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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggttttgtacctgggtagcattccttgcatatattgtaatactgtgttgtcttttgattgtataatttaaatctgtacagGATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCCTTGTTTGGAGCTTCTTTGGCATG

Basic information

species Vitis vinifera
transcript Vv11s0016g03660.t01
intron # 10
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|110362156|gb|EC925672.1|EC925672
EST:     GGAATTGCAAATTTGTCAG                         GATCTATTACTGCAATGATTTTGAGGGATAAACTAGGGAGGAAGGCCCTCC
genomic: GGAATTGCAAATTTGTCAGgtatggtttt ... atctgtacagGATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCC
EST: gi|110715750|gb|EE094159.1|EE094159
EST:     AGTGCCATCGGACCTCGCAAATGTGTTTGTGGGAATTGCAAATTTGTCAG                         GATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCC
genomic: AGTGCCATCGGACCTCGCAAATGTGTTTGTGGGAATTGCAAATTTGTCAGgtatggtttt ... atctgtacagGATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCC
EST: gi|110399825|gb|EC966355.1|EC966355
EST:     AGTGCCATCGGACCTTGCAAATGTGTTTGTGGGAATTGCAAATTTGTCAG                         GATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCC
genomic: AGTGCCATCGGACCTCGCAAATGTGTTTGTGGGAATTGCAAATTTGTCAGgtatggtttt ... atctgtacagGATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCC
EST: gi|110409716|gb|EC975386.1|EC975386
EST:     GACCTTGCAAATGTGTTTGTGGGAATTGCAAATTTGTCAG                         GATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCC
genomic: GACCTCGCAAATGTGTTTGTGGGAATTGCAAATTTGTCAGgtatggtttt ... atctgtacagGATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCC
EST: gi|110406856|gb|EC972443.1|EC972443
EST:     CAAATGTGTTTGTGGGAATTGCAAATTTGTCAG                         GATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCC
genomic: CAAATGTGTTTGTGGGAATTGCAAATTTGTCAGgtatggtttt ... atctgtacagGATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCC
EST: gi|161711472|gb|FC058674.1|FC058674
EST:     AGTGCCATCGGACCTTGCAAATGTGTTTGTGGGAATTGCAAATTTGTCAG                         GATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCC
genomic: AGTGCCATCGGACCTCGCAAATGTGTTTGTGGGAATTGCAAATTTGTCAGgtatggtttt ... atctgtacagGATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcatatattgtaatactgtgttgtcttttgattgtataatttaaatctgtacagGATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCCTTGTTTGGAGCTTCTTTGGCATG
                          ttttgat  putative branch site (score: 4)
                        tcttttgattgtataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatggttttgtacctgggtagcattccttgcatatattgtaatactgtgttgtcttttgattgtataatttaaatctgtacagGATCTATTACTGCAATGATTTTGATGGATAAACTAGGGAGGAAGGCCCTCCTTGTTTGGAGCTTCTTTGGCATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT