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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttggatagtcgtcccaagtcaaacttgagttagctttttaatatcatccaatgtaatagtaagcaaaaattgaggaaaactcattgatttggaatacagGTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAATTTGACCACTACAGCATTAATGTCCAAAGAAAATGGGATGGGGATGCCGC

Basic information

species Vitis vinifera
transcript Vv02s0025g03760.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|87583836|gb|DY473231.1|DY473231
EST:     AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAG                         GTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
genomic: AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAGgttagcaact ... tggaatacagGTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
EST: gi|71884617|gb|DT033672.1|DT033672
EST:     AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAG                         GTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
genomic: AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAGgttagcaact ... tggaatacagGTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
EST: gi|71890323|gb|DT039378.1|DT039378
EST:     AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAG                         GTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
genomic: AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAGgttagcaact ... tggaatacagGTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
EST: gi|71883732|gb|DT032787.1|DT032787
EST:     AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAG                         GTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
genomic: AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAGgttagcaact ... tggaatacagGTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
EST: gi|77589063|gb|DV223789.1|DV223789
EST:     AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAG                         GTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
genomic: AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAGgttagcaact ... tggaatacagGTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
EST: gi|351026936|gb|FQ436589.1|FQ436589
EST:     AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAGAG                         GTAGCTTTTAATGGT
genomic: AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAGgttagcaact ... tggaatacagGTAGCTTTGAATGGT
EST: gi|351046858|gb|FQ454468.1|FQ454468
EST:     AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAGAG                         GTAGCTTTGAATG
genomic: AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAGgttagcaact ... tggaatacagGTAGCTTTGAATG
EST: gi|110382294|gb|EC939089.1|EC939089
EST:     AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAGAG                         GTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAGT
genomic: AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAGgttagcaact ... tggaatacagGTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
EST: gi|71884647|gb|DT033702.1|DT033702
EST:     AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAG                         GTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT
genomic: AAGATCTCAACCAAAGTAGCAAAAGCTTTTGTGAATACCAACTCCAAAAGgttagcaact ... tggaatacagGTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

catccaatgtaatagtaagcaaaaattgaggaaaactcattgatttggaatacagGTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAATTTGACCACTACAGCATTAATGTCCAAAGAAAATGGGATGGGGATGCCGC
                                     cattgat  putative branch site (score: 4)
     aatgtaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttggatagtcgtcccaagtcaaacttgagttagctttttaatatcatccaatgtaatagtaagcaaaaattgaggaaaactcattgatttggaatacagGTAGCTTTGAATGGTGATATGCCTGGAGAAATAAGAAGTGCGGCTGAAAATTTGACCACTACAGCATTAATGTCCAAAGAAAATGGGATGGGGATGCCGC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- tggatag
- - - - - cgtccca
- - - - - - - - - -tcaaact
- - - - - - - - - - - - - - - - - - - - - - tcatcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaaac