Sequence
atgc intronic sequence ATGC exonic sequencegtcatcttttctataagaacttctgacttaaagaaatataggatataaatggtgtaatttcattgatcattgtatagttttatgtccagaattttgaatctggatcttatttgatgatgactcagtttttcaatgattacagGAGTTCAATAAGCATGACAAAGAGCCTGGGAAGTACATAAAGCATTGGAGGGGCATCAAACCGAAGACAGGAGCACCATACTCTTGTGATGTTGGCTATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g38340.1 (Oryza sativa), 3'ss of exon 5
gtcatcttttctataagaacttctgacttaaagaaatataggatataaatggtgtaatttcattgatcattgtatagttttatgtccagaattttgaatctggatcttatttgatgatgactcagtttttcaatgattacagGAGTTCAATAAGCATGACAAAGAGCCTGGGAAGTACATAAAGCATTGGAGGGGCATCAAACCGAAGACAGGAGCACCATACTCTTGTGATGTTGGCTATG
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--------------------------------cagctttgaaccattgactttgttatttgtacga-caaaaaatagagtccc--taagagatgaaaagaaaaataataat-----ataactttattgttgcct--ttttagGAATTTAATAAGCATGACAGAGAGCCCAATAAGTACATAAAGCACTGGAGTGGCATCAAACCAAAAACTGGTGCCAAATACACCTGCGACATTGGATATG
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G13780.1 (Glycine max), 3'ss of exon 4
gtcatcttttctataagaacttctgacttaaagaaatataggatataaatggtgtaatttcattgatcattgtatagttttatgtccagaattttgaatctggatcttatttgatgatgactcagtttttcaatgattacagGAGTTCAATAAGCATGACAAAGAGCCTGGGAAGTACATAAAGCATTGGAGGGGCATCAAACCGAAGACAGGAGCACCATACTCTTGTGATGTTGGCTATG
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-----ttctttaatttgcccttct--ttttgtgaatcaagggatgtaactaaagtggtct------------------ttta-------aatttttagttt---tcctacataacattagctaaatttctct-------cagGAATTTAATAAGCATGACAAAGAACCAGGCAAGTACATCAAGCATTGGAGAGGTATTAAACCAAAGACGGGGGCACCATATTCATGTGATATTGGCTATG
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G13810.1 (Glycine max), 3'ss of exon 4
gtcatcttttctataagaacttctgacttaaagaaatataggatataaatggtgtaatttcattgatcattgtatagttttatgtccagaattttgaatctggatcttatttgatgatgactcagtttttcaatgattacagGAGTTCAATAAGCATGACAAAGAGCCTGGGAAGTACATAAAGCATTGGAGGGGCATCAAACCGAAGACAGGAGCACCATACTCTTGTGATGTTGGCTATG
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-----------------------------aatttgctttttttttttttttgtgaa---tcaagggatgtaacgaaagttatcttttgaacttgttagttt---tcctacgtaacaatggctcattttctct-------cagGAATTTAATAAGCATGACAAAGAACCAGCCAAGTATATCAAGCATTGGAGAGGCATTAAACCAAGGACAGGGGCACCATATTCCTGTGATATTGGCTATG
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G30630.1 (Glycine max), 3'ss of exon 4
gtcatcttttctataagaacttctgacttaaagaaatataggatataaatggtgtaatttcattgatcattgtatagttttatgtccagaattttgaatctggatcttatttgatgatgactcagtttttcaatgattacagGAGTTCAATAAGCATGACAAAGAGCCTGGGAAGTACATAAAGCATTGGAGGGGCATCAAACCGAAGACAGGAGCACCATACTCTTGTGATGTTGGCTATG
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-------------------------actttaat-----ttgcttttcttttttgtgaatcaagggatgtaactaaagttatct-tttaaacttgttaattt---tcctacataacca-gactcattttctct-------cagGAATTTAATAAGCATGACAAAGAGCCAGCCAAGTATATCAAGCACTGGAGAGGTATTAAACCAAAGACGGGGGCACCATATTCCTGTGATATTGGCTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaattttgaatctggatcttatttgatgatgactcagtttttcaatgattacagGAGTTCAATAAGCATGACAAAGAGCCTGGGAAGTACATAAAGCATTGGAGGGGCATCAAACCGAAGACAGGAGCACCATACTCTTGTGATGTTGGCTATG
atttgat putative branch site (score: 5)
tttttcaatgatta TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatcttttctataagaacttctgacttaaagaaatataggatataaatggtgtaatttcattgatcattgtatagttttatgtccagaattttgaatctggatcttatttgatgatgactcagtttttcaatgattacagGAGTTCAATAAGCATGACAAAGAGCCTGGGAAGTACATAAAGCATTGGAGGGGCATCAAACCGAAGACAGGAGCACCATACTCTTGTGATGTTGGCTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA