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'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAGATTGACACGGAGTATTGGTCTACTCTCTTATACATTCCTTACAAAAACTGGCTGCAATGACATATTAGTACCAGTGgtcagtccattaacttgttagctacataacctatatcaacttaactttgtttcaatgcagaagttagctagtagtaaaagttttcagcaaactagttacgtgcatatggctcttcaattttggtctgtacatgacactaattttataatcaactagagaaactttctgttattttctttgtag

Basic information

species Oryza sativa
transcript LOC_Os06g28060.2
intron # 9
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g28060.1 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G319760_T01 (Zea mays), 5'ss of exon 8
GAGATTGACACGGAGTATTGGTCTACTCTCTTATACATTCCTTACAAAAACTGGCTGCAATGACATATTAGTACCAGTGgtcagtccattaacttgttagctacataacctatatcaacttaactttgtttcaatgcagaagttagctagtagtaaaagttttcagcaaactagttacgtgcatatggctcttcaattttggtctgtacatgacactaattttataatcaactagagaaactttctgttattttctttgtag
|||||||||||| ||||| ||  | || ||||| ||||||||||  | || |  ||||||||||||||| ||||||||||| ||||||||||  |     ||    |   | | | |    || | | |||   |||  |    |  |     ||  | ||   | | ||| | |  |    ||  |  |   | ||  | |                                                            
GAGATTGACACGAAGTATCGGGTTGCTGTCTTACACATTCCTTATGAGAAGTAACTGCAATGACATATTTGTACCAGTGgttagtccattaaact--cgacttatcattatttttgaggaaaagtatattt--gtgccaaccccatgtcaccttactatttcctatccaacaaatatcacttattagctttccccatcatag------------------------------------------------------------
















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|38476867|gb|CF961000.1|CF961000
EST:     CATATTAGTACCAGTG                         GTTGATTATGAATTTGATGAATCATCTCATACTCTCAAGAAGATAATGGAC
genomic: CATATTAGTACCAGTGgtcagtccat ... ttctttgtagGTTGATTATGAATTTGATGAATCATCTCATACTCTCAAGAAGATAATGGAC
EST: gi|29636270|gb|CB641279.1|CB641279
EST:     CTTATACATTCCTTACAAAAACTGGCTGCAATGACATATTAGTACCAGTG                         GTTGATTATGAATTTGATGAATCATCTCATACTCTCAAGAAGATAATGGAC
genomic: CTTATACATTCCTTACAAAAACTGGCTGCAATGACATATTAGTACCAGTGgtcagtccat ... ttctttgtagGTTGATTATGAATTTGATGAATCATCTCATACTCTCAAGAAGATAATGGAC