Sequence
atgc intronic sequence ATGC exonic sequence...cttatttaatttatctaataccgtctattttttaacttggagcaaattgcagaaagtggtaatttttctgaaatatgactcattgtgcttgtttctgcagGATTTTAGCAAGTTTGTACTCTGGAACTGTGTGCATCTGGAACTACCAGTCACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G03890.1 (Glycine max), 3'ss of exon 3
cttatttaatttatctaataccgtctattttttaacttggagcaaattgcagaaagt-ggtaatttttctgaaatatgactcattgtgcttgtttctgcagGATTTTAGCAAGTTTGTACTCTGGAACTGTGTGCATCTGGAACTACCAGTCACAG
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-ctgtctgttacatgggactactgctgacgtagaaatataatcaaaaagtagatagttggacgttttgctgaatcgtctgatgttaccatcattaatgcagGATTCTAGCAAGTTTGTACTCTGGAACTGTCTGTATCTGGAACTACCAATCTCAG
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G22140.1 (Glycine max), 3'ss of exon 3
cttatttaatttat-ctaataccgtctattttttaacttggagcaaattgcagaaagtggtaattttt-ctgaaatatgactcattgtgcttgtttctgcagGATTTTAGCAAGTTTGTACTCTGGAACTGTGTGCATCTGGAACTACCAGTCACAG
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--tgcttacgttattcttttactgtggagtttagaaagataattaaatagtagatacttggactttttgctgaatcatgtgatgttaccatcgttaatgcagGATTCTAGCAAGTTTGTACTCTGGAACTGTCTGTATCTGGAACTACCAATCTCAG
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G43680.2 (Glycine max), 3'ss of exon 3
---------------------------------------------------------------cttattt---aatttatctaat-----accgtctattttttaac-ttggagcaaattgcagaa----agtggtaatttttctgaaata-tgactcattgt--gcttgtttctgcagGATTTTAGCAAGTTTGTACTCTGGAACTGTGTGCATCTGGAACTACCAGTCACAG
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gtaatgcctcctctgctgctgttgttttgtttctgaattcaatttatgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaataccgatgtttgttgtacaactttactgttggcatcatttaattaattgcttgatgcaaacttgttaattcagGATTCTGGCGAGTTTATACTCTGGAACTGTCTGCATCTGGAACTACCAATCTCAG
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------------------cttattt---aatttatctaatac-cgtctattttttaacttggagcaa-----attgcagaa----agtggtaatttttctgaaata--tgactcat-tgtgcttgtttctgcagGATTTTAGCAAGTTTGTACTCTGGAACTGTGTGCATCTGGAACTACCAGTCACAG
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gtaatgcctcctctgctgctgttgttttctttctgaattcgattcctgatgtgaagctaacatcataattgggaatatctgtagtttgtgaggatttagtcactaatagtgatgtttgttatacgagtttactgttggcatcatttaattaattgcttcatgcaaccttgttaattcagGATTCTGGCTAGTTTATACTCTGGAACTGTCTGTATCTGGAACTACCAGTCTCAG
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G15980.2 (Arabidopsis thaliana), 3'ss of exon 3
-----------------------------------------------cttatttaatttatcta-ataccgtctattttttaacttggagcaaattgcagaaagtg---gtaatttttctg-------aaata--tgactcattgtgct---tgtttctgcagGATTTTAGCAAGTTTGTACTCTGGAACTGTGTGCATCTGGAACTACCAGTCACAG
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gtaatttcaaatttgattctgccatcttgcaacttagttatatgttatattttggatgtgttgatggaataacaattttcacagttgctgtgggtagtactgtatgtttgtacttttattgctgctacaaatgactgacttaataaacaacacggtgttacagGATTCTAGCAAGTTTGTATTCTGGAACCGTGTGTATTTGGAACTACCAGACACAG
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G79990.1 (Arabidopsis thaliana), 3'ss of exon 7
cttatttaatttatctaataccgtctattttttaacttggagcaaattgcagaaagtggtaatttttctgaaatatgactcattgtgcttgtttctgcagGATTTTAGCAAGTTTGTACTCTGGAACTGTGTGCATCTGGAACTACCAGTCACAG
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---------gtaatttgagcgcattcattcttcattgctttatatatcgttaa----ggaaac-------aagtactaatccata-gattgtttc---agGATCCTGGCAAGTTTGTATTCCGGAACTCTGTGCATCTGGAATTACCAGACCCAG
upper sequence: Vv09s0002g04810.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G52360.1 (Arabidopsis thaliana), 3'ss of exon 3
cttatttaatttatctaataccgtctattttttaacttggagcaaattgcagaaagtggtaatttttctgaaatatgactcattgtgcttgtttctgcagGATTTTAGCAAGTTTGTACTCTGGAACTGTGTGCATCTGGAACTACCAGTCACAG
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-----gtaatttcaagctttcgctttgctttcatacttttgtaccgttatttctgctactaacgactgggatggtaaaaacattgg-------tttgcagGATTCTTGCAAGTTTGTATTCTGGAACCTTGTGTATTTGGAACTACCAGACGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgcagaaagtggtaatttttctgaaatatgactcattgtgcttgtttctgcagGATTTTAGCAAGTTTGTACTCTGGAACTGTGTGCATCTGGAACTACCAGTCACAG
cttgtttct CT-rich tract
taatttttctgaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttatttaatttatctaataccgtctattttttaacttggagcaaattgcagaaagtggtaatttttctgaaatatgactcattgtgcttgtttctgcagGATTTTAGCAAGTTTGTACTCTGGAACTGTGTGCATCTGGAACTACCAGTCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - -tggagca
- - - - - - - - - - - - - - - - - - - - - - - -tgcagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatatga