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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATTGGTACACCTTGGAAATTATCTTGGTGCTATTAAGAATTGGGTTTCACTTCAGgtagtggtttgagaactgcatcttattattctttaattttgatggtaataatctcaaaagaaaatttttcagaaaccatgaagctagtgataaataatca...

Basic information

species Oryza sativa
transcript LOC_Os01g54020.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g54020.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G177970_T01 (Zea mays), 5'ss of exon 3
GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATTGGTACACCTTGGAAATTATCTTGGTGCTATTAAGAATTGGGTTTCACTTCAGgtagtg-gtttgagaactgcatcttatta-ttctttaattttgatggtaataatctcaaaagaaaatttttcagaaaccatgaagctagtgataaataatca-
||||||||||||||||||||||||||||||||||| ||| ||||||||||||||||| || || ||||||||||||||| ||||||||||| |   | ||     |  |   ||  | ||| ||    |||  |   |||  ||      ||   |  |    ||| |  |||    ||| ||  ||| | 
GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATCGGTTCACCTTGGAAATTATCTAGGGGCAATTAAGAATTGGGTTGCACTTCAGgtattacatgtgttgctttgaaagtacaagttcctttgaattgcagtgtataggctttgcttaag--tggtagagaactaaaaagaacttga-aaggaatgaa

upper sequence: LOC_Os01g54020.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv04s0008g00200.t01 (Vitis vinifera), 5'ss of exon 3
GAAAAGAGTAGTTTCTGGTGTACAGCCAACAGGATTGGTACACCTTGGAAATTATCTTGGTGCTATTAAGAATTGGGTTTCACTTCAGgtagtggtttgagaactgcatcttattat-tctttaattttgatggtaataatctcaaaagaaaatttttcagaaaccatgaagctagtgataaataatca
||| ||  |||| ||||| || |||||||| ||     ||||||| |||||||||||||||||||| || |||||| |  |||||||||| ||  || |    |   ||| | || | |    ||   || |   | |||  |   |||| |   |||   |  |  |    ||| |||||    ||  
GAAGAGGATAGTGTCTGGGGTTCAGCCAACTGGGACTATACACCTAGGAAATTATCTTGGTGCTATAAAAAATTGGATCCCACTTCAGgttgtt-ttggctttccatatcgtgttgtataaccaaccatgttataactaagtttctaagatagaatttgtaattctgtagctctaatgataccatattg
















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|88341213|gb|CI639970.1|CI639970
EST:     TACACCTTGGAAATTATCTTGGTGCTATTAAGAATTGGGTTTCACTTCAG                         GATCTATACGAGACATTATTTTTCATTGTGGACTTGCATGCGATTACGT
genomic: TACACCTTGGAAATTATCTTGGTGCTATTAAGAATTGGGTTTCACTTCAGgtagtggttt ... ttccttgcagGATCTATACGAGACATTATTTTTCATTGTGGACTTGCATGCGATTACGT
EST: gi|88341927|gb|CI644264.1|CI644264
EST:     TACACCTTGGAAATTATCTTGGTGCTATTAAGAATTGGGTTTCACTTCAG                         GATCTATACGAGACATTATTTTTCATTGTGGACTTGCAT
genomic: TACACCTTGGAAATTATCTTGGTGCTATTAAGAATTGGGTTTCACTTCAGgtagtggttt ... ttccttgcagGATCTATACGAGACATTATTTTTCATTGTGGACTTGCAT
EST: gi|88335142|gb|CI658149.1|CI658149
EST:     TACACCTTGGAAATTATCTTGGTGCTATTAAGAATTGGGTTTCACTTCAG                         GATCTATACGAGACATTATTTTTCATTGTGGACT
genomic: TACACCTTGGAAATTATCTTGGTGCTATTAAGAATTGGGTTTCACTTCAGgtagtggttt ... ttccttgcagGATCTATACGAGACATTATTTTTCATTGTGGACT