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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttattcgtgttcactaagttaataaaattttcagttaacctctttttcagttgtctaacccacgaagtctgctgactactgaatgtttcatgttttcagTGACAAAGCTATTCCTTCTACAAATATCGATTTGCACTATGCTCATTGCTCCCGAAATCTGGAAAGATGTAAACATTGTGGTGACATGGTTCCAAAAAAA

Basic information

species Vitis vinifera
transcript Vv18s0001g07890.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|110733073|gb|EE108914.1|EE108914
EST:     GGTTCCATGGCGATTGCATCCAGTGAATCCACGAGCATCTGCAGTCACTG                         TGACAAAGCTATTCCTTCTACAAATATCGATTTGCACTATGCTCATTGCTC
genomic: GGTTCCATGGCGATTGCATCCAATGAATCCACGAGCATCTGCAGTCACTGgtagtaaagg ... atgttttcagTGACAAAGCTATTCCTTCTACAAATATCGATTTGCACTATGCTCATTGCTC
EST: gi|110382356|gb|EC939258.1|EC939258
EST:     GGTTCCATGGCGATTGCATCCAGTGAATCCACGAGCATCTGCAGTCACTG                         TGACAAAGCTATTCCTTCTACAAATATCGATTTGCACTATGCTCATTGCTC
genomic: GGTTCCATGGCGATTGCATCCAATGAATCCACGAGCATCTGCAGTCACTGgtagtaaagg ... atgttttcagTGACAAAGCTATTCCTTCTACAAATATCGATTTGCACTATGCTCATTGCTC
EST: gi|110419639|gb|EC985884.1|EC985884
EST:     GGGTCCATGGCGATTGCATCCAGTGAATCCACGAGCATCTGCAGTCACTG                         TGACAAAGCTATTCCTTCTACAAATATCGATTTGCACTATGCTCATTGCTC
genomic: GGTTCCATGGCGATTGCATCCAATGAATCCACGAGCATCTGCAGTCACTGgtagtaaagg ... atgttttcagTGACAAAGCTATTCCTTCTACAAATATCGATTTGCACTATGCTCATTGCTC
EST: gi|33407908|gb|CF213535.1|CF213535
EST:     GGTTCCATGGCGATTGCATCCAGTGAATCCACGAGCATCTGCAGTCACTG                         TGACAAAGCTATTCCTTCTACAAATATCGATTTGCACTATGCTCATTGCTC
genomic: GGTTCCATGGCGATTGCATCCAATGAATCCACGAGCATCTGCAGTCACTGgtagtaaagg ... atgttttcagTGACAAAGCTATTCCTTCTACAAATATCGATTTGCACTATGCTCATTGCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcagttgtctaacccacgaagtctgctgactactgaatgtttcatgttttcagTGACAAAGCTATTCCTTCTACAAATATCGATTTGCACTATGCTCATTGCTCCCGAAATCTGGAAAGATGTAAACATTGTGGTGACATGGTTCCAAAAAAA
                         tgctgac  putative branch site (score: 2)
                                              tgttttc  putative PPT
                                     aatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttattcgtgttcactaagttaataaaattttcagttaacctctttttcagttgtctaacccacgaagtctgctgactactgaatgtttcatgttttcagTGACAAAGCTATTCCTTCTACAAATATCGATTTGCACTATGCTCATTGCTCCCGAAATCTGGAAAGATGTAAACATTGTGGTGACATGGTTCCAAAAAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- - - - - - - - - - -aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - taaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctgctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgaatg