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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatacatatgacactggttttgttgatgttatttccccacagtgatatcatttgatataaggcatttctattttctctgtgatctagTGACACGGTACATGAAGCTGTGACTCGAGGCTGTAAGGAGCAGCATCGACAAATTGAG

Basic information

species Vitis vinifera
transcript Vv09s0002g00840.t01
intron # 7
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|352781037|gb|FQ466350.1|FQ466350
EST:     AACCAACAACCAAGGCAGCTTTCTGCTCTTCTTCAGAAACTTCATTCAGG                         TGACACGGTACATGAAGCTGTGACTCGAGGCTGTAAGGAGCAGCATCGACA
genomic: AACCAACAACCAAGGCAGCTTTCTGCTCTTCTTCAGAAACTTCATTCAGGgtatacatat ... tgtgatctagTGACACGGTACATGAAGCTGTGACTCGAGGCTGTAAGGAGCAGCATCGACA
EST: gi|122692223|gb|EC996245.1|EC996245
EST:     AACCAACAACCAAGGCAGCTTTCTGCTCTTCTTCAGAAACTTCATTCAGG                         TGACACGGTACATGAAGCTGTGA
genomic: AACCAACAACCAAGGCAGCTTTCTGCTCTTCTTCAGAAACTTCATTCAGGgtatacatat ... tgtgatctagTGACACGGTACATGAAGCTGTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccccacagtgatatcatttgatataaggcatttctattttctctgtgatctagTGACACGGTACATGAAGCTGTGACTCGAGGCTGTAAGGAGCAGCATCGACAAATTGAG
                 atttgat  putative branch site (score: 5)
 catttctattttctct  putative PPT
 atatcatttgatataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatacatatgacactggttttgttgatgttatttccccacagtgatatcatttgatataaggcatttctattttctctgtgatctagTGACACGGTACATGAAGCTGTGACTCGAGGCTGTAAGGAGCAGCATCGACAAATTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG