Sequence
atgc intronic sequence ATGC exonic sequence...aagttaactgagacatcattaacattttctttttcagtttaaaaatgatgttgattctgctagatgttgagcacttaccacattcttcttgtggttacagATGCATATGTGGGGGCATGGATCTGAATATAGAAAAGGACCAGAATCCCTCAGAGGGGCACAACCAGCAGCAATGCTGAGGCTACCTTGTTATTGTTGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0080g00270.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G39370.1 (Glycine max), 3'ss of exon 1
aagttaactgagacatcattaacattttctttttcagtttaaaaatgatgttgattctgctagatgttgagcacttaccacattcttcttgtgg----ttacagATGCATATGTGGGGGCATGGATCTGAATATAGAAAAGGACCAGAATCCCTCAGAGGGGCACAACCAGCAGCAATGCTGAGGCTACCTTGTTATTGTTGTG
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---tagtctcaactagtttccataacatgtaattgagcattattctatcttgtaagttgaaaaat-ctaatagcatgccataaagatattataacaatttgcagATGCATATGTGGGGGCACGGATCCGAATTTAGGAAAGGACCAGAGTCACTTAAAGGAACACAACCAGCTGCAATGCTAAGGCTACCATGTTACTGTTGTG
upper sequence: Vv06s0080g00270.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G30930.1 (Glycine max), 3'ss of exon 1
aagttaactgagacatcattaacattttcttt-ttcagtttaaaaatgatgttgattctgctagatgttgagcacttaccacattcttcttgtggttacagATGCATATGTGGGGGCATGGATCTGAATATAGAAAAGGACCAGAATCCCTCAGAGGGGCACAACCAGCAGCAATGCTGAGGCTACCTTGTTATTGTTGTG
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aaatggggtgtaagttagtcattactctatttgctttgcttaattatgat-ctaagagagaagaaaaaaaagtaaaacaaatctgaattaaaaatttgcagATGCATATGTGGGGGCACGGGTCCGAATTTAGGAAAGGACCAGACTCACTTAAAGGAACACAACCAGCAGCAATGCTAAGGCTACCATGTTACTGTTGTG
upper sequence: Vv06s0080g00270.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G09400.1 (Glycine max), 3'ss of exon 1
aagttaactgagacatcattaacatt--ttctttttcagtttaaaaatgatgttgattctgctagatgttgagcacttaccacattcttcttgtggt-tacagATGCATATGTGGGGGCATGGATCTGAATATAGAAAAGGACCAGAATCCCTCAGAGGGGCACAACCAGCAGCAATGCTGAGGCTACCTTGTTATTGTTGTG
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-atttcaagcaagcttaattaagatcaattagtactaagcttgcatatactctaataattaattcaactaga--accaactttttttttttcataatgtgcagATGCATATGTGGGGGCATGGATCAGAATTTAGGAAAGGACCAGACTCACTCAAAGGAACACAACCAGCTGCAATGTTAAGGTTACCATGCTATTGCTGTG
upper sequence: Vv06s0080g00270.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G19060.1 (Glycine max), 3'ss of exon 1
aagttaactgagacatcattaacattttctttttcagtttaaaaatgatgttgattctgctagatgttgagcacttaccacatt-cttcttgtggtta-cagATGCATATGTGGGGGCATGGATCTGAATATAGAAAAGGACCAGAATCCCTCAGAGGGGCACAACCAGCAGCAATGCTGAGGCTACCTTGTTATTGTTGTG
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-agcaagtttaattatgatcaattagaaatgagcatgcatgtatatactctaataattaattcaaact-agcaccaacgtaattgtttttcataattagcagATGCATATGTGGGGGCATGGATCAGAATTTAGGAAAGGACCAGACTCACTGAAAGGATCACAACCAGCTGCAATGTTAAGGTTACCATGCTATTGCTGTG
upper sequence: Vv06s0080g00270.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G08290.1 (Arabidopsis thaliana), 3'ss of exon 1
aagttaactgagacatcattaacattttctttttcagtttaaaaatgatgttgattctgctagatgttgagcacttaccacattcttct-tgtggt-tacagATGCATATGTGGGGGCATGGATCTGAATATAGAAAAGGACCAGAATCCCTCAGAGGGGCA---CAACCAGCAGCAATGCTGAGGCTACCTTGTTATTGTTGTG
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-tgtctatt-aggtaccatacaatatcaatatgttaaattgataatattcaaaataaaatagagttcttatggtctaatgaatttatatatgcaaaacacagATGCATATGTGGGGACATGGATCTGAGTTCAGAAAAGGGGCTGACTCGTTGAAAGGCACAATCCAACCGGCAGCCATCCTGCGGCTGCCATGCTATTGCT--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatgttgattctgctagatgttgagcacttaccacattcttcttgtggttacagATGCATATGTGGGGGCATGGATCTGAATATAGAAAAGGACCAGAATCCCTCAGAGGGGCACAACCAGCAGCAATGCTGAGGCTACCTTGTTATTGTTGTG
cacttac putative branch site (score: 2)
ttcttcttgt putative PPT
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagttaactgagacatcattaacattttctttttcagtttaaaaatgatgttgattctgctagatgttgagcacttaccacattcttcttgtggttacagATGCATATGTGGGGGCATGGATCTGAATATAGAAAAGGACCAGAATCCCTCAGAGGGGCACAACCAGCAGCAATGCTGAGGCTACCTTGTTATTGTTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - cattaac
- - - - - - - - - - - - - - - - - - - -taaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttacca