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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTCATCCGCTGGTGCTGTCGCCATGACCCCCAACAGGCCTAAGGATCGGCCCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattcacatgaaacttttgcttctgttattgaaattgtgctctctcttcttttattcaatacaatgcataaataaacttaattttacaaatgttgtatgtttatttatatatttttcttcaaggattttgtggtaaagttgatattacaatatgaatggcag

Basic information

species Vitis vinifera
transcript Vv18s0122g00630.t01
intron # 3
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|110728908|gb|EE104890.1|EE104890
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|351055237|gb|FQ440576.1|FQ440576
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|351035526|gb|FQ463371.1|FQ463371
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|351029342|gb|FQ436736.1|FQ436736
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|352791001|gb|FQ479994.1|FQ479994
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|71856193|gb|DT005248.1|DT005248
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|351033973|gb|FQ463028.1|FQ463028
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|349820738|gb|FQ408567.1|FQ408567
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAAAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|351015778|gb|FQ431733.1|FQ431733
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|351046584|gb|FQ453200.1|FQ453200
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|351019824|gb|FQ439641.1|FQ439641
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|349822332|gb|FQ412596.1|FQ412596
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|110420063|gb|EC986324.1|EC986324
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
EST: gi|351019644|gb|FQ439461.1|FQ439461
EST:     CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAG                         AATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT
genomic: CCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattc ... tgaatggcagAATTATTATTGCCTTGCCAAAACAATAGCAGAGAGTGAAGCCCTGGAGCAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTCATCCGCTGGTGCTGTCGCCATGACCCCCAACAGGCCTAAGGATCGGCCCATGGACGAAGAATGTTGGTCTGACCTTGAATATTGCAAGGCAACTCAGgtaaccattcacatgaaacttttgcttctgttattgaaattgtgctctctcttcttttattcaatacaatgcataaataaacttaattttacaaatgttgtatgtttatttatatatttttcttcaaggattttgtggtaaagttgatattacaatatgaatggcag

- - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA