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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gctttacttctgagttgcttagtagcatctggcatatatgaaatcaatttttataattattgtagattttctgtgacattatagaacattttctgtgcagCTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAGAAAGGGTCTACAAATGAAGCGGGTTTACCTAAATACAGGGGCATGTTGG

Basic information

species Vitis vinifera
transcript Vv06s0004g05940.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|351045029|gb|FQ449283.1|FQ449283
EST:     CATTCGCCGGAACCCTCGCCTGCAGTGCTTTCAGTGCTTGTTTCGCTGAG                         CTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAG
genomic: CATTCGCCGGAACCTTCGCCTGCAGTGCTTTCAGTGCTTGTTTCGCTGAGgtactgagga ... ttctgtgcagCTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAG
EST: gi|349814387|gb|FQ398827.1|FQ398827
EST:     CATTCGCCGGAACCTTCGCCTGCAGTGCTTTCAGTGCTTGTTTCGCTGAG                         CTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAG
genomic: CATTCGCCGGAACCTTCGCCTGCAGTGCTTTCAGTGCTTGTTTCGCTGAGgtactgagga ... ttctgtgcagCTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAG
EST: gi|352793820|gb|FQ481974.1|FQ481974
EST:     CATTCGCCGGAACCTTCGCCTGCCGTGCTTTCAGTGCTTGTTTCGCTGAG                         CTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCCAAAG
genomic: CATTCGCCGGAACCTTCGCCTGCAGTGCTTTCAGTGCTTGTTTCGCTGAGgtactgagga ... ttctgtgcagCTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAG
EST: gi|351051586|gb|FQ450138.1|FQ450138
EST:     CATTCGCCGGAACCTTCGCCTGCAGTGCTTTCAGTGCTTGTTTCGCTGAG                         CTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAG
genomic: CATTCGCCGGAACCTTCGCCTGCAGTGCTTTCAGTGCTTGTTTCGCTGAGgtactgagga ... ttctgtgcagCTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAG
EST: gi|349821879|gb|FQ413050.1|FQ413050
EST:     CATTCGCCGGAACCTTCGCCTGCAGTGCTTTCAGTGCTTGTTTCGCTGAG                         CTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAG
genomic: CATTCGCCGGAACCTTCGCCTGCAGTGCTTTCAGTGCTTGTTTCGCTGAGgtactgagga ... ttctgtgcagCTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAG
EST: gi|351054855|gb|FQ462885.1|FQ462885
EST:     CATTCGCCGGAACCTTCGCCTGCAGTGCTTTCAGTGCTTGTTTCGCTGAG                         CTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAG
genomic: CATTCGCCGGAACCTTCGCCTGCAGTGCTTTCAGTGCTTGTTTCGCTGAGgtactgagga ... ttctgtgcagCTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatttttataattattgtagattttctgtgacattatagaacattttctgtgcagCTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAGAAAGGGTCTACAAATGAAGCGGGTTTACCTAAATACAGGGGCATGTTGG
                                         cattttct  CT-rich tract
     ttataattattgtaga  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gctttacttctgagttgcttagtagcatctggcatatatgaaatcaatttttataattattgtagattttctgtgacattatagaacattttctgtgcagCTCTGTACCATTCCCTTGGACACTGCCAAAGTAAGGCTTCAGCTCCAAAAGAAAGGGTCTACAAATGAAGCGGGTTTACCTAAATACAGGGGCATGTTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGC
- - - cttctga
- - - - - - - -tgcttag
- - - - - - - - - - - - gcatctg
- - - - - - - - - - - - - - - - - - - - aaatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atagaaca