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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacctgcagttttctttttttactttttctgaggaagttctgctttaatccctgtccagtttggttaatgttcgtttaatttctctatgcttgctatgcgggttccagCTTGCATTAGTCCTGCAGATATTAACGCGGAGGAGACACTTAACACTTTGAAATATGCAAACCGTGCTCGAAACATCCGAAATAAACCTGTT

Basic information

species Arabidopsis thaliana
transcript AT5G47820.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G47820.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os09g02650.1 (Oryza sativa), 3'ss of exon 7
gtaacctgcagttttctttttttactttttctgaggaagttctgctttaatccctgtccagtttggttaatgttcgtttaatttctctatgcttgctatgcgggttccagCTTGCATTAGTCCTGCAGATATTAACGCGGAGGAGACACTTAACACTTTGAAATATGCAAACCGTGCTCGAAACATCCGAAATAAACCTGTT
 |||     |    ||   | |  |||  | |     |   ||| |||  |   | |     ||   |     |    |   | || |||  ||    |||       ||| || |||||||| |||||||| || || || || ||||| ||||||||||||||||| ||||| ||||| |||||||  ||||| ||  ||
ataaataagaaaactcggatgtaccttgattttcactaa--ctgttttggttgatattactattacatgcaactgacatggat-ctatatttttctcctgc-------agCCTGTATTAGTCCAGCAGATATCAATGCTGAAGAAACACTGAACACTTTGAAATATGCTAACCGCGCTCGTAACATCCAGAATAAGCCAATT

upper sequence: AT5G47820.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G026218_T02 (Zea mays), 3'ss of exon 7
-----------------------------gtaacctgcagttttctttttttactttttctga-------------ggaagttctgctt--taatccctgtccagtttggttaatgt-tcgtttaatttc-------tctatgcttgctatgcgggttcc------agCTTGCATTAGTCCTGCAGATATTAACGCGGAGGAGACACTTAACACTTTGAAATATGCAAACCGTGCTCGAAACATCCGAAATAAACCTGTT
                             ||  | | || ||| |||    ||  ||| ||||             | || ||  |     ||||   |||  |  |     || || | | || |  |         ||  | |    ||     || |      ||||||||| ||||| ||||||||||| || || |||||| | ||||||||||||||||| ||||| || || || |||| ||| || ||  ||
gtaatttatcttgtcggtgattgctccatgtttcttacattttacttggactatatttgctgatctaagtgatatagaaaattaagtccagtaatatttgtttaactacaaaaaagtgttgcttgagcttacactcacctgagttaaacatatctttttctcctgcagCTTGCATAAGTCCAGCAGATATTAATGCTGAAGAGACATTAAACACTTTGAAATATGCTAACCGGGCACGTAATATCCAAAACAAGCCGATT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtccagtttggttaatgttcgtttaatttctctatgcttgctatgcgggttccagCTTGCATTAGTCCTGCAGATATTAACGCGGAGGAGACACTTAACACTTTGAAATATGCAAACCGTGCTCGAAACATCCGAAATAAACCTGTT
                    gtttaat  putative branch site (score: 4)
                     tttaatttctctat  TA-rich tract