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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acaataaaagagatggaacaagaagttaataagtgaatcatgtcttttatgcagtacactattatggatttatacttaccatcatcagcttctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAACTAAGTCCAGGATCCTTCTTCATACGTCTTGGAGGCCTTTGGTTGGTAG

Basic information

species Vitis vinifera
transcript Vv07s0129g00470.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|349826186|gb|FQ415991.1|FQ415991
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|28961255|gb|CB340638.1|CB340638
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAG
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|349828063|gb|FQ415391.1|FQ415391
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|351013296|gb|FQ425001.1|FQ425001
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|26259552|gb|CA810615.1|CA810615
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|71873447|gb|DT022502.1|DT022502
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|351016512|gb|FQ423939.1|FQ423939
EST:     GGAGCTGGGACCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|351040537|gb|FQ434670.1|FQ434670
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|349830224|gb|FQ420484.1|FQ420484
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|349830039|gb|FQ420299.1|FQ420299
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|351019540|gb|FQ439357.1|FQ439357
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|26265415|gb|CA816478.1|CA816478
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|349828064|gb|FQ415392.1|FQ415392
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
EST: gi|110385759|gb|EC950311.1|EC950311
EST:     GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCG                         GTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA
genomic: GGAGCTGGGATCCTGGCTTGGAAATTGAGGTCCCGTTCGAGCAAAGGCCGgtaggttcat ... tctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttatgcagtacactattatggatttatacttaccatcatcagcttctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAACTAAGTCCAGGATCCTTCTTCATACGTCTTGGAGGCCTTTGGTTGGTAG
                           tacttac  putative branch site (score: 1)
                                           cttctct  putative PPT
              tattatggatttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acaataaaagagatggaacaagaagttaataagtgaatcatgtcttttatgcagtacactattatggatttatacttaccatcatcagcttctctggtagGTGAATGAGTACTCATCTCTGAAAGATGGACCTTTATATTCATGGGGTGAACTAAGTCCAGGATCCTTCTTCATACGTCTTGGAGGCCTTTGGTTGGTAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- aataaaa
- - - - - - - ggaacaa
- - - - - - - - - - - - - - - - - - - - - - - - -tgcagta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catcagc