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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccttaacctaatgacacagcttcttttccataaatagttatttggaaattttaaaaaatttccatctcaaactatagttctaaactcctcccaattgcagGTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGCAGTCTGCCAAGTGGATCAAGATCAGTCACCAAGCGATGGTTTATCAGTG

Basic information

species Vitis vinifera
transcript Vv14s0060g01580.t01
intron # 7
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|110398762|gb|EC965236.1|EC965236
EST:     GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAG                         GTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
genomic: GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAGgtatgtttat ... ccaattgcagGTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
EST: gi|71874154|gb|DT023209.1|DT023209
EST:     GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAG                         GTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
genomic: GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAGgtatgtttat ... ccaattgcagGTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
EST: gi|33402981|gb|CF208608.1|CF208608
EST:     GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAG                         GTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
genomic: GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAGgtatgtttat ... ccaattgcagGTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
EST: gi|110384652|gb|EC949105.1|EC949105
EST:     GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAG                         GTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
genomic: GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAGgtatgtttat ... ccaattgcagGTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
EST: gi|110388299|gb|EC953034.1|EC953034
EST:     GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAG                         GTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
genomic: GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAGgtatgtttat ... ccaattgcagGTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
EST: gi|110362563|gb|EC926106.1|EC926106
EST:     GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAG                         GTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
genomic: GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAGgtatgtttat ... ccaattgcagGTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
EST: gi|34415833|gb|CF414587.1|CF414587
EST:     GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAG                         GTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
genomic: GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAGgtatgtttat ... ccaattgcagGTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
EST: gi|254914412|gb|GR906513.1|GR906513
EST:     GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAG                         GTTGGGTAAAGATTTTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC
genomic: GGGGTTGTGGAGGAGTTGTTTGAAGAGGGTTCTGCAATGCTTGCGGAAAGgtatgtttat ... ccaattgcagGTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaattttaaaaaatttccatctcaaactatagttctaaactcctcccaattgcagGTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGCAGTCTGCCAAGTGGATCAAGATCAGTCACCAAGCGATGGTTTATCAGTG
                                ttctaaa  putative branch site (score: 2)
                                       ctcctccc  CT-rich tract
     ttaaaaaatttccat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccttaacctaatgacacagcttcttttccataaatagttatttggaaattttaaaaaatttccatctcaaactatagttctaaactcctcccaattgcagGTTGGGTAAAGATATTCCTTCAAACACCAACTCTGGGCTTTTCAGATGTGCAGTCTGCCAAGTGGATCAAGATCAGTCACCAAGCGATGGTTTATCAGTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - aacctaa
- - - - - - - - cagcttc
- - - - - - - - - - - - - -ccataaa
- - - - - - - - - - - - - - - - - - - - - - - - - -taaaaaa