Sequence
atgc intronic sequence ATGC exonic sequence...agtctgcattcttcgattgtagtttatttgaaataatgatatctctgcgtttggtctcaacttttgaactttgatgattataagaaatgatatcttatagGAAAAAGATGCGGCACTAGGAAATGGTGGACTGGGAAGGCTTGCTTCATGCTTTCTTGACTCCATGGCAACATTAAATTTGCCTGCGTGGGGATATGGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g63270.1 (Oryza sativa), 3'ss of exon 2
agtctgcattcttcgattgtagtttatttgaaataatg-atatctct---gcgtttggtctcaacttttgaactttgatgattataagaaatgatatct-tatagGAAAAAGATGCGGCACTAGGAAATGGTGGACTGGGAAGGCTTGCTTCATGCTTTCTTGACTCCATGGCAACATTAAATTTGCCTGCGTGGGGATATGGTT
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-----ttagatttgatccgatgtttaaccaaaataaagtatggttcaaaagcatagaagttgtaccgtatccattttctaaacatgtgttctgctctgtactcagGAAAAAGATGCAGCTCTGGGAAATGGTGGCTTGGGTAGGCTCGCATCTTGCTTTTTGGATTCGATGGCAACACTAAATTTGCCTGCTTGGGGATATGGTC
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G085577_T01 (Zea mays), 3'ss of exon 2
agtctgcattcttcgattgtagtttatttgaaataatgatatctctgcgtttggtctcaacttttgaactttgatgatta-taagaaatgatatctt-atagGAAAAAGATGCGGCACTAGGAAATGGTGGACTGGGAAGGCTTGCTTCATGCTTTCTTGACTCCATGGCAACATTAAATTTGCCTGCGTGGGGATATGGTT
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--caaggattcatggcatctgagttttactttccaattgggatttcataaatttccataattttccaatgatgcaaattaatatttaacgattttttcacagGAAAAAGATGCAGCTCTAGGGAATGGCGGCTTGGGTAGGCTTGCATCTTGCTTTTTGGATTCAATGGCAACATTGAATTTGCCTGCTTGGGGCTATGGCC
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G45210.1 (Glycine max), 3'ss of exon 3
agtctgcattcttcgattgta---gtttatttgaaataatgat--atctctgcgtttggtctcaacttttgaactttgatga-ttataagaaatgatatcttatagGAAAAAGATGCGGCACTAGGAAATGGTGGACTGGGAAGGCTTGCTTCATGCTTTCTTGACTCCATGGCAACATTAAATTTGCCTGCGTGGGGATATGGTT
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----agcattttcgaaaagtctgcatttcttcatatgtatgattggttttaatatctagtgtctaaaactca--tttgctgaaccattacacatgcaactttgcagGAGAAGGATGCAGCACTAGGAAATGGTGGTCTTGGTAGGCTTGCTTCTTGCTTTCTGGATTCCATGGCAACACTTAATTTGCCTTCTTGGGGGTATGGTT
upper sequence: Vv06s0004g06020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G07480.1 (Glycine max), 3'ss of exon 2
agtctgcattcttcgattgta---gtttatttgaaataatgat--atctctgcgtttggtctcaacttttgaactttgatg-attataagaaatgatatcttatagGAAAAAGATGCGGCACTAGGAAATGGTGGACTGGGAAGGCTTGCTTCATGCTTTCTTGACTCCATGGCAACATTAAATTTGCCTGCGTGGGGATATGGTT
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---aagcattttccaaaagtctgcatttcttcatatgtatggttggttttaatatctagtgtataaaactca--tttgctggaccattaaacgtgcaactttgcaGGAGAAGGATGCAGCACTAGGAAATGGTGGTCTTGGTAGGCTTGCTTCTTGCTTTCTGGATTCCATGGCAACACTTAATTTGCCTTCTTGGGGGTATGGT-Mapped 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|122689432|gb|EC939313.1|EC939313EST: CTGATGCTTTAAATAAGCTGGGGCATGGACTTGAGGAAATTGCTGAGCAG GAAAAAGATGCGGCACTAGGAAATGGTGGACTGGGAAGGCTTGCTTCATGC
genomic: CTGATGCTTTAAATAAGCTGGGGCATGGACTTGAGGAAATTGCTGAGCAGgttgccccat ... tatcttatagGAAAAAGATGCGGCACTAGGAAATGGTGGACTGGGAAGGCTTGCTTCATGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcgtttggtctcaacttttgaactttgatgattataagaaatgatatcttatagGAAAAAGATGCGGCACTAGGAAATGGTGGACTGGGAAGGCTTGCTTCATGCTTTCTTGACTCCATGGCAACATTAAATTTGCCTGCGTGGGGATATGGTT
ctttgat putative branch site (score: 5)
attataagaaatgata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtctgcattcttcgattgtagtttatttgaaataatgatatctctgcgtttggtctcaacttttgaactttgatgattataagaaatgatatcttatagGAAAAAGATGCGGCACTAGGAAATGGTGGACTGGGAAGGCTTGCTTCATGCTTTCTTGACTCCATGGCAACATTAAATTTGCCTGCGTGGGGATATGGTT
- - -gcattct
- - - - - - - - - - - - - - -gaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - tctcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataagaa