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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCAGTACACGTTCGATAGAGGGTCCAACAATCCTCCAACCTCCATCATATTTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAGgtatcatattcagtcgtgtcttttctcacttgtatatcaaaatcacatgatgactaagtattgttgtatcttcaatttaattttgcgaagacacatggac...

Basic information

species Vitis vinifera
transcript Vv00s0253g00150.t01
intron # 2
splice site 5'
intron type U2

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|26264237|gb|CA815300.1|CA815300
EST:     TTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAG                         GATTTGA-GCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA
genomic: TTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAGgtatcatatt ... ttttttatagGATTTGACGCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA
EST: gi|26266280|gb|CA817343.1|CA817343
EST:     TTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAG                         GATTTGA-GCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA
genomic: TTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAGgtatcatatt ... ttttttatagGATTTGACGCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA
EST: gi|26264220|gb|CA815283.1|CA815283
EST:     TTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAG                         GATTTGA-GCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA
genomic: TTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAGgtatcatatt ... ttttttatagGATTTGACGCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA
EST: gi|26264297|gb|CA815360.1|CA815360
EST:     TTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAG                         GATTTGACGCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA
genomic: TTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAGgtatcatatt ... ttttttatagGATTTGACGCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA
EST: gi|26266208|gb|CA817271.1|CA817271
EST:     TTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAG                         GATTTGACGCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA
genomic: TTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAGgtatcatatt ... ttttttatagGATTTGACGCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA
EST: gi|26264636|gb|CA815699.1|CA815699
EST:     TTAGCCCGGAGGACTTGACAGCCAAGCTTTATCAGCTCTCCCCACCTGAG                         GATTTGACGCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA
genomic: TTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAGgtatcatatt ... ttttttatagGATTTGACGCTTGCAACCACGTTGATGAGGCCCACCAAGCTCTTTAGAGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCAGTACACGTTCGATAGAGGGTCCAACAATCCTCCAACCTCCATCATATTTAGCCCGGAGGACTTGGCAGCCAAGCTTTATCAGCTCTCCCCACCTGAGgtatcatattcagtcgtgtcttttctcacttgtatatcaaaatcacatgatgactaagtattgttgtatcttcaatttaattttgcgaagacacatggac

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atcaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagaca