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'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAATGGACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGGCAGACgtaagattgttgtggcctgattgcttttttgtcccctcagtaatatttgttgttaaagacagcaactaagtgataaccaatgtttcatgcag

Basic information

species Oryza sativa
transcript LOC_Os01g56580.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 6
GTAATGGACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGGCAGACgtaagattgttgtggcctgattgctt--ttttgtcccctcagtaatatttgttgttaa---agacagcaactaagtga---taaccaatgtttca-tgcag-----
|| |||||||| || || || |||||||||||||| |||||||||||||| ||   ||||||||  |     |   ||  ||  | | |   |     |||||  ||   || |   | ||     |||  | |     |  ||  ||| | | | |     
GTCATGGACATGCTTGGGCCCAGTCTTTGGGATGTATGGAATTCTGTTGGTCAACAgtaagatttgtaccctcccttttgttagtataggttcacttttaatagctgcaatttatttaaactcttcctatataagccccattaacattttagttctggacag

upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 6
lower sequence: AT3G03940.1 (Arabidopsis thaliana), 5'ss of exon 6
GTAATGGACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGGCAGACgtaagattgttgtggcctgattgcttttttgtcccctcagtaatatttgttgttaaagacagcaactaagtgataaccaatgtttcatgcag
|| |||||||| || || ||||| ||||||||||||||||||||| | |  ||  ||||||       |    | ||   || | | |   || |  ||    || |  |  ||| |      || | || |    | | |   | ||
GTCATGGACATGCTTGGGCCTAGCCTTTGGGATGTTTGGAATTCTTTGGCTCAATCgtaag-------tacttttatca-ttctatattttcttaccaac-catgctcatgcagata-tgctaaatttattatttttctatttggtag

upper sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 6
GTAATGGACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGGCAGACgtaagattgttgtggcctgattgcttttttgtcccctcagtaatatttgttgttaaagacagcaactaagtgataaccaatgtttc---atgcag------
|| ||||||||  | || || |||||||||||| ||||||||||||| || |||||||||||   | |   |    |  || | |    | | ||   | |            ||||     |      |    ||| | |    || | |      
GTCATGGACATGTTGGGGCCAAGTCTTTGGGATCTTTGGAATTCTGTAGGCCAGACgtaagaa-atagaatctctctctctctctctctctcacacacacacacacacaagtggacattttttttcctgtttttaatttatttaaatcctgtaacag

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|29629024|gb|CB634035.1|CB634035
EST:     GACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGGCAGAC                         GATGACCCCAAGTATGGTTGCTTGCATCGCTGTAGAGGCAATTTCTATCCT
genomic: GACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGGCAGACgtaagattgt ... tttcatgcagGATGACCCCAAGTATGGTTGCTTGCATCGCTGTAGAGGCAATTTCTATCCT
EST: gi|29623307|gb|CB628318.1|CB628318
EST:     GACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGGCAGAC                         GATGACCCCAAGTATGGTTGCTTGCATCGCTGTAGAGGCAATTTCTATCCT
genomic: GACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGGCAGACgtaagattgt ... tttcatgcagGATGACCCCAAGTATGGTTGCTTGCATCGCTGTAGAGGCAATTTCTATCCT
EST: gi|58661787|gb|CK050467.1|CK050467
EST:     GACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGGCAGAC                         GATGACCCCAAGTATGGTTGCTTGCATCGC
genomic: GACATACTAGGACCTAGTCTTTGGGATGTTTGGAATTCTGTTGGGCAGACgtaagattgt ... tttcatgcagGATGACCCCAAGTATGGTTGCTTGCATCGC