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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAATTACAAAAGCATGCAGGGAGGCGCATCGGAATGGTTCTTTAGTTGCAGTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttctaactcatcttgctttattagatttaggttgtcttcatttctcatttgatataaggatttgaatctttagtccgatgtttggttctgggaa...

Basic information

species Vitis vinifera
transcript Vv16s0039g01580.t01
intron # 4
splice site 5'
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|32267928|gb|CD717087.1|CD717087
EST:     GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTG                         GGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
genomic: GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttct ... ctgttctcagGGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
EST: gi|110390815|gb|EC955744.1|EC955744
EST:     GTGACAGCATCGGATGTCTCTTGCATTGAGAGGCATTATGACGATTTTTG                         GGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGCGAAGAAGC
genomic: GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttct ... ctgttctcagGGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
EST: gi|32267415|gb|CD716378.1|CD716378
EST:     GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTG                         GGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
genomic: GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttct ... ctgttctcagGGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
EST: gi|352764364|gb|FQ471331.1|FQ471331
EST:     CTTGCAATGAGAGGCATTACGACGATTTTTG                         GGAAATCATAGGCAATTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
genomic: CTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttct ... ctgttctcagGGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
EST: gi|30326863|gb|CD010125.1|CD010125
EST:     GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTG                         GGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
genomic: GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttct ... ctgttctcagGGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
EST: gi|110707202|gb|EE083397.1|EE083397
EST:     GTGACAGCATCGGATGTCTCTTGCATTGAGAGGCATTATGACGATTTTTG                         GGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGCGAAGAAGC
genomic: GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttct ... ctgttctcagGGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
EST: gi|110372468|gb|EC936636.1|EC936636
EST:     GTGACAGCATCGGATGTCTCTTGCATTGAGAGGCATTATGACGATTTTTG                         GGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGCGAAGAAGC
genomic: GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttct ... ctgttctcagGGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
EST: gi|30324410|gb|CD007672.1|CD007672
EST:     GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTG                         GGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
genomic: GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttct ... ctgttctcagGGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
EST: gi|30303065|gb|CB979859.1|CB979859
EST:     GTGACAGCATCGGATGTCTCTTGCATTGAGAGGCATTATGACGATTTTTG                         GGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGCGAAGAAGC
genomic: GTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttct ... ctgttctcagGGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC
EST: gi|352768492|gb|FQ469668.1|FQ469668
EST:     CGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTG                         GGAAATCATAGGCAACTACGCCGGTATTGTGTTTGCAAACAGTGAAGAAGC
genomic: CGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttct ... ctgttctcagGGAAATCATAGGCAACTACGCCGGTATCGTGTTTGCAAACAGTGAAGAAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAATTACAAAAGCATGCAGGGAGGCGCATCGGAATGGTTCTTTAGTTGCAGTGACAGCATCGGATGTCTCTTGCAATGAGAGGCATTACGACGATTTTTGgtgagcttctaactcatcttgctttattagatttaggttgtcttcatttctcatttgatataaggatttgaatctttagtccgatgtttggttctgggaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataagga