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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAGgtaagtcattttgccattagaagtgtcttgttgcagtcctgaagatgaagttgattcatttaattttattgttgttgcag

Basic information

species Oryza sativa
transcript LOC_Os01g10290.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g10290.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM5G818887_T02 (Zea mays), 5'ss of exon 6
ATATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAGgtaagtcattttgccattagaagtgtcttgt-tgcagtcctgaagat-------gaagttgattcatttaatttta-ttgttgttgcag
 |||||||| || |||||||| |||||||||||||| || |||||||| ||||||| |  | |    |  |      |||||  |  |||      | |       |||   || |   ||  ||||  |||   ||| ||
GTATGACAAGTACTACCAAACTCCACGTGTCTGGCTAACTGGATATGACGAGgtaaattttgtatttaacaagcacttcttgcatatagttactgtggtcttattggaaccagacttgattgtttttccttgccattgtag

upper sequence: LOC_Os01g10290.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA09G36540.1 (Glycine max), 5'ss of exon 6
ATATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAGgtaagtcattttgccattagaagtgtcttgttgcagtcctgaagatgaagttgattcatttaattttattgttgttgcag---------------------------
 ||||| |||||||| ||||| ||||| || |||||||| || |||||||||||  ||  | ||  | |     |   |||||  |  |  |  ||      |||| |  | ||  ||    | | | ||||                           
GTATGATAAATATTATCAAACACCACGAGTATGGCTTACTGGGTATGATGAGgtttgttttattctctt-----gatccttgtaactataatttagtcacttttgactagtctatattgg--gctatagcagagctactagaactagaattagcatttc

upper sequence: LOC_Os01g10290.2 (Oryza sativa), 5'ss of exon 6
lower sequence: AT5G61500.1 (Arabidopsis thaliana), 5'ss of exon 6
ATATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAGgtaagtcattttgccattagaagtgtcttgttgcagtcctgaagatgaagttgattcatttaattttattgttgttgcag-------------------------
 ||||| || ||||||||||| || ||||| ||||| ||||| |||||||||||   |    |  |  | | |  ||| | |||    |  | |   | || || ||   |||  |||| ||| |  |  |                          
GTATGATAAGTATTACCAAACTCCTCGTGTTTGGCTGACCGGTTATGATGAGgt---ttgcatctctttcatacttgtttcgttttgtttttca--ttaaaattcatgggttttgttttgttgcttgtttatatttcctgttatctacttaaaagct

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|29638207|gb|CB643216.1|CB643216
EST:     ATGACAAATATTGCCAAACCCCCCGTGTCTGGCTTACCGGATATGATGAG                         TCAAGAATGCCCCTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT
genomic: ATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAGgtaagtcatt ... gttgttgcagTCAAGAATGCCACTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT
EST: gi|88226114|gb|CI226030.1|CI226030
EST:     ATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAG                         TCAAGAATGCCACTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT
genomic: ATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAGgtaagtcatt ... gttgttgcagTCAAGAATGCCACTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT
EST: gi|55440203|gb|CV733411.1|CV733411
EST:     ATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAG                         TCAAGAATGCCACTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT
genomic: ATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAGgtaagtcatt ... gttgttgcagTCAAGAATGCCACTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT
EST: gi|86497450|gb|CI140083.1|CI140083
EST:     ATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAG                         TCAAGAATGCCACTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT
genomic: ATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAGgtaagtcatt ... gttgttgcagTCAAGAATGCCACTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT
EST: gi|29686213|gb|CB682488.1|CB682488
EST:     ATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAG                         TCAAGAATGCCACTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT
genomic: ATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAGgtaagtcatt ... gttgttgcagTCAAGAATGCCACTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT
EST: gi|87015628|gb|CI277586.1|CI277586
EST:     ATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAG                         TCAAGAATGCCACTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT
genomic: ATGACAAATATTACCAAACCCCACGTGTCTGGCTTACCGGATATGATGAGgtaagtcatt ... gttgttgcagTCAAGAATGCCACTAAAGCCTGAACTTGTGTTTGAAGATATCAGCCAAGAT