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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacaattttcccccctctaaatattggaaaactctttaagatcaggtcttattcatctattgtttaagcatccgttattttaagctgttcatttttgcagACAAGAGGAGTCCATCGGCGAATATCTCGCTCACTTTCGGTCCCTGTAAACAATAAAGATAGAAGCATAAAGAGAATGGATTCATTTTTTCGTGTAATTC

Basic information

species Vitis vinifera
transcript Vv06s0004g02930.t01
intron # 2
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|110689318|gb|EE065437.1|EE065437
EST:     ACCCAGAATCAGTAAGTGGAGGAAGCATAGGCAGTGCACTGAAATCAGAT                         ACAAGAGGAGTCCATCGGCGAATATCTCGCTCACTTTCGGTCCCTGTAAAC
genomic: ACCCAGAATCAGTAAGTGGAGGAAGCATAGGCAGTGCACTGAAATCAGATgtaagtcttt ... atttttgcagACAAGAGGAGTCCATCGGCGAATATCTCGCTCACTTTCGGTCCCTGTAAAC
EST: gi|71865274|gb|DT014329.1|DT014329
EST:     ACCCAGAATCAGTAAGTGGAGGAAGCATAGGCAGTGCACTGAAATCAGAT                         ACAAGAGGAGTCCATCGGCCAATATCTCGCTCACTTTCGGTCCCTGTAAAC
genomic: ACCCAGAATCAGTAAGTGGAGGAAGCATAGGCAGTGCACTGAAATCAGATgtaagtcttt ... atttttgcagACAAGAGGAGTCCATCGGCGAATATCTCGCTCACTTTCGGTCCCTGTAAAC
EST: gi|34550148|gb|CF518366.1|CF518366
EST:     ACCCAGAATCAGTAAGTGGAGGAAGCATAGGCAGTGCACTGAAATCAGAT                         ACAAGAGGAGTCCATCGGCGAATATCTCGCTCACTTTCGGTCCCTGTAAAC
genomic: ACCCAGAATCAGTAAGTGGAGGAAGCATAGGCAGTGCACTGAAATCAGATgtaagtcttt ... atttttgcagACAAGAGGAGTCCATCGGCGAATATCTCGCTCACTTTCGGTCCCTGTAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcttattcatctattgtttaagcatccgttattttaagctgttcatttttgcagACAAGAGGAGTCCATCGGCGAATATCTCGCTCACTTTCGGTCCCTGTAAACAATAAAGATAGAAGCATAAAGAGAATGGATTCATTTTTTCGTGTAATTC
                                          ttcattttt  CT-rich tract
                             ttattttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacaattttcccccctctaaatattggaaaactctttaagatcaggtcttattcatctattgtttaagcatccgttattttaagctgttcatttttgcagACAAGAGGAGTCCATCGGCGAATATCTCGCTCACTTTCGGTCCCTGTAAACAATAAAGATAGAAGCATAAAGAGAATGGATTCATTTTTTCGTGTAATTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
aacaatt
- - - - - ccccctc
- - - - - - - - - - - - -ggaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatccg