Sequence
atgc intronic sequence ATGC exonic sequence...cttattcttctcttgataagatcgagcacaggactatatgaaaaattaaactttttagaacacaattctcacatcctcgtcctacaaaatctctgtgcagGGGTGCATGACTCCTTCTGGACACATGCATGTGATGTTGACAAGATGAATCAGATACTTCGGGAAAAATTTGTAGAGCTTTACAGTATGCCAATACTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0037g00630.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os06g44230.1 (Oryza sativa), 3'ss of exon 17
cttattcttctcttgataagatcgagcacaggact---atatgaaaaattaaacttttta---gaacacaattctcacatcctcgtcctacaaaatctctgtgcagGGGTGCATGACTCCTTCTGGACACATGCATGTGATGTTGACAAGATGAATCAGATACTTCGGGAAAAATTTGTAGAGCTTTACAGTATGCCAATACTTGA
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-----tctgcacg-gagaagcttttagatactatttgcatttcattgtctacatcttttgtgcagttctaatctatgttgccttttgtccatgtacttcgatgcagGGGTGCATGACTCGTTTTGGGTGCATGCATGTGATGTTGATAAAATGAATCAGATACTGAGAGAACAATTTGTGGAGCTTTACAGCATGCCAATTCTTGA
upper sequence: Vv11s0037g00630.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA17G07940.1 (Glycine max), 3'ss of exon 17
cttattcttctcttgataagatcgagcacagg---actatatgaaaaattaaactttttagaacacaattctcacatcctcgtcctacaaaatctctgtgcagGGGTGCATGACTCCTTCTGGACACATGCATGTGATGTTGACAAGATGAATCAGATACTTCGGGAAAAATTTGTAGAGCTTTACAGTATGCCAATACTTGA
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-atgctcaattttgagaaaatttggtggcagggaaagtctattaaagaaaaactcttttatgttctggtgcttaaatttt-gtgaaatgca-tgtgtatgcagGGGTTCATGACTCGTTTTGGACACATGCATGTGACGTGGAGAAAATGAGTCAGATTCTTAGAGAAAAATTTGTGGAACTTTATAGCATGCCAATACTTGA
upper sequence: Vv11s0037g00630.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA04G24350.1 (Glycine max), 3'ss of exon 12
cttattcttctcttgataagatcgagcacaggactatatgaaaaattaaactttttagaacacaattctcac---atcctcgtcctacaaaatctctgtgcagGGGTGCATGACTCCTTCTGGACACATGCATGTGATGTTGACAAGATGAATCAGATACTTCGGGAAAAATTTGTAGAGCTTTACAGTATGCCAATACTTGA
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---atttggtggagggaaatgtctattggagaaatatgccttctttttcttttcttacatgtttcttcctgcttgatttttgagaaatgattattatttgcagGGGTTCATGATTCGTTTTGGACACACCCATGCGATGTTGAGAAAATGAATCAGATTCTAAGGGAAAAATTTGTGGAGCTTTATAACATGCCTATACTTGA
upper sequence: Vv11s0037g00630.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA06G24890.1 (Glycine max), 3'ss of exon 10
cttattcttctcttgataagatcgagcacaggactatatgaaaaattaaactttttagaacacaattctcacatcctcgtcctacaaaatctctgtgcagGGGTGCATGACTCCTTCTGGACACATGCATGTGATGTTGACAAGATGAATCAGATACTTCGGGAAAAATTTGTAGAGCTTTACAGTATGCCAATACTTGA
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gaaatttggtgtggggaaatgtctatgggagaaatatgccttctttttcttttcttatatgtttcttcctgcttaatttttgagaaatgattgtttgcagGGGTTCATGATTCGTTTTGGACACACCCATGCGATGTTGAGAAAATGAATCAGATTCTAAGAGAAAAATTTGTGGAGCTTTATAACATGCCTATACTTGA
upper sequence: Vv11s0037g00630.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT2G24120.1 (Arabidopsis thaliana), 3'ss of exon 17
cttattcttctcttgataagatcgagcacaggactatatgaaaaattaaactttttagaacacaattctcacatcctcgtcctacaaaatctctgtgcagGGGTGCATGACTCCTTCTGGACACATGCATGTGATGTTGACAAGATGAATCAGATACTTCGGGAAAAATTTGTAGAGCTTTACAGTATGCCAATACTTGA
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--------------gttagttctgtcaattcgacta-atggcctaccaa-----caaaaaaagaagtattatcttcttattgaatgcttgggttctgcagGTGTGCATGACTCATACTGGACCCATGCATGTGACGTTGACACAATGAACAGAATACTTAGAGAGAAATTCGTTGAGCTTTACAACACACCGATCCTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaactttttagaacacaattctcacatcctcgtcctacaaaatctctgtgcagGGGTGCATGACTCCTTCTGGACACATGCATGTGATGTTGACAAGATGAATCAGATACTTCGGGAAAAATTTGTAGAGCTTTACAGTATGCCAATACTTGA
ttctcac putative branch site (score: 2)
tctctgt putative PPT
tttttagaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttattcttctcttgataagatcgagcacaggactatatgaaaaattaaactttttagaacacaattctcacatcctcgtcctacaaaatctctgtgcagGGGTGCATGACTCCTTCTGGACACATGCATGTGATGTTGACAAGATGAATCAGATACTTCGGGAAAAATTTGTAGAGCTTTACAGTATGCCAATACTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - gataaga
- - - - - - - - - - - - - - caggact
- - - - - - - - - - - - - - - - - - - - - aaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaaaat