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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagttatttgaactcatactcttttatctcattaccttcgtgtcaccatcagatatcaccttttaattcttgcttgcagGCCCTTCTTGCATTCATCACGGAGCATGAGAATCTATTTACAGCCACAGA

Basic information

species Vitis vinifera
transcript Vv13s0019g04770.t01
intron # 23
splice site 3'
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|110363229|gb|EC926805.1|EC926805
EST:     GATTAGATCGCATTCGCACTTACTATGAACTTCTAAACATGCCATTCGAG                         GCCCTTCTTGCATTCATCACGGAGCATGAGAATCTATTTACAGCCACAGA
genomic: GATTAGATCACATTCGCACTTACTATGAACTTCTAAACATGCCATTCGAGgcaagttatt ... ttgcttgcagGCCCTTCTTGCATTCATCACGGAGCATGAGAATCTATTTACAGCCACAGA
EST: gi|110717691|gb|EE093767.1|EE093767
EST:     GATTAGATCGCATTCGCACTTACTATGAACTTCTAAACATGCCATTCGAG                         GCCCTTCTTGCATTCATCACGGAGCATGAGAATCTATTTACAGCCACAGA
genomic: GATTAGATCACATTCGCACTTACTATGAACTTCTAAACATGCCATTCGAGgcaagttatt ... ttgcttgcagGCCCTTCTTGCATTCATCACGGAGCATGAGAATCTATTTACAGCCACAGA
EST: gi|30303826|gb|CB980620.1|CB980620
EST:     GATTAGATCACATTCGCACTTACTATGAACTTTTAAACATGCCATTCGAG                         GCCCTTCTTGCATTCATCACGGAGCATGAGAATCTATTTACAGCCACAGA
genomic: GATTAGATCACATTCGCACTTACTATGAACTTCTAAACATGCCATTCGAGgcaagttatt ... ttgcttgcagGCCCTTCTTGCATTCATCACGGAGCATGAGAATCTATTTACAGCCACAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatctcattaccttcgtgtcaccatcagatatcaccttttaattcttgcttgcagGCCCTTCTTGCATTCATCACGGAGCATGAGAATCTATTTACAGCCACAGA
                                    ttttaat  putative branch site (score: 3)
                                          ttcttgctt  CT-rich tract
                                    ttttaattctt  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcaagttatttgaactcatactcttttatctcattaccttcgtgtcaccatcagatatcaccttttaattcttgcttgcagGCCCTTCTTGCATTCATCACGGAGCATGAGAATCTATTTACAGCCACAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA