Sequence
atgc intronic sequence ATGC exonic sequence...tgcatgctttcacatacaaatgtttttgtgtgtatatctatgtgcatatgtatggatctatgtatagacatagttatagctaaaggattggttttactagGCTGCTACAGGAGAAGAAGTCTCTGCTGAGGATTTGGGAGGTGCAACTGTGCATTGCAAAACATCAGGGGTTTCAGATTATTTTGCTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0063g00290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G14860.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------------tgcatg-ctttcacatacaaatgtttttgtgtgtatatctatgtgcatatgtatgg---atctatgtatagacatagttatagctaaaggattggttttactagGCTGCTACAGGAGAAGAAGTCTCTGCTGAGGATTTGGGAGGTGCAACTGTGCATTGCAAAACATCAGGGGTTTCAGATTATTTTGCTCAAG
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gttagctctagctactcttgtgctccaaaatgttttgtatgataatctctggctatttctatgttcttgaattttaaaatatgtttcttttaaatttcaatattttgacat---taacaatgtgttgatgtattttttatgcatttatgaccaaaattaaaccttaattaaatgattttttagGCTGCCACTGGAGAAGAAGTCTCAGCAGAAGATTTGGGAGGTGCGACTGTGCACTGCAAGACATCAGGGGTTTCTGATTATTTTGCTCAAG
upper sequence: Vv03s0063g00290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G33620.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------------tgcatgctttcacatacaaatgtttttgtgtgtata-tctatgtgcatatgtatggatctatgtatagacatagttatagctaaaggattggttttactagGCTGCTACAGGAGAAGAAGTCTCTGCTGAGGATTTGGGAGGTGCAACTGTGCATTGCAAAACATCAGGGGTTTCAGATTATTTTGCTCAAG
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gtttgctctagctactcttgtactctaaaatactgtgtgataatctctggctatttctatgttcttgatttttaaaatctgttt-cttttaaatttcaatattttaacactaacaatgtgtttgtgtattt-tctatgcatttataaccaaaattaaccttaattaaatgatttta-tagGCTGCCACTGGAGAAGAAGTCTCAGCAGAGGATTTGGGAGGTGCTACTGTGCACTGCAAGACGTCAGGTGTTTCTGATTATTTTGCTCAAG
upper sequence: Vv03s0063g00290.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G34030.1 (Arabidopsis thaliana), 3'ss of exon 3
tgcatgctttcacatacaaatgtttttgtgtgtatatctatgtgcatatgtatggatctatgtatagacatagttatagctaaaggattggttttactagGCTGCTACAGGAGAAGAAGTCTCTGCTGAGGATTTGGGAGGTGCAACTGTGCATTGCAAAACATCAGGGGTTTCAGATTATTTTGCTCAAG
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-gtcaattttctcaagttactttctctctctctctctctcgttctagtcttaagtagtttcttgagaatctaacgctaaatgaaaaagct-tttgaacagGCTGCTACAGGAGAAGAAGTTTCAGCTGAGGATTTAGGAGGCGCCACTGTTCACTGTACTGTGTCCGGTGTGTCAGATTATTTTGCTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgtatggatctatgtatagacatagttatagctaaaggattggttttactagGCTGCTACAGGAGAAGAAGTCTCTGCTGAGGATTTGGGAGGTGCAACTGTGCATTGCAAAACATCAGGGGTTTCAGATTATTTTGCTCAAG
agctaaa putative branch site (score: 3)
ttttact putative PPT
atagttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcatgctttcacatacaaatgtttttgtgtgtatatctatgtgcatatgtatggatctatgtatagacatagttatagctaaaggattggttttactagGCTGCTACAGGAGAAGAAGTCTCTGCTGAGGATTTGGGAGGTGCAACTGTGCATTGCAAAACATCAGGGGTTTCAGATTATTTTGCTCAAG
-gcatgct
- - - - - cacatac
- - - - - - - - - - - - - tgtgtgt
- - - - - - - - - - - - - - - - - - - tatgtgc
- - - - - - - - - - - - - - - - - - - - - - - - tgtatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaagga