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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...catttctcccgctctttatttttcagatattcagttactgtatcataccagttgatttaccttttattgaaattgtatttgcctttggtgtacacagcagCTCTCTTTTTACAAACTCCAACTGGTTTGCCTTTGAGGATGACAGAATTGCCAATGAGCGCTCCACTGGCTCGCTTGCTTCTCCATCACCTAATACTGAG

Basic information

species Vitis vinifera
transcript Vv10s0003g04630.t01
intron # 18
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|30321554|gb|CD004816.1|CD004816
EST:     TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCAGGAGAG                         CAGCTCTCTTTTTACAAACTCCAACTGGTTTGCCTTTGAGGATGACAGAAT
genomic: TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCAGGAGAGgtaggtggaa ... tacacagcagC---TCTCTTTTTACAAACTCCAACTGGTTTGCCTTTGAGGATGACAGAAT
EST: gi|33401468|gb|CF207095.1|CF207095
EST:     TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCAGGAGAGCAG                       
genomic: TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCA-G-GAG-AGgtaggtggaa ... tacacagc
EST: gi|110698945|gb|EE077019.1|EE077019
EST:     TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCAGGAGAG                         CTCTCTTTTTACAAACTCCAACTGGTTTGCCTTTGAGGATGACAGAATTGC
genomic: TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCAGGAGAGgtaggtggaa ... tacacagcagCTCTCTTTTTACAAACTCCAACTGGTTTGCCTTTGAGGATGACAGAATTGC
EST: gi|33401462|gb|CF207089.1|CF207089
EST:     TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCAGGAGAGCAG                       
genomic: TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCA-G-GAG-AGgtaggtggaa ... tacacagc
EST: gi|30321558|gb|CD004820.1|CD004820
EST:     TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCAGGAGAG                         CAGCTCTCTTTTTACAAACTCCAACTGGTTTGCCTTTGAGGATGACAGAAT
genomic: TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCAGGAGAGgtaggtggaa ... tacacagcagC---TCTCTTTTTACAAACTCCAACTGGTTTGCCTTTGAGGATGACAGAAT
EST: gi|30134857|gb|CB920195.1|CB920195
EST:     TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCAGGAGAG                         CTCTCTTTTTACAAACTCCAACTGGTTTGCCTTTGAGGATGACAGAATTGC
genomic: TCGGCTGAAGTTGTCATATCTTCTCTGCGATTGGGAGATGATCAGGAGAGgtaggtggaa ... tacacagcagCTCTCTTTTTACAAACTCCAACTGGTTTGCCTTTGAGGATGACAGAATTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taccagttgatttaccttttattgaaattgtatttgcctttggtgtacacagcagCTCTCTTTTTACAAACTCCAACTGGTTTGCCTTTGAGGATGACAGAATTGCCAATGAGCGCTCCACTGGCTCGCTTGCTTCTCCATCACCTAATACTGAG
    agttgat  putative branch site (score: 5)
                ttttattgaaattgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
catttctcccgctctttatttttcagatattcagttactgtatcataccagttgatttaccttttattgaaattgtatttgcctttggtgtacacagcagCTCTCTTTTTACAAACTCCAACTGGTTTGCCTTTGAGGATGACAGAATTGCCAATGAGCGCTCCACTGGCTCGCTTGCTTCTCCATCACCTAATACTGAG

- -ttctccc
- - - - - - - - - - - - - - - - - - - - - -catacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgccttt