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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggattgtttattatctacaactacaagattctaactgtattttttgtacttgcatacattagaaactctaactcatctctttgctatctttgtaatgcagGAAGTCATTTATTGCTGATGCAAAACAATCTTTCATCTCACAAATTCCTGAGTCACTGAAAGAGAAGCTGATTGAACGTCTAAAATCATTCAGCCAGGAG

Basic information

species Vitis vinifera
transcript Vv19s0093g00560.t01
intron # 7
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|33401742|gb|CF207369.1|CF207369
EST:     AGGTTATGCGCTCAAAAATCAGGAGACCCTCCAAGCAGCAATGAATCAAA                         GAAGTCATTTATTGCTGATGCAAAACAATCTTTCATCTCACAAATTCCTGA
genomic: AGGTTATGCGCTCAAAAATCAGGAGACCCTCCAAGCAGCAATGAATCAAAgtaagtcttt ... tgtaatgcagGAAGTCATTTATTGCTGATGCAAAACAATCTTTCATCTCACAAATTCCTGA
EST: gi|34546278|gb|CF514510.1|CF514510
EST:     AGGTTATGCGCTCAAAAATCAGGAGACCCTCCAAGCAGCAATGAATCAAG                         GAAGTCATTTATTGCTGATGCAAAACAATCTTTCATCTCACAAATTCCTGA
genomic: AGGTTATGCGCTCAAAAATCAGGAGACCCTCCAAGCAGCAATGAATCAAAgtaagtcttt ... tgtaatgcagGAAGTCATTTATTGCTGATGCAAAACAATCTTTCATCTCACAAATTCCTGA
EST: gi|34544722|gb|CF512954.1|CF512954
EST:     AGGTTATGCGCTCAAAAATCAGGAGACCCTCCAAGCAGCAATGAATCAAG                         GAAGTCATTTATTGCTGATGCAAAACAATCTTTCATCTCACAAATTCCTGA
genomic: AGGTTATGCGCTCAAAAATCAGGAGACCCTCCAAGCAGCAATGAATCAAAgtaagtcttt ... tgtaatgcagGAAGTCATTTATTGCTGATGCAAAACAATCTTTCATCTCACAAATTCCTGA
EST: gi|33401822|gb|CF207449.1|CF207449
EST:     AGGTTATGCGCTCAAAAATCAGGAGACCCTCCAAGCAGCAATGAATCAAA                         GAAGTCATTTATTGCTGATGCAAAACAATCTTTCATCTCACAAATTCCTGA
genomic: AGGTTATGCGCTCAAAAATCAGGAGACCCTCCAAGCAGCAATGAATCAAAgtaagtcttt ... tgtaatgcagGAAGTCATTTATTGCTGATGCAAAACAATCTTTCATCTCACAAATTCCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacttgcatacattagaaactctaactcatctctttgctatctttgtaatgcagGAAGTCATTTATTGCTGATGCAAAACAATCTTTCATCTCACAAATTCCTGAGTCACTGAAAGAGAAGCTGATTGAACGTCTAAAATCATTCAGCCAGGAG
                    ctctaac  putative branch site (score: 2)
                              tctctttgctatcttt  putative PPT
        atacatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggattgtttattatctacaactacaagattctaactgtattttttgtacttgcatacattagaaactctaactcatctctttgctatctttgtaatgcagGAAGTCATTTATTGCTGATGCAAAACAATCTTTCATCTCACAAATTCCTGAGTCACTGAAAGAGAAGCTGATTGAACGTCTAAAATCATTCAGCCAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - -caactac
- - - - - - - - - - - - - - - - - - - - - - - - - -gcataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaact