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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGACCAAGCTTATATGACTTCCTCCGAAAGAATAGTTATCGTGCATTTCCGATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgggtattcagttaatttctgctgtttgttggttatgcaaattaacgttttgttttatcttgcccctaacagtattattctaatgtttattttattgtaatatttgcag

Basic information

species Oryza sativa
transcript LOC_Os01g62080.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GRMZM2G386991_T01 (Zea mays), 5'ss of exon 6
GGACCAAGCTTATATGACTTCCTCCGAAAGAATAGTTATCGTGCATTTCCGATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgggtattcagttaatttctgctgtttgttggttatgcaaattaacgttttgttttatcttgcccctaacagtattattctaatgtttattttattgtaatatttgcag
|| |||||| |||||||||| || ||||||||||| || ||| ||||||| || |||||||| || ||||||||||||||||||||||||||||||||||||| ||| |||||| | |   |||     |   |    | |  ||   |||||    || |||  |  ||||  ||||  ||   | | |  |  |   ||| ||     
GGGCCAAGCCTATATGACTTTCTGCGAAAGAATAGCTACCGTTCATTTCCTATTGACCTTGTCCGAGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgagtactcagtttactctggctacacttaaatgcaaccatctagtcttttga---attttgagc--aacatcattagacttgcgataaagtcttctgaatttt-----

upper sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 8
lower sequence: GLYMA03G33100.1 (Glycine max), 5'ss of exon 6
GGACCAAGCTTATATGACTTCCTCCGAAAGAATAGTTATCGTGCATTTCCGATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgggtattcagttaatttctgctgtttgttggttatgcaaattaacgttttgttttatcttgcccctaacagtattattctaatgtttattttattgtaatatttgcag
||||||||||||||||| || ||||| || || || |||||| | ||||| || || ||||||||||| |||| ||||||| | || |||||||| ||||||| ||   || ||    | | |    |      | |  | |||     | | ||| ||  | || ||    | | | ||   ||||  || | ||  |||||  |    
GGACCAAGCTTATATGATTTTCTCCGCAAAAACAGCTATCGTTCTTTTCCTATTGATCTTGTTCGGGAGTTTGGCAGACAACTTTTGGAGTCTGTAGCATgtgtgtggacattt--cctgtaccaactaccaaat-tatatattttttgtgtatttgatact-cctctgttgggagt-ttaagatgtgcatat-ataataataagt----

upper sequence: LOC_Os01g62080.1 (Oryza sativa), 5'ss of exon 8
lower sequence: AT3G53570.4 (Arabidopsis thaliana), 5'ss of exon 8
GGACCAAGCTTATATGACTTCCTCCGAAAGAATAGTTATCGTGCATTTCCGATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgggt---attcagttaatttctgctgtttgttggttatgcaaattaacgttttgttttatcttgcccctaacagtattattctaatgtttattttattgtaatatttgcag
||||||||||||||||| || ||||| || || || || ||| ||||||| || || |||||||||||  ||| ||||||| | || |||||||||||||||| ||   ||    || |    | ||  |   | ||  | ||  |||  |       | || ||   | ||||  | ||  |  ||   |||     |  || |        
GGACCAAGCTTATATGATTTTCTCCGCAAAAACAGCTACCGTTCATTTCCCATTGATCTTGTTCGGGAGCTTGGCAGACAACTTTTGGAGTCTGTTGCATgtgtgtggaatattcttgacccattcttctatatagtagtcca--ttagtgccacaaatcatttt--tcttaact-ttttgatacaagacttaggcgttaatagt--------

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|117243444|gb|CT848361.1|CT848361
EST:     GATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCAT                         TTATGCATGACCTGCGACTTATTCACACAGATCTGAA-CCTGAGAACATTC
genomic: GATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgggtattc ... atatttgcagTTATGCATGACCTGCGACTTATTCACACAGATCTGAAACCTGAGAACATTC
EST: gi|38474798|gb|CF958931.1|CF958931
EST:     GATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCAT                         TTATGCATGACCTGCGACTTATTCACACAGATCTGAAACCTGAGAACATTC
genomic: GATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgggtattc ... atatttgcagTTATGCATGACCTGCGACTTATTCACACAGATCTGAAACCTGAGAACATTC
EST: gi|29665089|gb|CB661364.1|CB661364
EST:     GATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCAT                         TTATGCATGACCTGCGACTTATTCACACAGATCTGA
genomic: GATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgggtattc ... atatttgcagTTATGCATGACCTGCGACTTATTCACACAGATCTGA
EST: gi|29679261|gb|CB675536.1|CB675536
EST:     GATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCAT                         TTATGCATGACCTGCG
genomic: GATCGACCTTGTTCGGGAATTTGCCAGACAAATATTAGAGTCTGTTGCATgtgggtattc ... atatttgcagTTATGCATGACCTGCG