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'   		14  
 5'  3'   		15  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTGCGGACTATGACAAAGTAGGGTCTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcagcatcaaattcaactcaagtcttataagcagttgtttttaatgctgcagggaactcataattatttcactgcag

Basic information

species Vitis vinifera
transcript Vv04s0023g00140.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g00140.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT4G27650.1 (Arabidopsis thaliana), 5'ss of exon 5
GTTGCGGACTATGACAAAGTAGGGTCTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcagcatcaaattcaactca--agtcttataagcagttgtttttaatgctgcagggaactcataattatttcactgcag
|  | ||||||||||||||  || ||||||||||| ||||| || || |||||||| ||||||||  | |||||||| | |||     |   ||  | ||   ||  ||    |   |  | | |  |   ||||                         
GAGGTGGACTATGACAAAGACGGATCTGTTTTGCGCATACGTGGCAAAAATATCCTGGAGAATGAGCACGTAAAGgtagatgcgaggccgccttttattctatagattttcctgtgctgatgtgttgtatcgcag-------------------------
















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|71861191|gb|DT010246.1|DT010246
EST:     CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAG                         ATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
genomic: CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcag ... ttcactgcagATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
EST: gi|110356881|gb|EC920025.1|EC920025
EST:     CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAG                         ATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
genomic: CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcag ... ttcactgcagATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
EST: gi|110724761|gb|EE100872.1|EE100872
EST:     CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAG                         ATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
genomic: CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcag ... ttcactgcagATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
EST: gi|110712695|gb|EE087976.1|EE087976
EST:     CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAG                         ATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
genomic: CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcag ... ttcactgcagATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
EST: gi|71865271|gb|DT014326.1|DT014326
EST:     CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAG                         ATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
genomic: CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcag ... ttcactgcagATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
EST: gi|161715809|gb|FC065164.1|FC065164
EST:     CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAG                         ATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
genomic: CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcag ... ttcactgcagATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
EST: gi|30135371|gb|CB920709.1|CB920709
EST:     CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAG                         ATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
genomic: CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcag ... ttcactgcagATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
EST: gi|294966861|gb|GW839736.1|GW839736
EST:     CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAG                         ATAGGGCAATTCCATACT
genomic: CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcag ... ttcactgcagATAGGGCAATTCCATACT
EST: gi|30129653|gb|CB914992.1|CB914992
EST:     CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAG                         ATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
genomic: CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcag ... ttcactgcagATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
EST: gi|161719832|gb|FC065768.1|FC065768
EST:     CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAG                         ATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA
genomic: CTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcag ... ttcactgcagATAGGGCAATTCCATACTTTAGAAATTGAGCAGCATCGCCCTTTTGTGTTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTGCGGACTATGACAAAGTAGGGTCTGTTTTGCGTATACGGGGAAAGAATATCCTAGAGAATGAATATGTAAAGgttggtgcagcatcaaattcaactcaagtcttataagcagttgtttttaatgctgcagggaactcataattatttcactgcag

- - - - - - - - - - - - - - - - - - - - - - AAAGAA