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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catgtttagaaaccttcctgtggggatttttctatgacaatgtactttttaattttgtaaacttccatgagcgcttatgttcataataactgaaatgcagGTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGATAAGAACAAT

Basic information

species Vitis vinifera
transcript Vv14s0108g01110.t01
intron # 4
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|30131657|gb|CB916996.1|CB916996
EST:     GGAGGACAAGGATTTTTATTGAAACCTTTCTGCCTAAATTGGGGGTTGAG                         GTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGAT
genomic: GGAGGACAAGGATTTTTATTGAAACCTTTCTGCCTAAATTGGGGGTTGAGgtattgtttt ... tgaaatgcagGTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGAT
EST: gi|28969813|gb|CB348846.1|CB348846
EST:     GGAGGACAAGGATTTTTATTGAAACCTTTCTGCCTAAATTAGGGGTTGAG                         GTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGAT
genomic: GGAGGACAAGGATTTTTATTGAAACCTTTCTGCCTAAATTGGGGGTTGAGgtattgtttt ... tgaaatgcagGTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGAT
EST: gi|30128490|gb|CB913829.1|CB913829
EST:     GGAGGACAAGGATTTTTATTGAAACCTTTCTGCCTAAATTGGGGGTTGAG                         GTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGAT
genomic: GGAGGACAAGGATTTTTATTGAAACCTTTCTGCCTAAATTGGGGGTTGAGgtattgtttt ... tgaaatgcagGTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGAT
EST: gi|30133528|gb|CB918867.1|CB918867
EST:     GGAGGACAAGGATTTTTATTGAAACCTTTCTGCCTAAATTGGGGGTTGAG                         GTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGAT
genomic: GGAGGACAAGGATTTTTATTGAAACCTTTCTGCCTAAATTGGGGGTTGAGgtattgtttt ... tgaaatgcagGTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGAT
EST: gi|161714535|gb|FC062985.1|FC062985
EST:     GGAGGACAAGGATTTTTATTGAAACCTTTCTGCCTAAATTGGGGTTTGAG                         GTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGAT
genomic: GGAGGACAAGGATTTTTATTGAAACCTTTCTGCCTAAATTGGGGGTTGAGgtattgtttt ... tgaaatgcagGTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttaattttgtaaacttccatgagcgcttatgttcataataactgaaatgcagGTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGATAAGAACAAT
                                      taataac  putative branch site (score: 1)
                             ttatgttcataataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catgtttagaaaccttcctgtggggatttttctatgacaatgtactttttaattttgtaaacttccatgagcgcttatgttcataataactgaaatgcagGTAACTGTCATCGACCCTGCTGATACGGAAGCTCTGAAATCTGCACTGGATAAGAACAAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
catgttt
- - - - - - ccttcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttatg