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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagccatgatttcaaaaatctcatcaaaattttttttttaattattattattattattatttataaaaaaaaaaaaggaatttaattaatgggataaattctaattttttatttttggtcagGAATAAGAGAGGGAGGCCAATAATAATAGATCCAGGGCTGTACAGTCAGAACAAATCAGACATCTGGTGGGTTATCAAGCAGAGGAGTCTCCCCACTGCC

Basic information

species Vitis vinifera
transcript Vv08s0056g01520.t01
intron # 2
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|110429503|gb|EC995997.1|EC995997
EST:     CCGAGGGATCTCAATTTTGTGCAGCACAGTAGCCGCTTGGGTTGGAAATT                         GAATAAGAGAGGGAGGCCAATAATAATAGATCCAGGGCTGTACAGTCAGAA
genomic: CCGAGGGATCTCAATTTTGTGCAGCACAGTAGCCGCTTGGGTTGGAAATTgtaagccatg ... ttttggtcagGAATAAGAGAGGGAGGCCAATAATAATAGATCCAGGGCTGTACAGTCAGAA
EST: gi|110374109|gb|EC938652.1|EC938652
EST:     CCGAGGGATCTCAATTTTGTGCAGCACAGTAGCCGCTTGGGTTGGAAATT                         GAATAAGAGAGGGAGGCCAATAATAATAGATCCAGGGCTGTACAGTCAGAA
genomic: CCGAGGGATCTCAATTTTGTGCAGCACAGTAGCCGCTTGGGTTGGAAATTgtaagccatg ... ttttggtcagGAATAAGAGAGGGAGGCCAATAATAATAGATCCAGGGCTGTACAGTCAGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaaaaaaaggaatttaattaatgggataaattctaattttttatttttggtcagGAATAAGAGAGGGAGGCCAATAATAATAGATCCAGGGCTGTACAGTCAGAACAAATCAGACATCTGGTGGGTTATCAAGCAGAGGAGTCTCCCCACTGCC
                               ttctaat  putative branch site (score: 2)
                                     ttttttattttt  CT-rich tract
           aatttaattaatggga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagccatgatttcaaaaatctcatcaaaattttttttttaattattattattattattatttataaaaaaaaaaaaggaatttaattaatgggataaattctaattttttatttttggtcagGAATAAGAGAGGGAGGCCAATAATAATAGATCCAGGGCTGTACAGTCAGAACAAATCAGACATCTGGTGGGTTATCAAGCAGAGGAGTCTCCCCACTGCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG