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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttgggctggtaacccatatgaaattttgcttcttttgctattatccccacaagatactaaccagtttttttctctttccttggtggttgttgctgcagAGGGAAGCAGTCAAGATTCCAAGCTTGAATTCTCTGAAGATGAGGAAACCCTGATCACTAGGATGTTCAATCTGGTTGGAGAGAG

Basic information

species Vitis vinifera
transcript Vv12s0059g02360.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|110383569|gb|EC947948.1|EC947948
EST:     AATGGCTGACTTGGATCACTCCTCTGATGGCAGCTCTCTGGATTCTAGAG                         AGGGAAGCAGTCAAGATTCCAAGCTTGAATTCTCTGAAGATGAGGAAACCC
genomic: AATGGCTGACTTGGATCACTCCTCTGATGGCAGCTCTCTGGATTCTAGAGgtacccatct ... gttgctgcagAGGGAAGCAGTCAAGATTCCAAGCTTGAATTCTCTGAAGATGAGGAAACCC
EST: gi|349829792|gb|FQ422105.1|FQ422105
EST:     AATGGCTGACTTGGATCACTCCTCTGATGGCAGCTCTCTGGATTCTAGAG                         GGGGAAGCAGTCAAGATTCCAAGCTTGAATTCTCTGAAGATGAGGAAACCC
genomic: AATGGCTGACTTGGATCACTCCTCTGATGGCAGCTCTCTGGATTCTAGAGgtacccatct ... gttgctgcagAGGGAAGCAGTCAAGATTCCAAGCTTGAATTCTCTGAAGATGAGGAAACCC
EST: gi|30125373|gb|CB910712.1|CB910712
EST:     AATGGCTGACTTGGATCACTCCTCTGATGGCAGCTCTCTGGATTCTAGAG                         GGGGAAGCAGTCAAGATTCCAAGCTTGAATTCTCTGAAGATGAGGAAACCC
genomic: AATGGCTGACTTGGATCACTCCTCTGATGGCAGCTCTCTGGATTCTAGAGgtacccatct ... gttgctgcagAGGGAAGCAGTCAAGATTCCAAGCTTGAATTCTCTGAAGATGAGGAAACCC
EST: gi|34415348|gb|CF414102.1|CF414102
EST:     AATGGCTGACTTGGATCACTCCTCTGATGGCAGCTCTCTGGATTCTAGAG                         GGGGAAGCAGTCAAGATTCCAAGCTTGAATTCTCTGAAGATGAGGAAACCC
genomic: AATGGCTGACTTGGATCACTCCTCTGATGGCAGCTCTCTGGATTCTAGAGgtacccatct ... gttgctgcagAGGGAAGCAGTCAAGATTCCAAGCTTGAATTCTCTGAAGATGAGGAAACCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tccccacaagatactaaccagtttttttctctttccttggtggttgttgctgcagAGGGAAGCAGTCAAGATTCCAAGCTTGAATTCTCTGAAGATGAGGAAACCCTGATCACTAGGATGTTCAATCTGGTTGGAGAGAG
           tactaac  putative branch site (score: 0)
                   agttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttttgggctggtaacccatatgaaattttgcttcttttgctattatccccacaagatactaaccagtttttttctctttccttggtggttgttgctgcagAGGGAAGCAGTCAAGATTCCAAGCTTGAATTCTCTGAAGATGAGGAAACCCTGATCACTAGGATGTTCAATCTGGTTGGAGAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - gggctgg
- - - - - -taaccca
- - - - - - - - - - - - - - tgcttct
- - - - - - - - - - - - - - - - - - - - - - -tccccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtggtt