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'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGTTGGACCTTCAGGTTCAGATCAACCCCAAAGATGATCAAACGGCTGCCAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAGgtatgcttttgcctgactggctgcaatgtttcttacaaacgattatttaaacctggacaaacccatctagtttctccattaattgaactcctcaccatgt...

Basic information

species Vitis vinifera
transcript Vv09s0002g08370.t01
intron # 25
splice site 5'
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|349822443|gb|FQ412707.1|FQ412707
EST:     CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAACTTTAG                         ATTTTCAGGATATGTAATTTACTCAAG
genomic: CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAGgtatgctttt ... tcttgtgcagATTTTCAGGATATGTAATTTACTCAAG
EST: gi|351031457|gb|FQ446660.1|FQ446660
EST:     CAAAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAG                         AATTTCAGGATATGTAATTTACTCAAGGATGGAAATCTGTTG
genomic: CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAGgtatgctttt ... tcttgtgcagATTTTCAGGATATGTAATTTACTCAAGGATTGAAATCTGTTG
EST: gi|32457830|gb|CD799004.1|CD799004
EST:     CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAG                         ATTTTCAGGATATGTAATTTACTCAAGGATTGAAATCTGTTGATGTAGATC
genomic: CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAGgtatgctttt ... tcttgtgcagATTTTCAGGATATGTAATTTACTCAAGGATTGAAATCTGTTGATGTAGATC
EST: gi|349829095|gb|FQ419627.1|FQ419627
EST:     CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAG                         ATTTTCAGGATATGTAATTTACTCAGGGATTGAAATCTGT
genomic: CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAGgtatgctttt ... tcttgtgcagATTTTCAGGATATGTAATTTACTCAAGGATTGAAATCTGT
EST: gi|110387196|gb|EC951846.1|EC951846
EST:     CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAG                         ATTTTCAGGATATGTAATTTACTCAAGGATTGAAATCTGTTGATGTAGATC
genomic: CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAGgtatgctttt ... tcttgtgcagATTTTCAGGATATGTAATTTACTCAAGGATTGAAATCTGTTGATGTAGATC
EST: gi|349826376|gb|FQ417873.1|FQ417873
EST:     CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAG                         ATTTTCAGGATATGTAATTTACTCAAGGATTGAAATCTGTTGATGTAGATC
genomic: CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAGgtatgctttt ... tcttgtgcagATTTTCAGGATATGTAATTTACTCAAGGATTGAAATCTGTTGATGTAGATC
EST: gi|30321458|gb|CD004720.1|CD004720
EST:     CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAG                         ATTTTCAGGATATGTAATTTACTCAAGGATTGAAATCTGTTGATGTAGATC
genomic: CAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAGgtatgctttt ... tcttgtgcagATTTTCAGGATATGTAATTTACTCAAGGATTGAAATCTGTTGATGTAGATC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAGTTGGACCTTCAGGTTCAGATCAACCCCAAAGATGATCAAACGGCTGCCAGAGCACAAGTTCTTTTACATGCTTGGCTTACTGGCACTCTAAATTTAGgtatgcttttgcctgactggctgcaatgtttcttacaaacgattatttaaacctggacaaacccatctagtttctccattaattgaactcctcaccatgt

- - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggacaaa