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'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttctttcttttttgtttatatggaccttatttttataatgttgtttgtttgtttgtttgtttgttttttcaatacttcttatgcctctggagattaccatactatcttcatttttttttatgaattttag

Basic information

species Vitis vinifera
transcript Vv11s0052g01710.t01
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv11s0052g01710.t01 (Vitis vinifera), 5'ss of exon 18
lower sequence: LOC_Os07g47290.1 (Oryza sativa), 5'ss of exon 17
GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttctttcttttttgtttatatggaccttatttttataatgttgtttgtttgtttgtttgtttgttttttcaatacttcttatgcctctggagattaccatactatcttcatttttttttatgaattttag
|| ||||| || ||||| |||||||||||||||||||||||||  ||| |        ||||||         || ||||| |     ||| |||   || || |   || ||   |   | |||   || ||  | |   ||  ||   | |                        
GGTGGGCTTGCACCTGGTGGATTCAACTTTGATGCCAAATTgttggttcccgctgacattgttt--------tttttttttgtg----tgtgtgtaaattggtct--ctgattcaactgaatttcaattgacttggaattctattatgtcaacag----------------------
















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|351031975|gb|FQ460232.1|FQ460232
EST:     GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATT                         GCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
genomic: GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttct ... tgaattttagGCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
EST: gi|351032492|gb|FQ458857.1|FQ458857
EST:     GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATT                         GCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
genomic: GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttct ... tgaattttagGCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
EST: gi|349809734|gb|FQ398359.1|FQ398359
EST:     GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATT                         GCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
genomic: GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttct ... tgaattttagGCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
EST: gi|349811710|gb|FQ409707.1|FQ409707
EST:     GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATT                         GCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
genomic: GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttct ... tgaattttagGCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
EST: gi|349812955|gb|FQ411195.1|FQ411195
EST:     GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATT                         GCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
genomic: GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttct ... tgaattttagGCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
EST: gi|351032512|gb|FQ458877.1|FQ458877
EST:     GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATT                         GCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
genomic: GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttct ... tgaattttagGCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
EST: gi|22015436|gb|BQ800470.1|BQ800470
EST:     GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATT                         GCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
genomic: GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttct ... tgaattttagGCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
EST: gi|352786892|gb|FQ481267.1|FQ481267
EST:     GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATT                         GCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCCTTTCTCACATTAGTGG
genomic: GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttct ... tgaattttagGCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
EST: gi|349820047|gb|FQ404769.1|FQ404769
EST:     GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATT                         GCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
genomic: GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttct ... tgaattttagGCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
EST: gi|29784962|gb|CB341547.2|CB341547
EST:     GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATT                         GCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG
genomic: GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttct ... tgaattttagGCGAAGGGAGAGCACTGATGTTGAGGATCTCTTCATTTCTCACATTAGTGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAGGGCTGGCCCCTGGAGGATTCAACTTTGATGCCAAATTgtaagtttctttcttttttgtttatatggaccttatttttataatgttgtttgtttgtttgtttgtttgttttttcaatacttcttatgcctctggagattaccatactatcttcatttttttttatgaattttag

- - - - - - - TGGAGG
- - - - - - -  GGAGGA
- - - - - - - - GAGGAT