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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tagctaggccccgcccatttacccaccaaaactgtagctccatttttttttttttttccatttttgaatttaatttacgaaattcttgtgcaaaatgcagATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAGTACTTTGGGAGTCATGCTCTTGTTTCAGAGAAAACCATACGCCAAATGG

Basic information

species Vitis vinifera
transcript Vv13s0158g00080.t01
intron # 3
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|110713111|gb|EE088756.1|EE088756
EST:     ATCACAACAAGAAGGCAGATGGGCCCATCATCAACCTCAAAGGGATCATT                         ATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAG
genomic: ATCACAACAAGAAGGCAGATGGGCCCATCATCAACCTCAAAGGGATCATTgtaagcctat ... caaaatgcagATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAG
EST: gi|110380394|gb|EC945657.1|EC945657
EST:     GGCAGATGGGCCCATCATCAACCTCAAAGGGATCATT                         ATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAG
genomic: GGCAGATGGGCCCATCATCAACCTCAAAGGGATCATTgtaagcctat ... caaaatgcagATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAG
EST: gi|161706202|gb|FC054966.1|FC054966
EST:     ATCACAACAAGAAGGCAGATGGGCCCATCATCAACCTCAAAGGGATCATT                         ATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAG
genomic: ATCACAACAAGAAGGCAGATGGGCCCATCATCAACCTCAAAGGGATCATTgtaagcctat ... caaaatgcagATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAG
EST: gi|161719491|gb|FC067396.1|FC067396
EST:     TCACAACAAAGA-GGCAGATGGGCCCATCATCAACCTCAAAGGGATCATT                         ATTGGAA-TGCAGTGATCA-TGATGAAAC-GATGAGCTTGGA-TGTAC-AG
genomic: TCACAACAA-GAAGGCAGATGGGCCCATCATCAACCTCAAAGGGATCATTgtaagcctat ... caaaatgcagATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAG
EST: gi|30296446|gb|CB973240.1|CB973240
EST:     ATCACAACAAGAAGGCAGATGGGCCCATCATCAACCTCAAAGGGATCATT                         ATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAG
genomic: ATCACAACAAGAAGGCAGATGGGCCCATCATCAACCTCAAAGGGATCATTgtaagcctat ... caaaatgcagATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttttttttttccatttttgaatttaatttacgaaattcttgtgcaaaatgcagATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAGTACTTTGGGAGTCATGCTCTTGTTTCAGAGAAAACCATACGCCAAATGG
                      atttaat  putative branch site (score: 4)
     tttttttccatttttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tagctaggccccgcccatttacccaccaaaactgtagctccatttttttttttttttccatttttgaatttaatttacgaaattcttgtgcaaaatgcagATTGGAAATGCAGTGATCAATGATGAAACCGATGAGCTTGGAATGTACCAGTACTTTGGGAGTCATGCTCTTGTTTCAGAGAAAACCATACGCCAAATGG

- - - - -cccgccc
- - - - - - - - - - -cccacca
- - - - - - - - - - - - - - - - tgtagct