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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagcattgtgcataattatgttcataggctttacgtgttgaatgagtagtaatgactggccttatcctgattatctttggcagCTCTTTGAGATGGGTCTCGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATTTGCTTTTGGCATGGGACTAACTCAG

Basic information

species Arabidopsis thaliana
transcript AT4G04850.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G06890.3 (Glycine max), 3'ss of exon 3
--gtgagcattgtgcataatt---atgttcataggctttacg--------tgttgaatgagtagtaatgactggcctta--tcctgattatct-ttggcagCTCTTTGAGATGGGTCTCGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATTTGCTTTTGGCATGGGACTAACTCAG
   |||  |   |  || |||   ||| | |||  |   ||         || | ||   || ||| | | |   || |  |  || || ||| ||  ||||| |||||||||||| | ||||||||||||||||||||||||||||||||||||| ||||||||| |||||| | ||||||
gtatgaataacctatattattttcatggtgataatccacaccaaaatttctgataaacatgttgta-taattactctgaagtaatgtttgtctcttttcagCTGTTTGAGATGGGTTTAGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATATGCTTTTGGGATGGGATTGACTCAG

upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G30360.2 (Glycine max), 3'ss of exon 4
--------------------gtgagcattgtgcataattatgttcataggctttacgtgttgaatgagtagtaatgactggccttatcctgattatctttggcagCTCTTTGAGATGGGTCTCGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATTTGCTTTTGGCATGGGACTAACTCAG
                     ||    |  | |  | | |  ||  |    |  || ||||| || | || | | | |||   | ||  |  ||   |||  ||||| |||||||||||| | |||||||||||||| |||||||||||||||||||||| ||||||||| |||||| |  |||||
gaataacctatattatttttatggttgtaatcctcagtaaaatttctga--taaacatgttgtataattactga-gtctgaagtcatgtttgtttctttt--cagCTGTTTGAGATGGGTTTAGAGCTTTCACTTGCACGTCTGAAAGCTCTTGCAAAATATGCTTTTGGGATGGGATTGGCTCAG

upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv00s0282g00020.t01 (Vitis vinifera), 3'ss of exon 3
----------gtgagcattgtgca-taattatgttcataggctttacgtgttgaatgagtagtaatgactggccttatcctgat----tatctttggcagCTCTTTGAGATGGGTCTCGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATTTGCTTTTGGCATGGGACTAACTCAG
            |    || | || | || ||||| |     || || ||  |  | | | ||    | |    ||   || ||    | || ||||||||| |||||||||||| | |||||||||||||| |||||  | |||||||||||||||||||||||||||||| | ||||||
tttgactacgaagcttgttattcacttatgatgttgagtcctttgacatgcagcttaactggtttatattcattttggactaatacattttccttggcagCTGTTTGAGATGGGTTTAGAGCTTTCACTTGCACGTCTACAGGCTCTTGCAAAATTTGCTTTTGGCATGGGATTGACTCAG

upper sequence: AT4G04850.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: PP1S114_83V6.1 (Physcomitrella patens), 3'ss of exon 2
------------------------gtgagcattgtgcataattatgttcataggctttacgtgttgaatgagt---agtaatgactggcctt---atcctgattatctttggcagCTCTTTGAGATGGGTCTCGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATTTGCTTTTGGCATGGGACTAACTCAG
                         |||   |    |  |  | ||||  |  |  |||  | |   ||  ||   |     |  ||  |||   ||   ||| ||  ||| ||||| ||||||||||| || ||||||||  | || ||||| |||||||| || ||||||||||||||||| |||||  | |||
gtatgtaacattctcagctagaatttgattgtctctctgagatttgtttttcagaattaactttcctatttgttcaaaccgcgtttgatcttgaaatttggatcattcttg-cagCTGTTTGAGATGGGACTGGAGCTTTCTTTAGCGCGTCTTAAAGCTCTGGCGAAATTTGCTTTTGGCATAGGACTTGCCCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttacgtgttgaatgagtagtaatgactggccttatcctgattatctttggcagCTCTTTGAGATGGGTCTCGAGCTTTCACTTGCTCGTCTGAAAGCTCTTGCAAAATTTGCTTTTGGCATGGGACTAACTCAG
                                    tcctgat  putative branch site (score: 3)
                                          ttatcttt  CT-rich tract
                                         attatcttt  TA-rich tract