Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtcatcatcatcaacaactctaacatctgctcagaatttattttattgtatttttacatgaacttgaatctcattgtttgtgtggtttactgtgaacagAATCAATACCATGGAGCTGGGATTTTCTGCTTTCCTCTTCTTCTGCGCATGCTATGATTTTCTGTATGGGAAGTACTACTTCTATGTGTACCTTTTCCTC

Basic information

species Vitis vinifera
transcript Vv06s0061g01230.t01
intron # 8
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|110419935|gb|EC986193.1|EC986193
EST:     GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAG                         AATCAATAC-ATGGAGCTGGGATTTTCTGCTTTC
genomic: GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAGgtaaaaactt ... ctgtgaacagAATCAATACCATGGAGCTGGGATTTTCTGCTTTC
EST: gi|110719707|gb|EE095069.1|EE095069
EST:     GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAG                         A-TCAATACCATGGGAGCTGGGATTTTCTGCTTTCCTCTTCTTCTGCGCAT
genomic: GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAGgtaaaaactt ... ctgtgaacagAATCAATACCATGG-AGCTGGGATTTTCTGCTTTCCTCTTCTTCTGCGCAT
EST: gi|34543478|gb|CF511710.1|CF511710
EST:     GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAG                         AATCAATACCATGGAGCTGGGATTTTCTGCTTTCCTCTTCTTCTGCGCATG
genomic: GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAGgtaaaaactt ... ctgtgaacagAATCAATACCATGGAGCTGGGATTTTCTGCTTTCCTCTTCTTCTGCGCATG
EST: gi|34543136|gb|CF511368.1|CF511368
EST:     GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAG                         AATCAATACCATGGAGCTGGGATTCTCTGCTTTCCTCTTCTTCTGCGCATG
genomic: GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAGgtaaaaactt ... ctgtgaacagAATCAATACCATGGAGCTGGGATTTTCTGCTTTCCTCTTCTTCTGCGCATG
EST: gi|110428836|gb|EC995318.1|EC995318
EST:     GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAG                         AATCAATACCATGGAGCTGGGATTTTCTGCTTTCCTCTTCTTCTGCGCATG
genomic: GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAGgtaaaaactt ... ctgtgaacagAATCAATACCATGGAGCTGGGATTTTCTGCTTTCCTCTTCTTCTGCGCATG
EST: gi|34543219|gb|CF511451.1|CF511451
EST:     GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAG                         AATCAATACCATGGAGCTGGGATTTTCTGCTTTCCTCTTTTTCTGCGCATG
genomic: GCCAACACCAAAGCAGCAGCCAAGAGACCTCGATTCAAGATCGGAGACAGgtaaaaactt ... ctgtgaacagAATCAATACCATGGAGCTGGGATTTTCTGCTTTCCTCTTCTTCTGCGCATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgtatttttacatgaacttgaatctcattgtttgtgtggtttactgtgaacagAATCAATACCATGGAGCTGGGATTTTCTGCTTTCCTCTTCTTCTGCGCATGCTATGATTTTCTGTATGGGAAGTACTACTTCTATGTGTACCTTTTCCTC
     atttttacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtcatcatcatcaacaactctaacatctgctcagaatttattttattgtatttttacatgaacttgaatctcattgtttgtgtggtttactgtgaacagAATCAATACCATGGAGCTGGGATTTTCTGCTTTCCTCTTCTTCTGCGCATGCTATGATTTTCTGTATGGGAAGTACTACTTCTATGTGTACCTTTTCCTC

- -catcatc
- - - - - - caacaac
- - - - - - - - - - - - catctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgtgg