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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctattactagagcttgttgtgtttggagctcactagagtttaatggaatgcgaacacatgactgtaattataaatgcagAACGCTGGATAAAACAATTTCAAATTTGGAGATGGAATTAGCAGCTGCAAGAGCTGCACAGGAGTCTATACTTAATGGATCTCCCATAACAGAAGATTTA

Basic information

species Vitis vinifera
transcript Vv19s0090g00560.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|110724992|gb|EE101306.1|EE101306
EST:     AAATCCAAGGACATTCTAGGGGAAGTTTCAAGGACTCATTATGCTATACA                         AACGCTGGATAAAACAATTTCAAATTTGGAGATGGAATTAGCAGCTGCAAG
genomic: AAATCCAAGGACATTCTAGGGGAAGTTTCAAGGACTCATTATGCTATACAgtaagctatt ... ataaatgcagAACGCTGGATAAAACAATTTCAAATTTGGAGATGGAATTAGCAGCTGCAAG
EST: gi|110688432|gb|EE066976.1|EE066976
EST:     AAATCCAAGGACATTCTAGGGGAAGTTTCAAGGACTCATTATGCTATACA                         AACGCTGGATAAAACAATTTCAAATTTGGAGATGGAATTAGCAGCTGCAAG
genomic: AAATCCAAGGACATTCTAGGGGAAGTTTCAAGGACTCATTATGCTATACAgtaagctatt ... ataaatgcagAACGCTGGATAAAACAATTTCAAATTTGGAGATGGAATTAGCAGCTGCAAG
EST: gi|161715741|gb|FC066145.1|FC066145
EST:     AAATCCAAGGACATTCTAGGGGAAGTTTCAAGGACTCATTATGCTATACA                         AACGCTGGATAAAACAATTTCAAATTTGGAGATGGAATTAGCAGCTGCAAG
genomic: AAATCCAAGGACATTCTAGGGGAAGTTTCAAGGACTCATTATGCTATACAgtaagctatt ... ataaatgcagAACGCTGGATAAAACAATTTCAAATTTGGAGATGGAATTAGCAGCTGCAAG
EST: gi|37184436|gb|CF603790.1|CF603790
EST:     AAATCCAAGGACATTCTAGGGGAAGTTTCAAGGACTCATTATGCTATACA                         AACGCTGGATAAAACAATTTCAAATTTGGAGATGGAATTAGCAGCTGCAAG
genomic: AAATCCAAGGACATTCTAGGGGAAGTTTCAAGGACTCATTATGCTATACAgtaagctatt ... ataaatgcagAACGCTGGATAAAACAATTTCAAATTTGGAGATGGAATTAGCAGCTGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggagctcactagagtttaatggaatgcgaacacatgactgtaattataaatgcagAACGCTGGATAAAACAATTTCAAATTTGGAGATGGAATTAGCAGCTGCAAGAGCTGCACAGGAGTCTATACTTAATGGATCTCCCATAACAGAAGATTTA
                                    actgtaattataaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagctattactagagcttgttgtgtttggagctcactagagtttaatggaatgcgaacacatgactgtaattataaatgcagAACGCTGGATAAAACAATTTCAAATTTGGAGATGGAATTAGCAGCTGCAAGAGCTGCACAGGAGTCTATACTTAATGGATCTCCCATAACAGAAGATTTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC