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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagattttctaatccgaaaaatcactttcttcacttaatttttatttggttgtaggtttggttaaccttttactttcatcagGCCCCCATGGATGGTGGAAACGGATCCAAAGGAGCTTGGATTGGGGATATACGTATGAGGGTGCTCACAAAGAAGTTCCAAGAACAGTTGGGAAATTTTT

Basic information

species Vitis vinifera
transcript Vv06s0061g00080.t01
intron # 12
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|28963432|gb|CB342465.1|CB342465
EST:     ATTCTTCTCAAACGTGCTGCCCAAGGAACAATCAACTTTATAATGAACAA                         GCCCCCATGGATGGTGGAAACGGATCCAAAGGAGCTTGGATTGGGGATACA
genomic: ATTCTTCTCAAACGTGCTGCCCAAGGAACAATCAACTTTATAATGAACAAgtaaagattt ... ctttcatcagGCCCCCATGGATGGTGGAAACGGATCCAAAGGAGCTTGGATTGGGGATATA
EST: gi|110416254|gb|EC982222.1|EC982222
EST:     ATTCTTCTCAAACGTGCTGCCCAAGGAACAATCAACTTTATAATGAACAA                         ACCCCCATGGATGGTGGAAACGGATCCAAAGGAGCTTGGATTGGGGATATA
genomic: ATTCTTCTCAAACGTGCTGCCCAAGGAACAATCAACTTTATAATGAACAAgtaaagattt ... ctttcatcagGCCCCCATGGATGGTGGAAACGGATCCAAAGGAGCTTGGATTGGGGATATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttcacttaatttttatttggttgtaggtttggttaaccttttactttcatcagGCCCCCATGGATGGTGGAAACGGATCCAAAGGAGCTTGGATTGGGGATATACGTATGAGGGTGCTCACAAAGAAGTTCCAAGAACAGTTGGGAAATTTTT
                                ggttaac  putative branch site (score: 3)
                                      ccttttactttcatc  CT-rich tract
       ttaatttttatttggt  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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaagattttctaatccgaaaaatcactttcttcacttaatttttatttggttgtaggtttggttaaccttttactttcatcagGCCCCCATGGATGGTGGAAACGGATCCAAAGGAGCTTGGATTGGGGATATACGTATGAGGGTGCTCACAAAGAAGTTCCAAGAACAGTTGGGAAATTTTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC