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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatccgcaataccaatttgcgtaagcatctctgtctctgattctctctttattaatacttgtgttttgtttggtgtggtttagATTGGTAGTAGGCTGAACTGGAGCAGAAACTATGCTGCTAAAGACATCAGATTCGGGGTTGAGGCTCGAGCCTTGATGCTTAAGGGCGTGGAAGAGCTCG

Basic information

species Vitis vinifera
transcript Vv05s0051g00340.t01
intron # 2
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|161718112|gb|FC066924.1|FC066924
EST:     GATCGCTAGGAACAGCACCCATCAG                         ATTGGTAGTAGGCTGAACTGGAGCAGAAACTATGCTGCTAAAGACATCAGA
genomic: GATCGCTAGGAACAGCACCCATCAGgtgagatccg ... tgtggtttagATTGGTAGTAGGCTGAACTGGAGCAGAAACTATGCTGCTAAAGACATCAGA
EST: gi|71859154|gb|DT008209.1|DT008209
EST:     GATCGCTAGGAACAGCACCCATCAG                         ATTGGTAGTAGGCTGAACTGGAGCAGAAACTATGCTGCTAAAGACATCAGA
genomic: GATCGCTAGGAACAGCACCCATCAGgtgagatccg ... tgtggtttagATTGGTAGTAGGCTGAACTGGAGCAGAAACTATGCTGCTAAAGACATCAGA
EST: gi|110731644|gb|EE106246.1|EE106246
EST:     GATCGCTAGGAACAGCACCCATCAG                         ATTGGTAGTAGGCTGAACTGGAGCAGAAACTATGCTGCTAAAGACATCAGA
genomic: GATCGCTAGGAACAGCACCCATCAGgtgagatccg ... tgtggtttagATTGGTAGTAGGCTGAACTGGAGCAGAAACTATGCTGCTAAAGACATCAGA
EST: gi|71859121|gb|DT008176.1|DT008176
EST:     GATCGCTAGGAACAGCACCCATCAG                         ATTGGTAGTAGGCTGAACTGGAGCAGAAACTATGCTGCTAAAGACATCAGA
genomic: GATCGCTAGGAACAGCACCCATCAGgtgagatccg ... tgtggtttagATTGGTAGTAGGCTGAACTGGAGCAGAAACTATGCTGCTAAAGACATCAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctctgtctctgattctctctttattaatacttgtgttttgtttggtgtggtttagATTGGTAGTAGGCTGAACTGGAGCAGAAACTATGCTGCTAAAGACATCAGATTCGGGGTTGAGGCTCGAGCCTTGATGCTTAAGGGCGTGGAAGAGCTCG
                     tattaat  putative branch site (score: 2)
                 tctttattaatactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagatccgcaataccaatttgcgtaagcatctctgtctctgattctctctttattaatacttgtgttttgtttggtgtggtttagATTGGTAGTAGGCTGAACTGGAGCAGAAACTATGCTGCTAAAGACATCAGATTCGGGGTTGAGGCTCGAGCCTTGATGCTTAAGGGCGTGGAAGAGCTCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT