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

GTGATGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAGgtatttggactagtagtgaattactctcttggttattgtgacatctccaagttcaatggtcttatttagccatgtaaatttgtacgcttcag

Basic information

species Oryza sativa
transcript LOC_Os11g10420.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g10420.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G176698_T01 (Zea mays), 5'ss of exon 13
GTGATGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAGgtatttggactagtagtgaattactctcttggttattgtgacatctccaagttcaatggtcttatttagccatgtaaatttgtacgcttcag
|||||||||||||||||||||||||| ||||||||||||||||| ||||| |||||||    | ||   | || |  ||   ||||||  || ||| | ||     |  |    || || ||   || |   ||||| |       
GTGATGGATTCTGATGCAGAGGGAACTCCCAGTGAGTTCTTTGATTACTTTAAGgtat----attaaatgagactcccttggttggttgctgggacttttcatttctttacaagct-atatattaatttgtgtttgttcag-----

upper sequence: LOC_Os11g10420.2 (Oryza sativa), 5'ss of exon 12
lower sequence: PP1S263_81V6.1 (Physcomitrella patens), 5'ss of exon 13
GTGATGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAGgtatttg--gactagtagtgaattactctcttggttattgtgacatct--ccaagttcaatggtcttatttagccatgtaaatttgtacgcttcag------------------------
|| |||||||||||||| ||||| ||  | ||||| |||| |||||||||||||||||        |  | |  || || | |  ||||        | | |  |   || |  || |    | |  |   |  || |  |||  |   |                        
GTAATGGATTCTGATGCGGAGGGTACTGCAAGTGAATTCTATGACTACTTCAAGgtatccaccagtttcttgcaaaatattttggtggtagccaattcttttatctttgtcctttgattccttctttctgagctaactgatactttattgaactgggctactttgtttgttcag
















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|29682738|gb|CB679013.1|CB679013
EST:     TGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAG                         GTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATT
genomic: TGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAGgtatttggac ... tacgcttcagGTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATT
EST: gi|428172|gb|D24320.1|D24320
EST:     TGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAG                         GTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATT
genomic: TGGATTCTGATGCAGAGGGAACACCCAGTGAGTTCTTTGACTACTTCAAGgtatttggac ... tacgcttcagGTTCTATGCATTCAAGGGTTCCTTACTTGCCGGAAGCATGCAGAGCGTATT