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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaagcttagcaaaattctgctgtgagaacagtatgttgtcccacaatattaatgggtgtaaattttaggttattgacctggcaaggttgaatcatgagaacatagcaaaatttctgggctattgcagAGAAAGTGACCCATTCTCCAGGATGCTAGTGTTTGAATACGCATCAAACGGGACCCTGTTTGAGCACCTACACT

Basic information

species Oryza sativa
transcript LOC_Os04g58700.2
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os04g58700.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G349191_T01 (Zea mays), 3'ss of exon 4
-----gtaaagcttagcaaaattctgctgtgagaacagtatgttgtcccacaatattaatgggtgtaaa--ttttaggttattgacctggcaaggttgaatcatgagaacatagcaaaatttctgggctattgcagAGAAAGTGACCCATTCTCCAGGATGCTAGTGTTTGAATACGCATCAAACGGGACCCTGTTTGAGCACCTACACT
     ||| |    | |||     |             | |  |  |||   ||| |||  || || |   ||| |||| ||||| |||||||| ||||||||||||||||||||||| ||  | || || ||||| || ||||| ||||||||  |||||||||| || ||                                      
gtatggtacatgacaccaagggattcaaacacttgtttttttcttcccctggatactaaacggggtgatgttttcagGTCATTGATCTGGCAAGATTGAATCATGAGAACATAGCAAAGTTCTTAGGATACTGCAGGGAGAGTGATCCATTCTCTCGGATGCTAGTCTTCGA--------------------------------------

upper sequence: LOC_Os04g58700.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G119759_T03 (Zea mays), 3'ss of exon 8
-----gtaaagcttagcaaa--attctgctgtgagaacagtatgttgtcccacaatattaatgggtgtaaa--ttttaggttattgacctggcaaggttgaatcatgagaacatagcaaaatttctgggctattgcagAGAAAGTGACCCATTCTCCAGGATGCTAGTGTTTGAATACGCATCAAACGGGACCCTGTTTGAGCACCTACACT
     ||| |    | |||   ||||        |     | |  |  |||   ||| |||  || || |   ||| |||| ||||| |||||||| ||||||||||||||||||||||| ||  | || || ||||| || ||||| ||||||||  |||||||||| || || ||||                                 
gtatggtacatgacaccaagggattcaaacacttgtttttttttcttcccctggatactaaacggggtgatgttttcagGTCATTGATCTGGCAAGATTGAATCATGAGAACATAGCAAAGTTCTTAGGGTACTGCAGGGAGAGTGATCCATTCTCTCGGATGCTAGTCTTCGAGTACG---------------------------------

upper sequence: LOC_Os04g58700.2 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA01G42770.1 (Glycine max), 3'ss of exon 10
---------------gtaaagcttagcaaaattctgc--tgtgagaacagtatgttgtcccacaatattaatgggtgtaaat----tttaggttattgacctggcaaggttgaatcatgagaacatagcaaaatttctgggctattgcagAGAAAGTGACCCATTCTCCAGGATGCTAGTGTTTGAATACGCATCAAACGGGACCCTGTTTGAGCACCTACACT
                  | || || ||  || ||    | ||   |||    ||||||| |   | |||||   | |  ||    || ||||    ||| |||||||||| ||||||||||| |||| |||| | ||||||||||| |||||       |||||  | |||||| | || ||||| || |                                 
gtaaagggaaattttcctatgccta-cagcatgctagaatttgcacacaaatagttgtccaaatcttttaatatttatttatgccattcagGTGGCAGACTTGGCAAGGTTAAATCATGAGAATATAGGAAAACTACTGGGCTATTGTAGAGAGGACACTCCATTTACAAGGATGTTGGTTTTTGATTATG---------------------------------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgacctggcaaggttgaatcatgagaacatagcaaaatttctgggctattgcagAGAAAGTGACCCATTCTCCAGGATGCTAGTGTTTGAATACGCATCAAACGGGACCCTGTTTGAGCACCTACACT
 tattgac  putative branch site (score: 2)
                                  aaaatttct  TA-rich tract