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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTGTGAAAGTATACCGTTTGACTGATGGAGGGAAATGGGATGATCGGGGCACAGGGCATGTAAATATTGACTTCCTTGAGgtactgtcctgtgtcgttagtggttctactatatattattgtcaaacaagtgtccagcgagcattgttagtttactcttatgcaactctacttttagttt...

Basic information

species Oryza sativa
transcript LOC_Os01g23590.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g23590.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G435675_T01 (Zea mays), 5'ss of exon 2
CGTGTGAAAGTATACCGTTTGACTGATGGAGGGAAATGGGATGATCGGGGCACAGGGCATGTAAATATTGACTTCCTTGAGgtactgtc--ctgtgtcgttagtggttctactatatattattg-tcaaacaagtgtccagcgagcattgttagtttactcttatgcaactctacttttagttt
||||| ||||||||||||||| ||||||| ||||| ||||| ||||  || |||||  ||||   |||||| | | ||||||||        |   | | || |   | |   |  |||||||  | |   | |  || | | |    ||  | ||| ||| |       | |  |  |     
CGTGTCAAAGTATACCGTTTGGCTGATGGTGGGAAGTGGGACGATCAAGGAACAGGTTATGTTTCTATTGATTACATTGAGgtatgaaaaatttctttgctaatatgtgtggcacctattatttcttatttatggctctacctaattctgacacttt-ctcctgatttgttttggtagtgcc--

upper sequence: LOC_Os01g23590.1 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S306_49V6.1 (Physcomitrella patens), 5'ss of exon 2
CGTGTGAAAGTATACCGTTTGACTGATGGAGGGAAATGGGATGATCGGGGCACAGGGCATGTAAATATTGACTTCCTTGAGgtactgtcctgtgtcgttagtggt---tctactatatattattgtcaaacaagtgtccagcgagcattgttagtttactcttatgcaactctacttttagttt
 | ||||| || ||||| |||| ||||| ||| |||||||||||| |||||||||| || ||   | | || |  || ||||||   || ||       |||  |   | || | ||        | || ||| | |   |  |  |  | |      | ||||   || || |  ||||   |
AGAGTGAAGGTTTACCGATTGAATGATGAAGGTAAATGGGATGATAGGGGCACAGGTCACGTGTCTGTCGAATATCTAGAGgtaaattcttgacctaaaagtcatcagtttaatttaacgaggatttaagcaaatctaatgtcaa-acagctgac--gcccttagtaaaatcgatatttacagt
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|29681402|gb|CB677677.1|CB677677
EST:     GGAAATGGGATGATCGGGGCACAGGGCATGTAAATATTGACTTCCTTGAG                         GATTCTAAAGAACTTGGTTTGACTGTTTTGGATGAAGAAGACAATGAAACA
genomic: GGAAATGGGATGATCGGGGCACAGGGCATGTAAATATTGACTTCCTTGAGgtactgtcct ... tcgattccagGATTCTAAAGAACTTGGTTTGACTGTTTTGGATGAAGAAGACAATGAAACA