sp|Q9ZNV9|AHP1_ARATH ----> Histidine-containing phosphotransfer protein 1

Intron 1 GTTACGTCTG ... TTCATTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	0	1	0	0
A2	42.86	4	2	4
A3	33.33	7	4	3
A4	28	9	5	2
A5	50	1	1	1
A6	42.86	12	9	9
A7	41.46	12	4	13
A8	29.58	25	8	13
A9	36.54	33	18	20
A10	26.32	28	9	11

>TRINITY_DN41030_c0_g1_i1 from sample A7 / Example spliced isoform

GCCGGGATGCAAATTTTTATAGGGTGATCAGCGTTTGTCTGAGATCTCCGGGCATTACTCTCGATCTGCCCACTTCGCATGCTGTGGATCTTGGAAACTAACAGAATTCTCTGCAATTTCTGTCTACAGTGGGGGTAGATCCTTTTCGCATGCGCAGTTACCATCTGCTGCACAAAAAAAAACTCTTATATTCTTGCTCC

GGGCTTGTGTTAATCGATCATTCGGTGCGCTTAGTGAGGAATCTTTGAGTCTGTCGCGACGGGGTTGCCTCTGTGGATGTTCAGTTTCAGAATGGACGTCATACGCTTGCAACAGCGGCTTATTCAGCTCACTAATTCCCTTTTCCAAGAGGGATTCCTCGATGAACAATTCACACAGTTGCAGCAGCTACAGGACGACA
GCAACCCAGACTTTGTGACTGAAGTGGTTGTATTGTTCTTTGAGGATTCTGAGAAGCTGCTTCATAACTTGGCAAACGCACTCGACAAGGAAGTGATTGATTACAAGAAAATCGATGCCCATGTTCACCAGTTCAAGGGAAGCAGTTCCAGCGTAGGGGCGCAGAGAGTTAAAAATTTATGCATAGCATTTCGTGCATTT
TGTAACGACAATAACCGGGCAGGGTGTATTCAATGTCTGCAGCAACTCAAGGAGGAATATTATCTTTTCAAGGATAAGCTGCAGGATCTATTTCATCTGGAGCAGCAGATCTTGTCTGCCGGCGGATCGCTTCCTATGATGGAGTAAACGCTTGAATTCTATCAATACACGAAGCAATGGCGTTACAAAACTCTAGTAGG
ACGTAGGCGGCTGATCTTCGGCTGTAACAAGCCCATGATTTAGTTAGTTTGGGAAAAATCCGAAGAAATTTTGGGATAATAGTTCATTAAATACATGTATGTGCATGCGATACTCCTGGTTTCACTGTTTTCGTGATAGAACTTCTCCCTTGACTTTTCATGACAGACGAGAGTTGGGAGTTCTATGTAATAGCTTTCTG
TTAAATGAAACGGCCGCTGTTTTCTTTTTTCAGAGATTGCTTGAACGGAGCACACTGCAAGAAAATGTGAGAGCAAAGTTGAATATTAACATTTAATTGGTATATACTTAACTAGCAGTAATAGCAGTAAAAGTCGTTAGATGGCAAGTTAGTTAGATCGCAAGTTACGTGTTATGAAAAAATTATTTGTATTGGTATTT
GAAAAATAGTAAGTAAG

>TRINITY_DN41030_c0_g1_i3 from sample A7 / Example unspliced isoform:

GCCGGGATGCAAATTTTTATAGGGTGATCAGCGTTTGTCTGAGATCTCCGGGCATTACTCTCGATCTGCCCACTTCGCATGCTGTGGATCTTGGAAACTAACAGAATTCTCTGCAATTTCTGTCTACAGTGGGGGTAGATCCTTTTCGCATGCGCAGTTACCATCTGCTGCACAAAAAAAACTCTTATATTCTgttacgt
ctgatccatgtttcttcatttttgaaatttgtattggtctgcgatcctcgcaatatgttataaaacccagcacttctcattgggttttcattgcaattcatttcagTGCTCCGGGCTTGTGTTAATCGATCATTCGGTGCGCTTAGTGAGGAATCTTTGAGTCTGTCGCGACGGGGTTGCCTCTGTGGATGTTCAGTTTC
AGAATGGACGTCATACGCTTGCAACAGCGGCTTATTCAGCTCACTAATTCCCTTTTCCAAGAGGGATTCCTCGATGAACAATTCACACAGTTGCAGCAGCTACAGGACGACAGCAACCCAGACTTTGTGACTGAAGTGGTTGTATTGTTCTTTGAGGATTCTGAGAAGCTGCTTCATAACTTGGCAAACGCACTCGACAA
GGAAGTGATTGATTACAAGAAAATCGATGCCCATGTTCACCAGTTCAAGGGAAGCAGTTCCAGCGTAGGGGCGCAGAGAGTTAAAAATTTATGCATAGCATTTCGTGCATTTTGTAACGACAATAACCGGGCAGGGTGTATTCAATGTCTGCAGCAACTCAAGGAGGAATATTATCTTTTCAAGGATAAGCTGCAGGATC
TATTTCATCTGGAGCAGCAGATCTTGTCTGCCGGCGGATCGCTTCCTATGATGGAGTAAACGCTTGAATTCTATCAATACACGAAGCAATGGCGTTACAAAACTCTAGTAGGACGTAGGCGGCTGATCTTCGGCTGTAACAAGCCCATGATTTAGTTAGTTTGGGAAAAATCCGAAGAAATTTTGGGATAATAGTTCATT
AAATACATGTATGTGCATGCGATACTCCTGGTTTCACTGTTTTCGTGATAGAACTTCTCCCTTGACTTTTCATGACAGACGAGAGTTGGGAGTTCTATGTAATAGCTTTCTGTTAAATGAAACGGCCGCTGTTTTCTTTTTTCAGAGATTGCTTGAACGGAGCACACTGCAAGAAAATGTGAGAGCAAAGTTGAATATTA
ACATTTAATTGGTATATACTTAACTAGCAGTAATAGCAGTAAAAGTCGTTAGATGGCAAGTTAGTTAGATCGCAAGTTACGTGTTATGAAAAAATTATTTGTATTGGTATTTGAAAAATAGTAAGTAAG

Intron 2 GTAGATCCTT ... TTCATTTCAG

Sample	Retention score (%)	Exon junction reads	5'ss reads	3'ss reads
A1	7.94	8.5	1.5	0
A2	20.93	17	5	4
A3	20	14	4	3
A4	22.58	12	5	2
A5	42.86	2	2	1
A6	15.45	52	10	9
A7	20.16	48.5	11.5	13
A8	23.44	49	17	13
A9	20	80	20	20
A10	21.74	45	14	11

>TRINITY_DN25864_c0_g1_i2 from sample A6 / Example spliced isoform

CAGCGTTTGTCTGAGATCTCCGGGCATTACTCTCGATCTGCCCACTTCGCATGCTGTGGATCTTGGAAACTAACAGAATTCTCTGCAATTTCTGTCTACAGTGGGGTGCTCCGGGCTTGTGTTAATCGATCATTCGGTGCGCTTAGTGAGGAATCTTTGAGTCTGTCGCGACGGGGTTGCCTCTGTGGATGTTCAGTTTC
AGAATGGACGTCATACGCTTGCAACAGCGGCTTATTCAGCTCACTAATTCCCTTTTCCAAGAGGGATTCCTCGATGAACAATTCACACAGTTGCAGCAGCTACAGGACGACAGCAACCCAGACTTTGTGACTGAAGTGGTTGTATTGTTCTTTGAGGATTCTGAGAAGCTGCTTCATAACTTGGCAAACGCACTCGACAA
GGAAGTGATTGATTACAAGAAAATCGATGCCCATGTTCACCAGTTCAAGGGAAGCAGTTCCAGCGTAGGGGCGCAGAGAGTTAAAAATTTATGCATAGCATTTCGTGCATTTTGTAACGACAATAACCGGGCAGGGTGTATTCAATGTCTGCAGCAACTCAAGGAGGAATATTATCTTTTCAAGGATAAGCTGCAGGATC
TATTTCATCTGGAGCAGCAGATCTTGTCTGCCGGCGGATCGCTTCCTATGATGGAGTAAACGCTTGAATTCTATCAATACACGAAGCAATGGCGTTACAAAACTCTAGTAGGACGTAGGCGGCTGATCTTCGGCTGTAACAAGCCCATGATTTAGTTAGTTTGGGAAAAATCCGAAGAAATTTTGGGATAATAGTTCATT
AAATACATGTATGTGCATGCGATACTCCTGGTTTCACTGTTTTCGTGATAGAACTTCTCCCTTGACTTTTCATGACAGACGAGAGTTGGGAGTTCTATGTAATAGCTTTCTGTTAAATGAAACGGCCGCTGTTTTCTTTTTTCAGAGATTGCTTGAACGGAGCACACTGCAAGAAAATGTGAGAGCAAAGTTGAATATTA
ACATTTAATTGGTATATACTTAACTAGCAGTAATAGCAGTAAAAGTCGTTAGATGGCAAGTTAGTTAGATCGCAAGTTACGTGTTATGAAAAAATTATTTGTATTGGTA

>TRINITY_DN25864_c0_g1_i3 from sample A6 / Example unspliced isoform:

CAGCGTTTGTCTGAGATCTCCGGGCATTACTCTCGATCTGCCCACTTCGCATGCTGTGGATCTTGGAAACTAACAGAATTCTCTGCAATTTCTGTCTACAGTGGGGgtagatccttttcgcatgcgcagttaccatctgctgcacaaaaaaaactcttatattctgttacgtctgatccatgtttcttcatttttgaaat
ttgtattggtctgcgatcctcgcaatatgttataaaacccagcacttctcattgggttttcattgcaattcatttcagTGCTCCGGGCTTGTGTTAATCGATCATTCGGTGCGCTTAGTGAGGAATCTTTGAGTCTGTCGCGACGGGGTTGCCTCTGTGGATGTTCAGTTTCAGAATGGACGTCATACGCTTGCAACAGC
GGCTTATTCAGCTCACTAATTCCCTTTTCCAAGAGGGATTCCTCGATGAACAATTCACACAGTTGCAGCAGCTACAGGACGACAGCAACCCAGACTTTGTGACTGAAGTGGTTGTATTGTTCTTTGAGGATTCTGAGAAGCTGCTTCATAACTTGGCAAACGCACTCGACAAGGAAGTGATTGATTACAAGAAAATCGAT
GCCCATGTTCACCAGTTCAAGGGAAGCAGTTCCAGCGTAGGGGCGCAGAGAGTTAAAAATTTATGCATAGCATTTCGTGCATTTTGTAACGACAATAACCGGGCAGGGTGTATTCAATGTCTGCAGCAACTCAAGGAGGAATATTATCTTTTCAAGGATAAGCTGCAGGATCTATTTCATCTGGAGCAGCAGATCTTGTC
TGCCGGCGGATCGCTTCCTATGATGGAGTAAACGCTTGAATTCTATCAATACACGAAGCAATGGCGTTACAAAACTCTAGTAGGACGTAGGCGGCTGATCTTCGGCTGTAACAAGCCCATGATTTAGTTAGTTTGGGAAAAATCCGAAGAAATTTTGGGATAATAGTTCATTAAATACATGTATGTGCATGCGATACTCC
TGGTTTCACTGTTTTCGTGATAGAACTTCTCCCTTGACTTTTCATGACAGACGAGAGTTGGGAGTTCTATGTAATAGCTTTCTGTTAAATGAAACGGCCGCTGTTTTCTTTTTTCAGAGATTGCTTGAACGGAGCACACTGCAAGAAAATGTGAGAGCAAAGTTGAATATTAACATTTAATTGGTATATACTTAACTAGC
AGTAATAGCAGTAAAAGTCGTTAGATGGCAAGTTAGTTAGATCGCAAGTTACGTGTTATGAAAAAATTATTTGTATTGGTA