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

gtcacaacacaaatttcatacaaatgccctcttgtatgctattttttttttagatctttcatttttgattttgtgtctccaatccatttctattgctgaagGTTGCATTGCCAAGAAAGTAGCGAAGAAAGCTCAGAGACAGAATCTGTCTTTTCTCTGAAATGTCACATATCACATGAGGTGAACCACTTGCATGAAGGA

Basic information

species Arabidopsis thaliana
transcript AT3G21280.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G21280.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA08G20900.1 (Glycine max), 3'ss of exon 9
----gtcacaacacaaatttcatacaaatgccctcttgtatgctattttttttttagatctttcatttttgattttgtgtctccaatccatttctattgctgaagGTTGCATTGCCAAGAAAGTAGCGAAGAAAGCTCAGAGACAGAATCTGTCTTTTCTCTGAAATGTCACATATCACATGAGGTGAACCACTTGCATGAAGGA
    |  ||||  || | ||   |    |       ||     |  |     |  |  | | || | ||| || | ||   |   ||       | ||     ||| | ||||| ||||| ||||  |||||||||||||| ||||| ||||| | ||| || ||||| ||||||||||| ||||||||||| ||||| ||||| 
aaaagagacaatccacacttttgaagtttattaaaatgctcattgatgcccatgaaattgtatcctgtttaatgtagtcattttgataacaacttgtt-----agGATTCATTGTCAAGAGAGTAATGAAGAAAGCTCAGAAACAGAGTCTGTTTATTCACTTAAATGCCACATATCACAGGAGGTGAACCATTTGCACGAAGGG

upper sequence: AT3G21280.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA07G01480.1 (Glycine max), 3'ss of exon 9
---gtcacaacacaaatttcatacaaatgccctcttgtatgctattttttttttagatctttcatttttgattttgtgtctccaatccatttctattgctgaagGTTGCATTGCCAAGAAAGTAGCGAAGAAAGCTCAGAGACAGAATCTGTCTTTTCTCTGAAATGTCACATATCACATGAGGTGAACCACTTGCATGAAGGA
   |  | ||  || | ||  |  |   |     |   |||||   |  | |  | |   ||  | |    |||  |||   || |    |  ||       ||| | ||||| ||||| ||||  ||||||||||||||  |||| ||||| | ||| || ||||| |||||||| || ||||||||||| ||||||||||| 
aaagagagaatccacactttttgaa---gtttattaaaatgcttactgatgtccataaaatt-gtatcccgtttaatgtagtcattttgataataacttgttagGATTCATTGTCAAGAGAGTAAGGAAGAAAGCTCAGAAGCAGAGTCTGTTTATTCACTTAAATGCCACATATCGCAGGAGGTGAACCATTTGCATGAAGGG

upper sequence: AT3G21280.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv09s0002g02500.t01 (Vitis vinifera), 3'ss of exon 9
------gtcacaacacaaatttcatacaaatgccctcttgtatgctattttttttttagatctttcatttttgattttgtgtctccaatccatttctattgctgaagGTTGCATTGCCAAGAAAGTAGCGAAGAAAGCTCAGAGACAGAATCTGTCTTTTCTCTGAAATGTCACATATCACATGAGGTGAACCACTTGCATGAAGGA
      ||            |   |  | ||  |||   | |||  | | | || | | ||  | | ||| || || | | |||    |   |||   ||     ||| |||||||| |||||||| | ||||| ||||||||||| ||||| || | ||| || ||||| ||||||||||| ||||||||||| ||||||||||||
tgttgggttgtctgttcttctattttgacatatcctaaaggatgagagtctcttat-acattatgcttttctggttat-tttcttttgttggttttgttt-----agGATGCATTGCGAAGAAAGTGGTGAAGAGAGCTCAGAGACTGAATCAGTTTATTCACTTAAATGCCACATATCACACGAGGTGAACCATTTGCATGAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttagatctttcatttttgattttgtgtctccaatccatttctattgctgaagGTTGCATTGCCAAGAAAGTAGCGAAGAAAGCTCAGAGACAGAATCTGTCTTTTCTCTGAAATGTCACATATCACATGAGGTGAACCACTTGCATGAAGGA
                ttttgat  putative branch site (score: 4)
                                        tttctatt  putative PPT
          tttcatttttgatttt  TA-rich tract