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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcatctattgtttttcatttaaggttttaatctcatgaactctttaagttatgataggataaatttttaatggatgttggttgctttttattta...

Basic information

species Vitis vinifera
transcript Vv07s0005g01440.t01
intron # 17
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g01440.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA10G01660.1 (Glycine max), 5'ss of exon 18
CACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcatctattgtttttcatttaaggttttaatctcatgaactctttaagttatgataggataaatttttaatggatgttggttgct--ttttattta--
|| ||||| || |||||||| ||||||||||| ||| | ||||||||||||||  ||  |||| |  | ||| | | |  ||  |  | |  ||     ||| ||||    | | ||   ||    || |   |||  |  |  | ||| | |  
CATAAGGAACCAAGAGAAGTTCATATGTTTGTTGATCTATTTCTTCAAGAGgttggtatatctgt-atatttaaatca--gtcattcttttctgtgtcttttcagttgcctt-gaattgtttaagcattgtgattgagtattagtcttactaaat

upper sequence: Vv07s0005g01440.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA02G01610.1 (Glycine max), 5'ss of exon 18
CACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcatctattgtttttcatttaagg--ttttaatctcatgaactctttaag--ttatgataggataa-atttttaatggatgttggttgctttttattta
|| |||||||| ||||| || ||||||||||| ||| | ||||||||||||||  ||| ||  | |  || |  | |  |   ||| | |  ||||||   ||||||  || |||| | |||  | | ||| |  || ||| || | |        
CATAAGGAGCCAAGAGATGTTCATATGTTTGTTGATCTATTTCTTCAAGAGgttggtgtattcaatcattcttttctgtgtcttttcagttgcatgaatggtttaagcattgtgattgaatattagtcttactaaattttgcttacctaga-----

upper sequence: Vv07s0005g01440.t01 (Vitis vinifera), 5'ss of exon 17
lower sequence: GLYMA19G40380.1 (Glycine max), 5'ss of exon 20
CACAAGGAGCCCAGAGA--AGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgc------atctattgtttttcatttaaggttttaatctcatgaactctttaagttatgataggataaatttttaatggatgttggttgctttttattta--
|| |||||||| |||||  ||| ||||||||| | ||||| ||||||||||||||  || |      ||| |||| | |   ||   |  |    | | | |   | ||| | ||||   |||||    | |  ||| ||  ||||    |||||||||  
CATAAGGAGCCAAGAGAGAAGTTCATATGTTTATTGATTTATTTCTTCAAGAGGTGGgtactttcaaatcaattgctctattttcttgtgtcatcttttaagttgtttttgaattatttgaggat----tgtacatgcatactggtcttattttatttatc

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|30324169|gb|CD007431.1|CD007431
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|71889645|gb|DT038700.1|DT038700
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|30323970|gb|CD007232.1|CD007232
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTCCGAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|27579832|gb|CB002527.1|CB002527
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|32267461|gb|CD716424.1|CD716424
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|30325708|gb|CD008970.1|CD008970
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|71855179|gb|DT004234.1|DT004234
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|30327626|gb|CD010888.1|CD010888
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|32269349|gb|CD718508.1|CD718508
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|32269302|gb|CD718461.1|CD718461
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|32248389|gb|CD714208.1|CD714208
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|32267654|gb|CD716617.1|CD716617
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|32268218|gb|CD717377.1|CD717377
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|32248728|gb|CD714547.1|CD714547
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|32270860|gb|CD720019.1|CD720019
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
EST: gi|32268333|gb|CD717492.1|CD717492
EST:     ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAG                         TTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC
genomic: ACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcat ... cctgccgtagTTGGAAGCAATAAGAACTGAAGTAAAGCAGATTTTACCCCAAGGACTCCAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CACAAGGAGCCCAGAGAAGTCCATATGTTTGTCGATTTGTTTCTTCAAGAGgtcagtgcatctattgtttttcatttaaggttttaatctcatgaactctttaagttatgataggataaatttttaatggatgttggttgctttttattta

-  AAGGAG
- - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aggataa