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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaaggttcaacaatttgtagacttcatgtttaaaattctttacatggacagcgagtactataattaaaatgaaaattcattcctttcttgtttttgcagTGGCCCGTTTGTTCACACCAAAGATTGCGAGTTATTATGAAGATTATTACAAGTCTAAAGGAGTAAAGTTCATTAAAGGAACGGCCTTGTCATCATTTGA

Basic information

species Vitis vinifera
transcript Vv14s0066g01100.t01
intron # 5
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|110710925|gb|EE087534.1|EE087534
EST:     GGTGATAAATAAA-TAAATGTTACAATGGTCTTCCCAGAAGCACATTGCA                         TGGCCCGTTTGTTCACACCAAAGATTGCGAGTTATTATGAAGATTATTACA
genomic: GGTGATAAATAAAATAAATGTTACAATGGTCTTCCCAGAAGCACATTGCAgtaagcactg ... gtttttgcagTGGCCCGTTTGTTCACACCAAAGATTGCGAGTTATTATGAAGATTATTACA
EST: gi|110686783|gb|EE064815.1|EE064815
EST:     GGTGATAAATAAAATAAATGTTACAATGGTCTTCCCAGAAGCACATTGCA                         TGGCCCGTTTGTTCACACCAAAGATTGCGAGTTATTATGAAGATTATTACA
genomic: GGTGATAAATAAAATAAATGTTACAATGGTCTTCCCAGAAGCACATTGCAgtaagcactg ... gtttttgcagTGGCCCGTTTGTTCACACCAAAGATTGCGAGTTATTATGAAGATTATTACA
EST: gi|37189057|gb|CF608406.1|CF608406
EST:     TCCCAGAAGCACATTGCA                         TGGCCCNGTTTATTCACACCAAAGATTGCGAGTTATTATGAAGATTATTAC
genomic: TCCCAGAAGCACATTGCAgtaagcactg ... gtttttgcagTGGCCC-GTTTGTTCACACCAAAGATTGCGAGTTATTATGAAGATTATTAC
EST: gi|32267694|gb|CD716657.1|CD716657
EST:     GTTACAATGGGTCTTCCCAGAAGCACATTGCA                         TGGCCCNGTTTGTTCACACCAAAGATTGCGAGTTATTATGAAGATTATTAC
genomic: GTTACAAT-GGTCTTCCCAGAAGCACATTGCAgtaagcactg ... gtttttgcagTGGCCC-GTTTGTTCACACCAAAGATTGCGAGTTATTATGAAGATTATTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggacagcgagtactataattaaaatgaaaattcattcctttcttgtttttgcagTGGCCCGTTTGTTCACACCAAAGATTGCGAGTTATTATGAAGATTATTACAAGTCTAAAGGAGTAAAGTTCATTAAAGGAACGGCCTTGTCATCATTTGA
                               ttcattcctttcttgt  CT-rich tract
         agtactataattaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaaggttcaacaatttgtagacttcatgtttaaaattctttacatggacagcgagtactataattaaaatgaaaattcattcctttcttgtttttgcagTGGCCCGTTTGTTCACACCAAAGATTGCGAGTTATTATGAAGATTATTACAAGTCTAAAGGAGTAAAGTTCATTAAAGGAACGGCCTTGTCATCATTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
aaaaggt
- - - -tcaacaa
- - - - - - - - - - - cttcatg
- - - - - - - - - - - - - - - - aaaattc
- - - - - - - - - - - - - - - - - - - - - -catggac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgaaaa