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'   		17  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGGTGGTATTGTTGATTCATCTAGTGAGCTGTACACAGAATTAGCCATATTATTGGCATTCATGGTTGGTGTATTAGAATGCTTGATGGGATTGCTAAGgtaattctattctactctgggtagctggtgttcttttttaagtcattttacagtagataggacataatttaagaagtatggacacatctacacatattcc...

Basic information

species Oryza sativa
transcript LOC_Os09g06499.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os09g06499.2 (Oryza sativa), 5'ss of exon 4
lower sequence: GRMZM2G068212_T01 (Zea mays), 5'ss of exon 3
TCGGTGGTATTGTTGATTCATCTAGTGAGCTGTACACAGAATTAGCCATATTATTGGCATTCATGGTTGGTGTATTAGAATGCTTGATGGGATTGCTAAGgtaattctattctactctgggtagctggtgttcttttttaagtcattttacagtagataggacataatttaagaagtatggac---acatctacacatattcc----
| || ||||| ||| ||||||||||| |||||||||||||||||||||||||| ||||||||||||||||  |||| || |||||||||||| ||||||||||| | | || ||| | ||  |       |  |||| ||| || | ||  || |  |   |  | |   |   |   ||  |   |||   |   || || |    
TTGGGGGTATAGTTAATTCATCTAGTAAGCTGTACACAGAATTAGCCATATTACTGGCATTCATGGTTGGGATATTGGAGTGCTTGATGGGACTGCTAAGgtaactttgtt-tacccaggaaaa------tgtttttctaattcttgttggagaatttgaaatttcaagcattgaaactgacctttacagagaagaatgtttcacca
















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|29643060|gb|CB648067.1|CB648067
EST:     TTATTGGCATTCATGGTTGGTGTATTAGAATGCTTGATGGGATTGCTAAG                         GCTCGGTTGGCTTATTCGATTTATTAGCCATTCTGTCATATCTGGCTTCAC
genomic: TTATTGGCATTCATGGTTGGTGTATTAGAATGCTTGATGGGATTGCTAAGgtaattctat ... ttatttacagGCTCGGTTGGCTTATTCGATTTATTAGCCATTCTGTCATATCTGGCTTCAC
EST: gi|29678820|gb|CB675095.1|CB675095
EST:     TTATTGGCATTCATGGTTGGTGTATTAGAATGCTTGATGGGATTGCTAAA                         GCTCGGTTGGCTTATTCGATT-ATTAGCCATTCTGTCATATCTGGCTTCAC
genomic: TTATTGGCATTCATGGTTGGTGTATTAGAATGCTTGATGGGATTGCTAAGgtaattctat ... ttatttacagGCTCGGTTGGCTTATTCGATTTATTAGCCATTCTGTCATATCTGGCTTCAC
EST: gi|29613614|gb|CB618627.1|CB618627
EST:     ATGGGATTGCTAAG                         GCTCGGTTGGCTTATTCGATTTATTAGCCATTCTGTCATATCTGGCTTTAC
genomic: ATGGGATTGCTAAGgtaattctat ... ttatttacagGCTCGGTTGGCTTATTCGATTTATTAGCCATTCTGTCATATCTGGCTTCAC
EST: gi|29614648|gb|CB619661.1|CB619661
EST:     TTATTGGCATTCATGGTTGGTGTATTAGAATGCTTGATGGGATTGCTAAG                         GCTCGGTTGGCTTATTCGATTTATTAGCCATTCTGTCATATCTGGCTTTAC
genomic: TTATTGGCATTCATGGTTGGTGTATTAGAATGCTTGATGGGATTGCTAAGgtaattctat ... ttatttacagGCTCGGTTGGCTTATTCGATTTATTAGCCATTCTGTCATATCTGGCTTCAC
EST: gi|29674506|gb|CB670781.1|CB670781
EST:     TTATTGGCATTCATGGTTGGTGTATTAGAATGCTTGATGGGATTGCTAAC                         GCTCGGTTGGCTTATTCGATTTATTAGCCATTCTGTCATATCTGGCTTCAC
genomic: TTATTGGCATTCATGGTTGGTGTATTAGAATGCTTGATGGGATTGCTAAGgtaattctat ... ttatttacagGCTCGGTTGGCTTATTCGATTTATTAGCCATTCTGTCATATCTGGCTTCAC