
GATTAAGCCTCGCTACAGTGTGTTCAAGTCTATAAGTGCATTGCAACCTTCCAGgtatcttcctagtctctcatatgcccttaaattaagtgagaaaaagttcctcgaaaaatatgtgaagtgtagtccccatgccacaaagttacttgaaatctacagtggcaaatctgttgatcttgacattatacaatgacaatgcc
cacatctaaaagactataaattcaaggattctgatttcgtcagGTTTGGATTGCATCGCGTTGCTTTTATTTATCGAAATAGATTCCAGTACATTCGCAAATGGACCATCAGTCTGTTGAGACCCAATGTGATCCCTCATGATATGAGTAACGAGTGAGAATTACTATATACAGGTGATAATCACGCTGGGTCATGACCC
TGTGAGTCCAGGGCAGAATGTTGTTTTGGCCAGTTTACTCGGTTGTAATGCAATCAACGAATATTATTAAAGGATACTCAGTTGTAATGCAATCGTGGAGAAATGACCTTTCGGAATGTATCAGGTAACACATTTTTGAAATATGAAGAAAGCACTCTTATTACAGACAATTAGTTGTTTCTTTGTAACTTTACAATTAA
TGCATTGTTCCCTTGTTCCCTCTA