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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatcacttcagcttatttattcatggtgctttttgtggagaactttctcaacgattgacctggaaagtgtgagctggcagTGATTGTGGGAGAAGTGGCCAACTTCACTGCCTACGCGTTTGCTCCGGCTGTCTTGGTCACTCCGCTTGGCGCACTGAGCATAATAGTCAG

Basic information

species Physcomitrella patens
transcript PP1S49_181V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S49_181V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os05g35060.1 (Oryza sativa), 3'ss of exon 2
-------gtaagatca--cttcagcttatttattcatggtgct-ttttgtggagaactttctcaacgattgacctggaaagtgtgagctggcagTGATTGTGGGAGAAGTGGCCAACTTCACTGCCTACGCGTTTGCTCCGGCTGTCTTGGTCACTCCGCTTGGCGCACTGAGCATAATAGTCAG
       ||    |||  | | |   || |  || |    | | ||   |         |       |||||  || |   ||     || |||||||||| |||||| | ||||||||| | || || || |||||||| ||| ||||||||||||| ||||| ||||| ||||||||  ||||
gtaagtggtttcttcatgcatgaatatactggttgacaaagttcttccatctgtggtgatagtgctaattga--tgtactatgctttttgtcagTGATTGTTGGAGAAATCGCCAACTTCGCAGCTTATGCTTTTGCTCCTGCTATCTTGGTCACTCCACTTGGTGCACTTAGCATAATTATCAG

upper sequence: PP1S49_181V6.2 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GRMZM2G110398_T01 (Zea mays), 3'ss of exon 2
gtaagatcacttcagcttatttattcatggtgct-ttttgtggagaactttctcaacg--attgacc-tggaaagtgtgagctggcagTGATTGTGGGAGAAGTGGCCAACTTCACTGCCTACGCGTTTGCTCCGGCTGTCTTGGTCACTCCGCTTGGCGCACTGAGCATAATAGTCAG
||| |    ||      |   ||  | || |  | || | | |   | |     ||    ||||||  |      ||  |  |  |||||||||| ||||||||||| |||||  | || || || |||||||| ||| |||||||||| || ||||| ||||| ||||| ||| | ||
gtaggtcacctctcatgtgaataggcctgcttttgttctattgctgaataatgtaatagtattgacgattcttgctgctattttccagTGATTGTTGGAGAAGTGGCTAACTTTGCAGCATATGCTTTTGCTCCTGCTATCTTGGTCACACCACTTGGTGCACTTAGCATCATAATTAG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgctttttgtggagaactttctcaacgattgacctggaaagtgtgagctggcagTGATTGTGGGAGAAGTGGCCAACTTCACTGCCTACGCGTTTGCTCCGGCTGTCTTGGTCACTCCGCTTGGCGCACTGAGCATAATAGTCAG
                           gattgac  putative branch site (score: 3)