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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCGACAAATAAAGTGCAAATTGATTTGATAGAGATGCTTCATATCCCTAGATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCTATAAAgtatgccttttctcaatttcaaatcgaggaaaatccatccataccacagattttgccaaattcaaagaataccacaaaatttgggaagtgccaattaata...

Basic information

species Oryza sativa
transcript LOC_Os11g48090.4
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g48090.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GRMZM2G451856_T02 (Zea mays), 5'ss of exon 7
TGCGACAAATAAAGTGCAAATTGATTTGATAGAGATGCTTCATATCCCTAGATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCTATAAAgtat--gccttttctcaatttcaaatcgaggaaaatccatccataccacagattt-tgccaaattca------aagaataccacaaaatttgg-gaagtgccaattaata-----
||| |||| ||| || ||||| ||||| || |||||||| || ||||| |||||  ||||||||||||||||| ||||||||||||||||||| ||||| ||||  || ||| ||||||| ||| |   |  |  |   |       |   |||| ||  || |         |||| ||  |||  ||||   ||| |     |||  |     
TGCAACAAGTAAGGTCCAAATGGATTTAATGGAGATGCTCCACATCCCGAGATGCATCAAGTTTGTCAGCACAGTTAACAGGCCCAACCTTTTTTATAAGgtatatgcatttcctcaattgcaagttctgatagttttgtattccttattcatttgtgagaagtattgtgcacaagagtaaaacaggattttttgaaatcttgtttaccatgtag

upper sequence: LOC_Os11g48090.3 (Oryza sativa), 5'ss of exon 7
lower sequence: GLYMA09G34860.1 (Glycine max), 5'ss of exon 6
TGCGACAAATAAAGTGCAAATTGATTTGATAGAGATGCTTCATATCCCTAGATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCTATAAAgtatgccttttctcaatttcaaatcgaggaaaat----ccatccataccacagattttgccaaattcaaagaa----taccacaaaattt---gggaagtgccaattaata--------------------------
||| ||  | |  || |||| |||| ||||||||||| | ||||| |||||||||||||| || ||||||||  | || ||||| ||| | || ||||  ||||   | |  | ||| || | |    |||  |    |  |  |||     | |    ||   | ||| |||    ||||      |||   |  ||||   ||  |||                           
TGCTACTCAGAGGGTCCAAAATGATCTGATAGAGATGTTGCATATTCCTAGATGTGTCAAATTCGTCAGCACTGTCAATAGGCCAAACTTGTTTTATATGgtatatttgtaattaatatctattaacagaattttttactttttatattgatgctcccccctcctccaaggaagttatacccttggctttaatgacaagtttaaaggaattgcataatttcgtattttatactgcag

upper sequence: LOC_Os11g48090.3 (Oryza sativa), 5'ss of exon 7
lower sequence: AT1G31360.1 (Arabidopsis thaliana), 5'ss of exon 6
TGCGACAAATAAAGTGCAAATTGATTTGATAGAGATGCTTCATATCCCTAGATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCTATAAAgtatgccttt-tctcaatttcaaatcgaggaaaatccatccataccacagat--tttgccaaattcaaagaataccacaaaatttgggaagtgccaattaata
||| ||| | ||||| |||| |||| ||||||||||||| ||||| |||| ||| ||||| ||||| ||||   |||||||||| || || || ||    ||| || ||  |    ||||  | |  || | | |     ||| |   |||   ||||     || ||     ||||  |||||   |   |||         
TGCTACACAGAAAGTTCAAAATGATCTGATAGAGATGCTGCATATTCCTAAATGCGTCAAATTTGTGAGCAGTGTTAACAGGCCAAATCTCTTTTACTCGgtacgctttagtaatgatttttatt--agtatacttttctcatgctgtagacagtttgtaggcttgaacatgaaccagtaaatt---gtcttgcag-------

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|29673292|gb|CB669567.1|CB669567
EST:     GATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCTATAAA                         GTATTTGAGAAATCACCAGTTGGAAAGGTCGTCATTGATG
genomic: GATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCTATAAAgtatgccttt ... tgctattcagGTATTTGAGAAATCACCAGTTGGAAAGGTCGTCATTGATG
EST: gi|58690628|gb|CK079315.1|CK079315
EST:     GATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCTATAAA                         GTATTTGAGAAATCACCAGTTGGAAAGGTTGTCATTGATGAGATTGCAAAC
genomic: GATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCTATAAAgtatgccttt ... tgctattcagGTATTTGAGAAATCACCAGTTGGAAAGGTCGTCATTGATGAGATTGCAAAC
EST: gi|29682976|gb|CB679251.1|CB679251
EST:     GATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCTATAAA                         GTATTTGAGAAATCACCAGTTGGAAAGGTCGTCATTGATGAGATTGCAAAC
genomic: GATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCTATAAAgtatgccttt ... tgctattcagGTATTTGAGAAATCACCAGTTGGAAAGGTCGTCATTGATGAGATTGCAAAC