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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGGAGGTATTCAGCTTTTATCCAGAGAACCGCCCATGCAACGGATTTGAAGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTGgttcgtttcagtaatttcacaatttagatgtttattcttcctttatttttttaaagaaggatcttgaatttagctggttatatataagattgcagtagtaactacagatcttcagaaaaataatgtatgcaaaaattgcaacag

Basic information

species Oryza sativa
transcript LOC_Os06g40650.3
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g40650.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G071659_T01 (Zea mays), 5'ss of exon 5
CAGGAGGTATTCAGCTTTTATCCAGAGAACCGCCCATGCAACGGATTTGAAGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTGgttcgtttcagtaatttcacaatttagatgtttattcttcctttattt--ttttaaagaaggatcttgaatttagctggttatatataagattgcagtagtaactacagatcttcagaaaaataatgtatgcaaaaattgcaacag
|||||||||||||||||||| |||||||||||||||||||| ||||||||||||||  |||| |||||||||||||| ||||| |||||||||||||| |||| |||| ||| |      ||| || ||| || ||  ||  |  |||  ||||    |  ||  |  |||||      | ||| |  |||    || ||                                              
CAGGAGGTATTCAGCTTTTACCCAGAGAACCGCCCATGCAATGGATTTGAAGAGGCGCTAGACAGATACAGAGAAATCGTTCCAACTCTTCGATTAGCAGgtttgttt-agtgaagatttaatataaatgcttttttctctctcttttgtttttctgaatcgaaataaaatttgttctttcataaaagagagaaaaggagc---------------------------------------------

upper sequence: LOC_Os06g40650.3 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G345544_T02 (Zea mays), 5'ss of exon 5
CAGGAGGTATTCAGCTTTTATCCAGAGAACCGCCCATGCAACGGATTTGAAGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTGgttcgtttcagtaatttcacaatttagatgtttattct-tcctttatttttttaaagaaggatcttgaatttagctggttatatataagattgcagtagtaactacagatcttcagaaaaataatgtatgcaaaaattgcaacag
|||||||||||||||||||| |||||||||||||||||||||||||||||||||||| |||| |||||||||||||| ||||| |||||||||||||| |||| |||| ||| |      ||| |||||  || |||| || ||| ||||| | ||  |  | |   |  ||      |  || |   ||    || || |                                            
CAGGAGGTATTCAGCTTTTACCCAGAGAACCGCCCATGCAACGGATTTGAAGAGGCACTAGACAGATACAGAGAAATCGTTCCAACTCTTCGATTAGCAGgtttgttt-agtgaagatttaatatagattatttttctctcttttgtttttctgaaccaaaacc--aagcttgctctttcgtaaaagggagaaaaggagcaga------------------------------------------
















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|116875525|gb|EC366033.1|EC366033
EST:     AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTG                         GACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
genomic: AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTGgttcgtttca ... attgcaacagGACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
EST: gi|116875559|gb|EC366067.1|EC366067
EST:     AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCAATTAGCTG                         GACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
genomic: AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTGgttcgtttca ... attgcaacagGACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
EST: gi|58692386|gb|CK081073.1|CK081073
EST:     AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTG                         GAGCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
genomic: AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTGgttcgtttca ... attgcaacagGACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
EST: gi|66928286|gb|CX115134.1|CX115134
EST:     AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTG                         GACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
genomic: AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTGgttcgtttca ... attgcaacagGACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
EST: gi|29632713|gb|CB637722.1|CB637722
EST:     AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTG                         GACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
genomic: AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTGgttcgtttca ... attgcaacagGACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
EST: gi|300216150|gb|HO087935.1|HO087935
EST:     AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTG                         GACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
genomic: AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTGgttcgtttca ... attgcaacagGACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
EST: gi|58695004|gb|CK083691.1|CK083691
EST:     AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTG                         GACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
genomic: AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTGgttcgtttca ... attgcaacagGACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATTGTAGACA
EST: gi|33677349|gb|CF305588.1|CF305588
EST:     AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTG                         GACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATT
genomic: AGAGGCATTAGAAAGATACAGAGAAATTGTTCCGACTCTTCGATTAGCTGgttcgtttca ... attgcaacagGACCAACATCTTTTGCCCCGATGATTGAAACAGCAATTGGTATT