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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtgactcaaacagctttctttatctctctccgtgtttctcgctgatccttctttttcttctgtattttctcagGAAACTGACATCGGACGGCACGTGAACCGATTACGGAAGCATCCATCCAATGAAGTTCGAAGGCTGGTTAAGCAACTCGTCAG

Basic information

species Vitis vinifera
transcript Vv18s0072g00460.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|110690720|gb|EE068124.1|EE068124
EST:     ATTTGCTTCAAAGTCTCGCAGACATGGATATCACATTTAAAGCTCTTAAG                         GAAACTGGAC-TCGGACGGCACGTGAAACCGATTACGGAAGCATCCATCCC
genomic: ATTTGCTTCAGAGTCTCGCAGACATGGATATCACATTTAAAGCTCTTAAGgtagtgactc ... attttctcagGAAACTG-ACATCGGACGGCACGTGAA-CCGATTACGGAAGCATCCATCCA
EST: gi|156736039|gb|EV240153.1|EV240153
EST:     ATTTGCTTCAGAGTCTCGCAGACATGGATATCACATTTAAAGCTCTTAAG                         GAAACTGACATCGGACGGCACGTGAACCGATTACGGAAGCATCCATCCAAT
genomic: ATTTGCTTCAGAGTCTCGCAGACATGGATATCACATTTAAAGCTCTTAAGgtagtgactc ... attttctcagGAAACTGACATCGGACGGCACGTGAACCGATTACGGAAGCATCCATCCAAT
EST: gi|34548933|gb|CF517165.1|CF517165
EST:     ATTTGCTTCAGAGTCTCGCAGACATGGATATCACATTTAAAGCTCTTAAG                         GAAACTGACATCGGACGGCACGTGAACCGATTACGGAAGCATCCATCCAAT
genomic: ATTTGCTTCAGAGTCTCGCAGACATGGATATCACATTTAAAGCTCTTAAGgtagtgactc ... attttctcagGAAACTGACATCGGACGGCACGTGAACCGATTACGGAAGCATCCATCCAAT
EST: gi|34548840|gb|CF517072.1|CF517072
EST:     ATTTGCTTCAGAGTCTCGCAGACATGGATATCACATTTAAAGCTCTTAAG                         GAAACTGACATCGGACGGCACGTGAACCGATTACGGAAGCATCCATCCAAT
genomic: ATTTGCTTCAGAGTCTCGCAGACATGGATATCACATTTAAAGCTCTTAAGgtagtgactc ... attttctcagGAAACTGACATCGGACGGCACGTGAACCGATTACGGAAGCATCCATCCAAT
EST: gi|33407190|gb|CF212817.1|CF212817
EST:     ATTTGCTTCAGAGTCTCGCAGACATGGATATCACATTTAAAGCTCTTAAG                         GAAACTGACATCGGACGGCACGTGAACCGATTACGGAAGCATCCATCCAAT
genomic: ATTTGCTTCAGAGTCTCGCAGACATGGATATCACATTTAAAGCTCTTAAGgtagtgactc ... attttctcagGAAACTGACATCGGACGGCACGTGAACCGATTACGGAAGCATCCATCCAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatctctctccgtgtttctcgctgatccttctttttcttctgtattttctcagGAAACTGACATCGGACGGCACGTGAACCGATTACGGAAGCATCCATCCAATGAAGTTCGAAGGCTGGTTAAGCAACTCGTCAG
                     cgctgat  putative branch site (score: 4)
                tttctcgctgatcctt  CT-rich tract
                              ttcttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtgactcaaacagctttctttatctctctccgtgtttctcgctgatccttctttttcttctgtattttctcagGAAACTGACATCGGACGGCACGTGAACCGATTACGGAAGCATCCATCCAATGAAGTTCGAAGGCTGGTTAAGCAACTCGTCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA