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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggcagaactatatggctatttatatatttttatgttgtactttgtaaaccatactttgtcgttatatgaaacttaatggctgaaatatatggggacagGCTACAAGCTGGAAACTAGAGGAAGCTATTCAGCTGTTCTATGTTGGGAATGAAGGTGGAACCATGGCTGCGTCTTCATATTCTCCACCAATTGAAAATA

Basic information

species Vitis vinifera
transcript Vv01s0010g02050.t01
intron # 1
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|161719853|gb|FC068673.1|FC068673
EST:     TGGAGATTGCCGTGGGTCAGTCCGCCGACACAGCTAGGCAGTTCTTGCAG                         GCTACAAGCTGGAAACTAGAGGAAGCTATTCAGCTGTTCTATGTTGGGAAT
genomic: TGGAGATTGCCGTGGGTCAGTCCGCCGACACAGCTAGGCAGTTCTTGCAGgttactctcg ... atggggacagGCTACAAGCTGGAAACTAGAGGAAGCTATTCAGCTGTTCTATGTTGGGAAT
EST: gi|71858118|gb|DT007173.1|DT007173
EST:     TGGAGATTGCCGTGGGTCAGTCCGCCGACACAGCTAGGCAGTTCTTGCAG                         GCTACAAGCTGGAAACTAGAGGAAGCTATTCAGCTGTTCTATGTTGGGAAT
genomic: TGGAGATTGCCGTGGGTCAGTCCGCCGACACAGCTAGGCAGTTCTTGCAGgttactctcg ... atggggacagGCTACAAGCTGGAAACTAGAGGAAGCTATTCAGCTGTTCTATGTTGGGAAT
EST: gi|110732429|gb|EE107710.1|EE107710
EST:     TGGAGATTGCCGTGGGTCAGTCCGCCGACACAGCTAGGCAGTTCTTGCAG                         GCTACAAGCTGGAAACTAGAGGAAGCTATTCAGCTGTTCTATGTTGGGAAT
genomic: TGGAGATTGCCGTGGGTCAGTCCGCCGACACAGCTAGGCAGTTCTTGCAGgttactctcg ... atggggacagGCTACAAGCTGGAAACTAGAGGAAGCTATTCAGCTGTTCTATGTTGGGAAT
EST: gi|71858246|gb|DT007301.1|DT007301
EST:     TGGAGATTGCCGTGGGTCAGTCCGCCGACACAGCTAGGCAGTTCTTGCAG                         GCTACAAGCTGGAAACTAGAGGAAGCTATTCAGCTGTTCTATGTTGGGAAT
genomic: TGGAGATTGCCGTGGGTCAGTCCGCCGACACAGCTAGGCAGTTCTTGCAGgttactctcg ... atggggacagGCTACAAGCTGGAAACTAGAGGAAGCTATTCAGCTGTTCTATGTTGGGAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaaccatactttgtcgttatatgaaacttaatggctgaaatatatggggacagGCTACAAGCTGGAAACTAGAGGAAGCTATTCAGCTGTTCTATGTTGGGAATGAAGGTGGAACCATGGCTGCGTCTTCATATTCTCCACCAATTGAAAATA
                           acttaat  putative branch site (score: 4)
                  ttatatgaaacttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atggcagaactatatggctatttatatatttttatgttgtactttgtaaaccatactttgtcgttatatgaaacttaatggctgaaatatatggggacagGCTACAAGCTGGAAACTAGAGGAAGCTATTCAGCTGTTCTATGTTGGGAATGAAGGTGGAACCATGGCTGCGTCTTCATATTCTCCACCAATTGAAAATA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - tatggct
- - - - - - - - - - - - - - - - - - - - - - - -aaaccat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggctga