Sequence
atgc intronic sequence ATGC exonic sequence...tactttttgaatatttgaccacttgttattgtctcttgtgattccatattgttcttcatgtgtataagtttgtctgaaatctgaatgagactgcttgcagCAAGCATACTTCAAATGCGCATACGAGTGCTTCGATAGGAAAAGAAAGCAAGAAGAAATAAGCAACTGTGTTGAACATTGCAGTGTTCCAGTTGTTAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g02200.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G05730.1 (Arabidopsis thaliana), 3'ss of exon 1
tactttttgaatatttgaccacttgttattgtctcttgtgattccatattgttcttcatgtgtataagtt--tgtctgaaatctgaatga--gactgcttgcagCAAGCATACTTCAAATGCGCATACGAGTGCTTCGATAGGAAAAGAAAGCAAGAAGAAATAAGCAACTGTGTTGAACATTGCAGTGTTCCAGTTGTTAATG
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tacagct---atattagtataactcaagttgtatgaaagcgtattgttttcatatttatttgt-taagttgatgaatcaaacccggaaaattgatcaattgcagCAAGCCTATTTCAAATGTGCATACGAGTGCTTTGACAGAAATAGGAAGCAAGAGGAGATAGCCAACTGTGTTGAGCACTGCAGTGTTCCAGTTGTCAATG
upper sequence: Vv05s0077g02200.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G31725.1 (Arabidopsis thaliana), 3'ss of exon 1
tactttttgaatatttgaccacttgttattgtctcttgtgattccatattgttcttcatgtgtataagtttgtctgaaatctg--aatgagactgct--tgcagCAAGCATACTTCAAATGCGCATACGAGTGCTTCGATAGGAAAAGAAAGCAAGAAGAAATAAGCAACTGTGTTGAACATTGCAGTGTTCCAGTTGTTAATG
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---gttattaacaccttctcttgtgtttttgggttgctatattgagttatatgatccgttgattcaaattaat-taaaccctgacaacgatatcattgttgcagCAAGCTTATTTCAAATGTGCATATGAGTGCTTTGATAGAAGAAGAAAGCAAGAGGAGATAAGTAACTGCGTCGAGCACTGCAGTGTTCCCGTTGTCAAAT
upper sequence: Vv05s0077g02200.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G43720.1 (Arabidopsis thaliana), 3'ss of exon 1
-----tactttttgaatatttgaccacttgttattgtctcttgtgattccatattgttcttcatgtgtataagtttgtctgaaatctgaatgagactgcttgcagCAAGCATACTTCAAATGCGCATACGAGTGCTTCGATAGGAAAAGAAAGCAAGAAGAAATAAGCAACTGTGTTGAACATTGCAGTGTTCCAGTTGTTAATG
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cgaagaagccattggatatgt----acttggacttagtttgctt-actgcgtagtttgagatttatataagagttagttatttttgtgcttttgtgttgatgcagAAGGCATATTTCAAATGTGCATACGAGTGCTTTGATAGGACAAGAACACACGCTGAGATTAGTCGATGTGCAGAGAGTTGCAGTGTTCCTATCACAAATGMapped 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|87586132|gb|DY474572.1|DY474572EST: GTCAATTTCACTCTACAG CAAGCCTACTTCAAATGCGCATACGAGTGCTTCGATAGGAAAAGAAAGCAA
genomic: GTCAATTTCACTCTACAGgtgtctctct ... ctgcttgcagCAAGCATACTTCAAATGCGCATACGAGTGCTTCGATAGGAAAAGAAAGCAA
EST:
gi|110383512|gb|EC947890.1|EC947890EST: CTCAAGCCCAACTCTCTGGTGTTCAAGATCATGTCAATTTCACTCTACAG CAAGCATACTTCAAATGCGCATACGAGTGCTTCGATAGGAAAAGAAAGCAA
genomic: CTCAAGCCCAACTCTCTGGTGTTCAAGATCATGTCAATTTCACTCTACAGgtgtctctct ... ctgcttgcagCAAGCATACTTCAAATGCGCATACGAGTGCTTCGATAGGAAAAGAAAGCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattgttcttcatgtgtataagtttgtctgaaatctgaatgagactgcttgcagCAAGCATACTTCAAATGCGCATACGAGTGCTTCGATAGGAAAAGAAAGCAAGAAGAAATAAGCAACTGTGTTGAACATTGCAGTGTTCCAGTTGTTAATG
tataagttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tactttttgaatatttgaccacttgttattgtctcttgtgattccatattgttcttcatgtgtataagtttgtctgaaatctgaatgagactgcttgcagCAAGCATACTTCAAATGCGCATACGAGTGCTTCGATAGGAAAAGAAAGCAAGAAGAAATAAGCAACTGTGTTGAACATTGCAGTGTTCCAGTTGTTAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - ccacttg
- - - - - - - - - - - - - - -tgtctct
- - - - - - - - - - - - - - - - - - - tgattcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgaatg