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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaaaatcaaacctgtttttatcctttatttaccttttaagaaaagcaactgttattttgaattttttttaccttgataattttttaaatcattggtgcagTCAACTGGAACATTTTTTGCTGCTGCACGGCTTGCGGGTGCTACACCCCCTCCACCACATGTGCTCAGTCGAAGCATTGGTCTGCAG

Basic information

species Vitis vinifera
transcript Vv18s0001g11260.t01
intron # 8
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|46917625|gb|CN546954.1|CN546954
EST:     GCTGCACTTGTTACATCAGCTGAG                         TCAACTGGAACATTTTTTGCTGCTGCACGGCTTGCGGGTGCTACACCCCCT
genomic: GCTGCACTTGTTACATCAGCTGAGgtttagtcac ... attggtgcagTCAACTGGAACATTTTTTGCTGCTGCACGGCTTGCGGGTGCTACACCCCCT
EST: gi|110718405|gb|EE095198.1|EE095198
EST:     CAAGCCATGTCTTTGGGATGATGGGAGCTACACTTGTTACATCAGCAGAG                         TCAACTGGAACATTTTTTGCTGCTGCACGGCTTGCGGGTGCTACACCCCCT
genomic: CAAGCCATGTCTTTGGGATGATGGGAGCTGCACTTGTTACATCAGCTGAGgtttagtcac ... attggtgcagTCAACTGGAACATTTTTTGCTGCTGCACGGCTTGCGGGTGCTACACCCCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caactgttattttgaattttttttaccttgataattttttaaatcattggtgcagTCAACTGGAACATTTTTTGCTGCTGCACGGCTTGCGGGTGCTACACCCCCTCCACCACATGTGCTCAGTCGAAGCATTGGTCTGCAG
                         ccttgat  putative branch site (score: 5)
      ttattttgaatttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gaaaatcaaacctgtttttatcctttatttaccttttaagaaaagcaactgttattttgaattttttttaccttgataattttttaaatcattggtgcagTCAACTGGAACATTTTTTGCTGCTGCACGGCTTGCGGGTGCTACACCCCCTCCACCACATGTGCTCAGTCGAAGCATTGGTCTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - caaacct
- - - - - - - - - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - - - gcaactg