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

...ctggaagattgtctaattattgccctctgttgtcttttatctatattgtttcacttatattctgaaagctaacgtttcttgtcattgcttggacgaccagATGATTAGACTGATTACTTTTACAAGTGGTGGCCGTGCATACCTCAATTTCATGGGAAATGAATTTGGACATCCTGAG

Basic information

species Arabidopsis thaliana
transcript AT3G20440.2
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT3G20440.3 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: LOC_Os06g26234.2 (Oryza sativa), 3'ss of exon 14
ctggaagattgtctaattattgccctctgttgtcttttatctatattgtttcact-tatattctgaaagctaacgtttcttgtcattgcttggacgac-cagATGATTAGACTGATTACTTTTACAAGTGGTGGCCGTGCATACCTCAATTTCATGGGAAATGAATTTGGACATCCTGAG
 |     |||   |  |||||        ||   | | ||    |||| |   |  || ||| |     ||  |     |  || |   |   | |   ||||| || | ||| |||||||||||||   ||||  ||||||| ||||| ||||| ||||||||||||| ||||||  ||
tttctgtatttatt--ttattttatgacattccttatcataggaattgatgagcaataaattttacgttctgccaaaaataatcttctttcacatgtttcagATAATCAAACTAATTACTTTTACAACAAGTGGTGGTGCATATCTCAACTTCATTGGAAATGAATTTGCACATCCAAAG

upper sequence: AT3G20440.3 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv19s0090g00920.t01 (Vitis vinifera), 3'ss of exon 14
----ctggaagattgtctaattattgccctctgttgtcttttatctat-attgtttcacttatattctgaaagctaacgtttcttgtcattgcttggacgaccagATGATTAGACTGATTACTTTTACAAGTGGTGGCCGTGCATACCTCAATTTCATGGGAAATGAATTTGGACATCCTGAG
     |      |   | ||  |  |        |   ||| |  ||| ||| |    |||   || ||    ||||   || || || || |||       |||||||| ||| |||||||  |||||| |||||||| ||| |||||||| |||||||||||||||||||| |||||  ||
atttatatgtagtctccaaaaaacagtaaaagactacatttcagttattattttcatgctttccttttggc--ctaa---ttattttctttacttttctattcagATGATCAGATTGATTACACTTACAATTGGTGGCCATGCTTACCTCAACTTCATGGGAAATGAATTTGGGCATCCAAAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtttcacttatattctgaaagctaacgtttcttgtcattgcttggacgaccagATGATTAGACTGATTACTTTTACAAGTGGTGGCCGTGCATACCTCAATTTCATGGGAAATGAATTTGGACATCCTGAG
                     agctaac  putative branch site (score: 2)
       acttatatt  TA-rich tract