Sequence
atgc intronic sequence ATGC exonic sequence...atttgttctaaaagtaatccaattagctaggcttgttctatttgaatggttgtgtgtatttaacactcaaaagtaatttacttgtgttgtgtggcctcagATAGGATCTACTGAGTGGGTCGAACAAAACCTTTTGAATCTGGGTTCTAAAGTTGTAGCATACCTTAATGTAGACTGTGCAGTTCAAGGACCAGGCTTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0352g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G36430.1 (Glycine max), 3'ss of exon 2
atttgttctaaaagtaatccaattagctaggcttgttctatttgaatggttgtgtgtatt----taacactcaaaagtaatttacttgtgttgtgtggcctcagATAGGATCTACTGAGTGGGTCGAACAAAACCTTTTGAATCTGGGTTCTAAAGTTGTAGCATACCTTAATGTAGACTGTGCAGTTCAAGGACCAGGCTTCT
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--ttgatatgctcactatcaaatcaaatgagtttgctttaattcaataatgctgtcatttcctgcaatattctctctaaatcaagttaatctgttta--tgtagATAGGATCCACTGAGTGGGTTGAACAAAACCTTATTAATCTAGGTTCCAAAGCTGTAGCATACCTTAATGTGGACTGTGCTGTGCAAGGTCCTGATTTCT
upper sequence: Vv00s0352g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G39080.1 (Glycine max), 3'ss of exon 2
atttgttctaaaagtaatccaattagctaggcttgttctatttgaatggttgtgtgtatt----taacactcaaaagtaatttacttgtgttgtgtggcctcagATAGGATCTACTGAGTGGGTCGAACAAAACCTTTTGAATCTGGGTTCTAAAGTTGTAGCATACCTTAATGTAGACTGTGCAGTTCAAGGACCAGGCTTCT
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--ttgatatgctcactgtcaaatcaaatgagtttgctttatttcaataatggtgtcatttcctgcaatattcgctctaaatcaagtttatctgttta--tgtagATAGGATCCACTGAGTGGGTTGAACAAAACCTTATTAATCTTGGTTCCAAAGCTGTAGCATACCTTAATGTGGACTGTGCTGTGCAAGGTCCTGGTTTCT
upper sequence: Vv00s0352g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G11100.1 (Glycine max), 3'ss of exon 3
atttgttctaaaagtaatccaattagctaggcttgttctatttgaatggttgtgtgtatttaacactcaaaagtaatttacttgtgttgtgtggcctca--------gATAGGATCTACTGAGTGGGTCGAACAAAACCTTTTGAATCTGGGTTCTAAAGTTGTAGCATACCTTAATGTAGACTGTGCAGTTCAAGGACCAGGCTTCT
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--gtgcttt-----ttatcaagttagatcagtttgctttatttcaattatggtgt-catgtcattcccggtaatgtgctctctaaatcaagtttctccatttatgtagATAGGATCCACTGAGTGGGTTGAACAAAACCTTGTCAATCTTCGTTCCAAAGCTGTAGCATACCTCAATGTAGACTGTGCTGTTCAAGGGCCTGGTTTCT
upper sequence: Vv00s0352g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G23220.1 (Glycine max), 3'ss of exon 2
atttgttctaaaagtaatccaattagctaggcttgttctatttgaatggttgtgtgtatt----taacactcaaaagtaatttacttgtgttgtgtggcctcagATAGGATCTACTGAGTGGGTCGAACAAAACCTTTTGAATCTGGGTTCTAAAGTTGTAGCATACCTTAATGTAGACTGTGCAGTTCAAGGACCAGGCTTCT
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--cagatatgctcactatcaaatcaaatgagtttgctttatttcaataatggtgtcatttcctgcaatattctctcgaaatcaagtttatctgttta--tgtagATAGGATCCACTGAGTGGGTTCAACAAAACCTTAATAATCTTCGTTCCAAAGCTGTAGCATACCTTAATGTGGACTGTGCTATGCAAGGTCTTGGTTGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggttgtgtgtatttaacactcaaaagtaatttacttgtgttgtgtggcctcagATAGGATCTACTGAGTGGGTCGAACAAAACCTTTTGAATCTGGGTTCTAAAGTTGTAGCATACCTTAATGTAGACTGTGCAGTTCAAGGACCAGGCTTCT
atttaac putative branch site (score: 3)
aaaagtaatttactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttgttctaaaagtaatccaattagctaggcttgttctatttgaatggttgtgtgtatttaacactcaaaagtaatttacttgtgttgtgtggcctcagATAGGATCTACTGAGTGGGTCGAACAAAACCTTTTGAATCTGGGTTCTAAAGTTGTAGCATACCTTAATGTAGACTGTGCAGTTCAAGGACCAGGCTTCT
- - - -ctaaaag
- - - - - aaagtaa
- - - - - - - -aatccaa
- - - - - - - - - - - - - - -ggcttgt
- - - - - - - - - - - - - - - - - - - - - tgaatgg
- - - - - - - - - - - - - - - - - - - - - - - - - tgtgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acactca