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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgatgatattgtttagctcatttatgccatcaggtgtggattgttatctgtactccttttgttttttattaaattcacaaaatcctgattacttgaacagTGGATGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTGTTAGCAGCAAGAGATGCAATGCTTAGGATCAGAAGTAATATGCGCCAGA

Basic information

species Vitis vinifera
transcript Vv02s0012g02530.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|110428074|gb|EC994535.1|EC994535
EST:     ATGCATATAAATGTGTGATCAACAGTTGCAGCATTCATAGGTCAGAGAAG                         TGGATGGAGCAAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
genomic: ATGCATATAAATGTGTGATCAACAGTTGCAGCATTCATAGGTCAGAGAAGgtaatttatg ... acttgaacagTGGATGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
EST: gi|30330294|gb|CD013556.1|CD013556
EST:     ATGCATATAAATGTGTGATCAACAGTTGCAGCATTCATAGGTCAGAGAAG                         TGGACGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
genomic: ATGCATATAAATGTGTGATCAACAGTTGCAGCATTCATAGGTCAGAGAAGgtaatttatg ... acttgaacagTGGATGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
EST: gi|77588902|gb|DV223694.1|DV223694
EST:     GCAGCATTCATAGGTCAGAGAAG                         TGGATGGAGCAAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
genomic: GCAGCATTCATAGGTCAGAGAAGgtaatttatg ... acttgaacagTGGATGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
EST: gi|30254524|gb|CB971269.1|CB971269
EST:     ATGCATATAAATGTGTGATCAACAGTTGCAGCATTCATAGGTCAGAGAAG                         TGGATGGAGCAAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
genomic: ATGCATATAAATGTGTGATCAACAGTTGCAGCATTCATAGGTCAGAGAAGgtaatttatg ... acttgaacagTGGATGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
EST: gi|30254602|gb|CB971347.1|CB971347
EST:     ATGCATATAAATGTGTGATCAACAGTTGCAGCATTCATAGGTCAGAGAAG                         TGGATGGAGCAAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
genomic: ATGCATATAAATGTGTGATCAACAGTTGCAGCATTCATAGGTCAGAGAAGgtaatttatg ... acttgaacagTGGATGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
EST: gi|71888427|gb|DT037482.1|DT037482
EST:     GCAGCATTCATAGGTCAGAGAAG                         TGGATGGAGCAAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
genomic: GCAGCATTCATAGGTCAGAGAAGgtaatttatg ... acttgaacagTGGATGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
EST: gi|30329683|gb|CD012945.1|CD012945
EST:     ATGCATATAAATGTGTGATCAACAGTTGCAGCATTCATAGGTCAGAGAAG                         TGGACGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG
genomic: ATGCATATAAATGTGTGATCAACAGTTGCAGCATTCATAGGTCAGAGAAGgtaatttatg ... acttgaacagTGGATGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctgtactccttttgttttttattaaattcacaaaatcctgattacttgaacagTGGATGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTGTTAGCAGCAAGAGATGCAATGCTTAGGATCAGAAGTAATATGCGCCAGA
                                     tcctgat  putative branch site (score: 3)
           ttttgttttttattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgatgatattgtttagctcatttatgccatcaggtgtggattgttatctgtactccttttgttttttattaaattcacaaaatcctgattacttgaacagTGGATGGAGCGAGCCACTGGGCCAGACCAAGAAGCAGTTGTTAATGCATTGTTAGCAGCAAGAGATGCAATGCTTAGGATCAGAAGTAATATGCGCCAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - -gccatca
- - - - - - - - - - - - - - - - ggtgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatcc