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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagatgaccctgttatgacatctttttgattgcttgttgtgattgttccgaattttctaacatatcaatgtttctaatttcggcagGAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGAAAGAAAACAAAGAACTGAG

Basic information

species Vitis vinifera
transcript Vv06s0009g03240.t01
intron # 17
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|351023893|gb|FQ423316.1|FQ423316
EST:     TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACA                         GAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
genomic: TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACAgtgagatgac ... atttcggcagGAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
EST: gi|161713117|gb|FC064292.1|FC064292
EST:     TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACA                         GAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
genomic: TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACAgtgagatgac ... atttcggcagGAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
EST: gi|351027293|gb|FQ444542.1|FQ444542
EST:     TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACA                         GAAATTTCTTCAGCAGGATTTTGACGCGACCCTTGCATTTTGTAATCATGA
genomic: TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACAgtgagatgac ... atttcggcagGAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
EST: gi|349810959|gb|FQ405947.1|FQ405947
EST:     TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACA                         GAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
genomic: TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACAgtgagatgac ... atttcggcagGAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
EST: gi|351048968|gb|FQ449811.1|FQ449811
EST:     TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACA                         GAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
genomic: TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACAgtgagatgac ... atttcggcagGAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
EST: gi|71867350|gb|DT016405.1|DT016405
EST:     TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACA                         GAAATTTCTTCAGCNAG-ATTTTGACACGACCCTTGC
genomic: TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACAgtgagatgac ... atttcggcagGAAATTTCTTCAGC-AGGATTTTGACACGACCCTTGC
EST: gi|351021838|gb|FQ437223.1|FQ437223
EST:     TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACA                         GAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
genomic: TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACAgtgagatgac ... atttcggcagGAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
EST: gi|349829690|gb|FQ421208.1|FQ421208
EST:     TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACA                         GAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA
genomic: TCTGATGCATGTGACCGTTATCAAAATGTGCAAAACCACAGTTCTCAACAgtgagatgac ... atttcggcagGAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcttgttgtgattgttccgaattttctaacatatcaatgtttctaatttcggcagGAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGAAAGAAAACAAAGAACTGAG
                   aattttctaacatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagatgaccctgttatgacatctttttgattgcttgttgtgattgttccgaattttctaacatatcaatgtttctaatttcggcagGAAATTTCTTCAGCAGGATTTTGACACGACCCTTGCATTTTGTAATCATGAAAGAAAACAAAGAACTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC