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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaagtgattttgctacatgatgatttcctaagactgtgcatgtgttaattgaagtgcaatactctaacattattacttctacacatacatcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAGAATTTGAACAG

Basic information

species Vitis vinifera
transcript Vv12s0142g00360.t01
intron # 3
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|110728991|gb|EE105103.1|EE105103
EST:     TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAG                         TTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
genomic: TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAGgtaaaattta ... tcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
EST: gi|110726323|gb|EE102002.1|EE102002
EST:     TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAG                         TTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
genomic: TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAGgtaaaattta ... tcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
EST: gi|110715529|gb|EE093682.1|EE093682
EST:     TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAG                         TTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
genomic: TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAGgtaaaattta ... tcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
EST: gi|110730325|gb|EE107273.1|EE107273
EST:     TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAG                         TTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
genomic: TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAGgtaaaattta ... tcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
EST: gi|30298144|gb|CB974938.1|CB974938
EST:     TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAG                         TTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
genomic: TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAGgtaaaattta ... tcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
EST: gi|30135782|gb|CB921120.1|CB921120
EST:     TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAG                         TTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
genomic: TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAGgtaaaattta ... tcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
EST: gi|110710338|gb|EE086596.1|EE086596
EST:     TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAG                         TTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
genomic: TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAGgtaaaattta ... tcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
EST: gi|30133145|gb|CB918484.1|CB918484
EST:     TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAG                         TTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
genomic: TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAGgtaaaattta ... tcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
EST: gi|30298778|gb|CB975572.1|CB975572
EST:     TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAG                         TTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
genomic: TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAGgtaaaattta ... tcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
EST: gi|110726263|gb|EE101892.1|EE101892
EST:     TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAG                         TTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG
genomic: TGTGTTCTGATTCCTCCAATACCGGATCTGTTTCTGAAGCTAATGCTCAGgtaaaattta ... tcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaattgaagtgcaatactctaacattattacttctacacatacatcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAGAATTTGAACAG
                 ctctaac  putative branch site (score: 2)
                    taacattattactt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaagtgattttgctacatgatgatttcctaagactgtgcatgtgttaattgaagtgcaatactctaacattattacttctacacatacatcaacctcagTTTTACCAGCAAGAAGCCTCCAAATTGCGCCGTCAAATCAGGGATATACAGAATTTGAACAG

aaaagtg
- - - - - ttgctac
- - - - - - - - - - - - - - - - - - - -catgtgt
- - - - - - - - - - - - - - - - - - - - - - - -aattgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacatac