Sequence
atgc intronic sequence ATGC exonic sequence...agatgaatatttattcccaattgaagaaattgagacattgatatccagttttaccataaaatagaaagataagatgtctcttgatctactttcttggcagGATTGCAAAGGATCCTCGGTTTGAAAGATTACTCTGTACTCATAAGGGAACTTATGCTGATGACTGTATTGTTGATAGAGTTACTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g06410.1 (Oryza sativa), 3'ss of exon 5
--agatgaatatttatt---cccaattgaagaaattgagacattgatatccagttttaccataaaatagaaagataagatgtctcttgatctactttcttggcagGATTGCAAAGGATCCTCGGTTTGAAAGATTACTCTGTACTCATAAGGGAACTTATGCTGATGACTGTATTGTTGATAGAGTTACTCAG
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gcatattagtatcagttggacatagttctgatgtttggtactataatat--aatttt-ctatgattttcatccatcaataaatactatttttacctctt--acagAATTGCAAAGGACCCTAGGTTCCAGAGATTAGCATGCACACACAAGGGAACTTATGCTGATGACTGTATCGTAGAGAGGGTTACTCAG
upper sequence: Vv15s0046g02690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G41500.1 (Glycine max), 3'ss of exon 4
-----agatgaatatttattc--ccaattgaagaaattgagacattgatatccagtttta-ccataaaatagaaagataagatgtctcttgatctactttcttggcagGATTGCAAAGGATCCTCGGTTTGAAAGATTACTCTGTACTCATAAGGGAACTTATGCTGATGACTGTATTGTTGATAGAGTTACTCAG
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tcttcaagtaagcaatttctcagtctagtagggaaaataaattataatgttctagtttcagctgctgggtgtaatcatttaacccttctatatgt--------gatagGATTGCAAAGGATCCTCGATTTGAGAGAATACTCTGTACTCATAAAGGGATGTATGCTGATGACTGTCTTGTTGAGAGAGTTACTCAG
upper sequence: Vv15s0046g02690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G38690.2 (Glycine max), 3'ss of exon 6
-agatgaat-atttattcc-caattgaagaaattgagacattgatatccagttttaccataaaatagaaagataagatgtctcttgatctactttcttggcagGATTGCAAAGGATCCTCGGTTTGAAAGATTACTCTGTACTCATAAGGGAACTTATGCTGATGACTGTATTGTTGATAGAGTTACTCAG
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ttcttgtatgatttatccctcaatctagtagagaaaaggaattatatt-attcttgcttcaatttctgggtgtatt-tatttatcccttt-tatacataacagGATTGCCAAGGATCCTCGATTTGAGAGAATACTATGTACTCATAAAGGGACCTATGCTGATGACTGCCTTGTTGAGAGAGTTACTCAG
upper sequence: Vv15s0046g02690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G31740.1 (Glycine max), 3'ss of exon 6
---agatgaatatttattcccaattgaagaaattgagacattgatatccagttttaccataaaatagaaagataagatgtctcttgatctactttcttggcagGATTGCAAAGGATCCTCGGTTTGAAAGATTACTCTGTACTCATAAGGGAACTTATGCTGATGACTGTATTGTTGATAGAGTTACTCAG
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atttcttgtatgatctatctcaatctagtagagaaaaggaattatattc--ttcttgcttcaatttttgggtgtatttatttatcccttt-tatacataacagGATTGCCAAGGATCCTCGATTTGAGAGAATACTATGTACTCATAAAGGGACCTATGCTGATGACTGCCTTGTTGAGAGAGTTACTCAG
upper sequence: Vv15s0046g02690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G26530.1 (Arabidopsis thaliana), 3'ss of exon 5
------------------------------agatgaat-atttattcccaattgaagaaattgagacattgatatccagttttaccataaaatagaa--agataagatgtctcttgat---ctactttc----ttggc-agGATTGCAAAGGATCCTCGGTTTGAAAGATTACTCTGTACTCATAAGGGAACTTATGCTGATGACTGTATTGTTGATAGAGTTACTCAG
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gtgtcatggctgagctggagaagttaggtcagaagtatcgtgtagctctgaggtaaagctttttgacttcaaagaagagtttttcagtagaattgtatcatttttgtcgattcttaataagttacttttatatttggttagGATTGCAAAAGATCCACGATTTGAAAGACTACCTTGTGTACTCAAAGGGACATATGCTGATGACTGTCTTGTGGACAGAGTTACTCAG
upper sequence: Vv15s0046g02690.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S153_101V6.1 (Physcomitrella patens), 3'ss of exon 5
agatgaatatttattcccaattgaagaaattgaga-cattgatatccagttttaccataaaatagaaagataagatgtctct-----tgatctactttcttggcagGATTGCAAAGGATCCTCGGTTTGAAAGATTACTCTGTACTCATAAGGGAACTTATGCTGATGACTGTATTGTTGATAGAGTTACTCAG
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-----taaatttggtatagatacaagacaatgtgaacgtttgcaaaca-tgaaaacattatcttgagtggtcgtatttcttagtgtatcgttgagatttttggcagGGTTGCTAAGGATCCACGATTTGAAACATTGCCTTGCACTCACAAGGGTACATATGCTGATGATTGTATTGTGGAGCGTGTTACTCGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagttttaccataaaatagaaagataagatgtctcttgatctactttcttggcagGATTGCAAAGGATCCTCGGTTTGAAAGATTACTCTGTACTCATAAGGGAACTTATGCTGATGACTGTATTGTTGATAGAGTTACTCAG
tcttgat putative branch site (score: 4)
tctactttctt CT-rich tract
ataaaatagaaagata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agatgaatatttattcccaattgaagaaattgagacattgatatccagttttaccataaaatagaaagataagatgtctcttgatctactttcttggcagGATTGCAAAGGATCCTCGGTTTGAAAGATTACTCTGTACTCATAAGGGAACTTATGCTGATGACTGTATTGTTGATAGAGTTACTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - -ttcccaa
- - - - - - - - - - - gaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - accataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gataaga