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'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgggatttctttctcctttcttttgtagggcctaattttcaagtgtgatattcattaaaaagaatagttgtttgatttctttgacttgtatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGTCCTTCTTCCATCGCATTATCAAAGGATCAATGGTTCAG

Basic information

species Vitis vinifera
transcript Vv04s0008g05090.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|110687168|gb|EE064342.1|EE064342
EST:     CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAG                         GTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
genomic: CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAGgtaacatata ... tatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
EST: gi|34544006|gb|CF512238.1|CF512238
EST:     CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAG                         GTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCGCTGCACTATAAAGGGT
genomic: CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAGgtaacatata ... tatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
EST: gi|30295674|gb|CB972468.1|CB972468
EST:     CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAG                         GTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCGCTGCACTATAAAGGGT
genomic: CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAGgtaacatata ... tatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
EST: gi|352777331|gb|FQ473965.1|FQ473965
EST:     CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAG                         GTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
genomic: CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAGgtaacatata ... tatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
EST: gi|34543917|gb|CF512149.1|CF512149
EST:     CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAG                         GTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCGCTGCACTATAAAGGGT
genomic: CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAGgtaacatata ... tatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
EST: gi|34550009|gb|CF518241.1|CF518241
EST:     CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAG                         GTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
genomic: CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAGgtaacatata ... tatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
EST: gi|34550884|gb|CF519098.1|CF519098
EST:     CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAG                         GTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
genomic: CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAGgtaacatata ... tatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
EST: gi|352765311|gb|FQ466008.1|FQ466008
EST:     CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAG                         GTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
genomic: CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAGgtaacatata ... tatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
EST: gi|26262030|gb|CA813093.1|CA813093
EST:     CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAG                         GTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCGCTGCACTATAAAGGGT
genomic: CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAGgtaacatata ... tatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
EST: gi|352772302|gb|FQ469827.1|FQ469827
EST:     CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAG                         GTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
genomic: CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAGgtaacatata ... tatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
EST: gi|110723917|gb|EE099287.1|EE099287
EST:     CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAG                         GTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT
genomic: CTCTGATGTTGCTCCCAAGACTGCAGAAAATTTTCGTGCACTCTGTACAGgtaacatata ... tatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgatattcattaaaaagaatagttgtttgatttctttgacttgtatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGTCCTTCTTCCATCGCATTATCAAAGGATCAATGGTTCAG
                                   ctttgac  putative branch site (score: 4)
                                             tatttttc  putative PPT
     tattcattaaaaagaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttgggatttctttctcctttcttttgtagggcctaattttcaagtgtgatattcattaaaaagaatagttgtttgatttctttgacttgtatttttcagGTGAAAAAGGAATCGGTCCCAAAACTGGAAAGCCACTGCACTATAAAGGGTCCTTCTTCCATCGCATTATCAAAGGATCAATGGTTCAG

- - - - - -tttctcc
- - - - - - - - - - - - - - - - - - - - -caagtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaagaa