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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaataccagtcttgttttgaactgtttagcaaatgaacacatcaaacttttgttcaacttagagcttttatcttgtggatacagGACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTCCTGGAGGACAACC

Basic information

species Vitis vinifera
transcript Vv08s0007g01340.t01
intron # 6
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|349824491|gb|FQ413158.1|FQ413158
EST:     GAGCGATNTTGGTAGTGGGTCCATGCTTTTAG                         GACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTC
genomic: GAGCGATTTTGGTAGTGGGTCCATGCTTTTAGgtttgtaata ... gtggatacagGACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTC
EST: gi|110372149|gb|EC936298.1|EC936298
EST:     GAGCGATTTTGGTAGTGGGTCCATGCTTTTAG                         GACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTC
genomic: GAGCGATTTTGGTAGTGGGTCCATGCTTTTAGgtttgtaata ... gtggatacagGACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTC
EST: gi|110718881|gb|EE096218.1|EE096218
EST:     GAGCGATTTTGGTAGTGGGTCCATGCTTTTAG                         GACCTAATGATCCTCGCTGGGTTGGGTGGAGTAAGTGGGAGACCCCAGCTT
genomic: GAGCGATTTTGGTAGTGGGTCCATGCTTTTAGgtttgtaata ... gtggatacagGACCTAATGATCCTCGCTGGTTTGG-TGGAGTAGGTGG-AGACCCCAGCTT
EST: gi|110356854|gb|EC919981.1|EC919981
EST:     GAGCGATTTTGGTAGTGGGTCCATGCTTTTAG                         GACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGGTGGAGACCCCAGCTTT
genomic: GAGCGATTTTGGTAGTGGGTCCATGCTTTTAGgtttgtaata ... gtggatacagGACCTAATGATCCTCGCTGGTTTGGTGGAGTAGG-TGGAGACCCCAGCTTT
EST: gi|351023717|gb|FQ448268.1|FQ448268
EST:     GAGCGATTTTGGTAGTGGGTCCATGCTTTTAG                         GACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTC
genomic: GAGCGATTTTGGTAGTGGGTCCATGCTTTTAGgtttgtaata ... gtggatacagGACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTC
EST: gi|110688830|gb|EE067830.1|EE067830
EST:     GAGCGATTTTGGGAGGGGGTC-ATGCTTTTAG                         GACCTAATGATCCTCGCTGGTTTGGGGGAGGAGGTGGAGACCCCTTCTTTC
genomic: GAGCGATTTTGGTAGTGGGTCCATGCTTTTAGgtttgtaata ... gtggatacagGACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTC
EST: gi|110718248|gb|EE094865.1|EE094865
EST:     GAGCGATTTTGGTAGTGGGTCCATGCTTTTAG                         GAACTAATGATCCTCGCTGGGTTTGGTGGAGTAGGTGGGAGACCC-AGCTT
genomic: GAGCGATTTTGGTAGTGGGTCCATGCTTTTAGgtttgtaata ... gtggatacagGACCTAATGATCCTCGCTGG-TTTGGTGGAGTAGGTGG-AGACCCCAGCTT
EST: gi|110731453|gb|EE105880.1|EE105880
EST:     GAGCGATTTTGGTAGTGGGTCCATGCTTTTAG                         GACCTAATGATCCTCGCTGGTTTGG
genomic: GAGCGATTTTGGTAGTGGGTCCATGCTTTTAGgtttgtaata ... gtggatacagGACCTAATGATCCTCGCTGGTTTGG
EST: gi|37187578|gb|CF606931.1|CF606931
EST:     GAGCGATTTTGGTAGTGGGTCCATGCTTTTAG                         GACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGG
genomic: GAGCGATTTTGGTAGTGGGTCCATGCTTTTAGgtttgtaata ... gtggatacagGACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGG
EST: gi|349830477|gb|FQ416775.1|FQ416775
EST:     GAGCGATTTTGGTAGTGGGTCCATGCTTTTAG                         GACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTC
genomic: GAGCGATTTTGGTAGTGGGTCCATGCTTTTAGgtttgtaata ... gtggatacagGACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaatgaacacatcaaacttttgttcaacttagagcttttatcttgtggatacagGACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTCCTGGAGGACAACC
                                    ttttatctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttgtaataccagtcttgttttgaactgtttagcaaatgaacacatcaaacttttgttcaacttagagcttttatcttgtggatacagGACCTAATGATCCTCGCTGGTTTGGTGGAGTAGGTGGAGACCCCAGCTTTCCTGGAGGACAACC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA