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'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGTGATGGTGATCGTGTCACCCAAGGCCTTGGAACCGTGTGGAGTCTTATCTTAGCACGGCCTCCACTTCGACAAGATTGCTTAGATATTGCTCTTAAGgtttgcattttcttttcctttttaactggtagatcttatcataaatcattttgagtgattaatttttttttgacatcttttcacattctaatgtaacgaa...

Basic information

species Oryza sativa
transcript LOC_Os01g49940.2
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g49940.1 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G466139_T01 (Zea mays), 5'ss of exon 9
CAGTGATGGTGATCGTGTCACCCAAGGCCTTGGAACCGTGTGGAGTCTTATCTTAGCACGGCCTCCACTTCGACAAGATTGCTTAGATATTGCTCTTAAGgtttgcattttcttttcctttttaactggta--gatcttatcataaatcattttgagtgatta-atttttttttgacatcttttcacattctaatgtaacgaa--
  | ||||| || ||||| ||||||||||| ||||| || ||||| |||||||| |  |||||||| ||||| || | |||||| ||||||||||| |||||| ||    |  |||||||||  |||| ||   || | |||| | ||  || | |||      | | |  |  || || || | |  | || ||  || |    
TGGAGATGGGGACCGTGTTACCCAAGGCCTGGGAACTGTATGGAGCCTTATCTTGGGTCGGCCTCCGCTTCGCCATGTTTGCTTGGATATTGCTCTGAAGgttagc----ttgtttccttttccactgttactaatataatcagagatttttctaagttgcagtaatataatcagagattttctaagttgcttat-caatgtttg
















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|29628452|gb|CB633463.1|CB633463
EST:     TCTTAGCACGGCCTCCACTTCGACAAGATTGCTTAGATATTGCTCTTAAG                         TGTGCCATTCACTCTCAAGATGAAGTCAGGGGAAAGGCAGTTAGATTG
genomic: TCTTAGCACGGCCTCCACTTCGACAAGATTGCTTAGATATTGCTCTTAAGgtttgcattt ... gaatttgcagTGTGCCATTCACTCTCAAGATGAAGTCAGGGGAAAGGCAGTTAGATTG
EST: gi|29622214|gb|CB627225.1|CB627225
EST:     TCTTAGCACGGCCTCCACTTCGACAAGATTGCTTAGATATTGCTCTTAAG                         TGTGCCATTCACTCTCAAGATGAAGTCAGGGGAAAGGCAGTTAGATTG
genomic: TCTTAGCACGGCCTCCACTTCGACAAGATTGCTTAGATATTGCTCTTAAGgtttgcattt ... gaatttgcagTGTGCCATTCACTCTCAAGATGAAGTCAGGGGAAAGGCAGTTAGATTG
EST: gi|58683945|gb|CK072632.1|CK072632
EST:     TCTTAGCACGGCCTCCACTTCGACAAGATTGCTTAGATATTGCTCTTAAG                         TGTGCCATTCACTCTCAAAGATGAAGTCAGGGGAAAGGCAGTTAGATTG
genomic: TCTTAGCACGGCCTCCACTTCGACAAGATTGCTTAGATATTGCTCTTAAGgtttgcattt ... gaatttgcagTGTGCCATTCACTCTCAA-GATGAAGTCAGGGGAAAGGCAGTTAGATTG