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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgtagaatgctttttcattaccaggagtttactgatctagtacttctgctatagtttcatgactaactacaatttctcaacacccggttggttcatcagGTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCACTGCAA

Basic information

species Vitis vinifera
transcript Vv00s0215g00030.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|110393955|gb|EC959561.1|EC959561
EST:     GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCG                         GTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC
genomic: GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCGgtatagcaca ... ggttcatcagGTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC
EST: gi|110387776|gb|EC952472.1|EC952472
EST:     GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCG                         GTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC
genomic: GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCGgtatagcaca ... ggttcatcagGTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC
EST: gi|30136940|gb|CB922278.1|CB922278
EST:     GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCG                         GTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC
genomic: GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCGgtatagcaca ... ggttcatcagGTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC
EST: gi|30251919|gb|CB969652.1|CB969652
EST:     GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCG                         GTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC
genomic: GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCGgtatagcaca ... ggttcatcagGTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC
EST: gi|30251996|gb|CB968635.1|CB968635
EST:     GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCG                         GTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC
genomic: GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCGgtatagcaca ... ggttcatcagGTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC
EST: gi|33401751|gb|CF207378.1|CF207378
EST:     GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCG                         GTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC
genomic: GTGTGCAAGATGAAAAAGCATTTTACCTCGACCCGCATGAAGCCCAGTCGgtatagcaca ... ggttcatcagGTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgctatagtttcatgactaactacaatttctcaacacccggttggttcatcagGTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCACTGCAA
                gactaac  putative branch site (score: 1)
     tatagttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtagaatgctttttcattaccaggagtttactgatctagtacttctgctatagtttcatgactaactacaatttctcaacacccggttggttcatcagGTAGTCGATATTAGGAGAGAAAATCTAGAGGCTGATACATCATCATACCACTGCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - -gaatgct
- - - - - - - - cattacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aactacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caacacc