Sequence
atgc intronic sequence ATGC exonic sequence...tcagttgactttccaacaatactttacggacatgatctcctgaatggcagtggtaatggtgttgaaaaacagtaaccgcttttcaattctggttcctcagGCAACAATAAATGTTGGAGGATGCTTGCTGAATGCAATTACAATTGAGCATTTCATCTTGAGACTGCCTTATCACTTGAAATAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0804g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G39120.1 (Glycine max), 3'ss of exon 8
tcagttgactttccaacaatactttacggacatgatctcctgaatggcagtggtaatggt---gttgaaaaacagtaaccgcttttcaattctggttcctcagGCAACAATAAATGTTGGAGGATGCTTGCTGAATGCAATTACAATTGAGCATTTCATCTTGAGACTGCCTTATCACTTGAAATAT
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tccacaaccactatta-aatatttttatgtcctgtcaagatgaaactctaggtaaatattcaagttgactaaaacttggcaatgcttgatt--gcttgtgcagGCAACAATAGAAGTGGGGGGGCAGCTGCTCAATGCAATTACAATAGAGCACTTCATCTTGAGACTTCCTTATCACCTGATGTTT
upper sequence: Vv00s0804g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G06130.1 (Glycine max), 3'ss of exon 6
-tcagttgactttccaacaatactttacggacatgatctcctg----aatggcagtggtaatggtgttgaaaaacagtaaccgcttttcaattctggttcctcagGCAACAATAAATGTTGGAGGATGCTTGCTGAATGCAATTACAATTGAGCATTTCATCTTGAGACTGCCTTATCACTTGAAATAT
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acgcatgcacatacacacacta--ttaaatatttagtgtcctgtcaagatgaaactttagataaacattcaagttaactaaaacttggcaatgcttgtgc---agGCAACAATAGAAGTGGGGGGCCTGCAGCTCAATGCAATTACAATAGAGCACTTCATCTTGAGACTTCCTTATCACCTGATGTTT
upper sequence: Vv00s0804g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G20320.1 (Glycine max), 3'ss of exon 9
-tcagttgactttccaacaatactttacggac-atgatctcctgaatggcagtggtaatggtgttgaaaaacagtaaccgcttttcaattctggttcctcagGCAACAATAAATGTTGGAGGATGCTTGCTGAATGCAATTACAATTGAGCATTTCATCTTGAGACTGCCTTATCACTTGAAATAT
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tttaacaaacactacttaagtatgtaatgttctatcaatatcaatatatatctctaaatcaagatccaagttaactaaaatatggcaatgcatgtg--tcagGCAACGATAGTAGTGGGAGGCCAGTTTCTCAATGCAATCACAATAGAGCATTTTATCTTGAGACTGCCTTATCACCTCAAGTTT
upper sequence: Vv00s0804g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G37080.2 (Arabidopsis thaliana), 3'ss of exon 8
tcagttgactttccaacaatactttacggacatgatctcctgaatggcagtggtaatggtgttgaaaaacagtaaccgcttttcaattctggttcctcagGCAACAATAAATGTTGGAGGATGCTTGCTGAATGCAATTACAATTGAGCATTTCATCTTGAGACTGCCTTATCACTTGAAATAT
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---gtttagattcaaaccatattct---gacaatattttcggtttaaca-tgtt-----tattggttaactatattcatcttctctttgttgtt--tcagGCAACAATAATTGTGGGAGGACACTCGCTAAATGCAATCACAATCGAACATTTCATCTTGAGACTTCCATACCACTTGAAATTCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|37183652|gb|CF603006.1|CF603006EST: AGCATGGAGTGCCTGAGAATCCTGAAATGGTTGTAGCTCTGATGCAGAAG GCAACAATAAATGTTGGAGGATGCTTG
genomic: AGCATGGAGTGCCTGAGAATCCTGAAATGGTTGTAGCTCTGATGCAGAAGgtaagtctgt ... ggttcctcagGCAACAATAAATGTTGGAGGATGCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcagtggtaatggtgttgaaaaacagtaaccgcttttcaattctggttcctcagGCAACAATAAATGTTGGAGGATGCTTGCTGAATGCAATTACAATTGAGCATTTCATCTTGAGACTGCCTTATCACTTGAAATAT
cagtaac putative branch site (score: 2)
ttcctc putative PPT
ttttcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcagttgactttccaacaatactttacggacatgatctcctgaatggcagtggtaatggtgttgaaaaacagtaaccgcttttcaattctggttcctcagGCAACAATAAATGTTGGAGGATGCTTGCTGAATGCAATTACAATTGAGCATTTCATCTTGAGACTGCCTTATCACTTGAAATAT
- - - - - - ccaacaa
- - - - - - - - - - - - - - - catgatc
- - - - - - - - - - - - - - - - - - - - tgaatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaca