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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGCAAATCCAATAACCAAatatccttggtgcatcagatttctttaatgagatctaatatcaaaacaaattaacctagaatagttatatttctgtagctatttgtgcaaatgaaataca...

Basic information

species Oryza sativa
transcript LOC_Os02g01100.2
intron # 9
splice site 5'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g01100.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G105192_T03 (Zea mays), 5'ss of exon 7
GTGGCAAATCCAATAACCAAatatccttggtgcatcagatttctttaatgagatctaatatcaaaacaaattaacctagaatagttatatttctgtagctatttgtgcaaatgaaataca
||||||||||||||||||||||||||||      | | ||||   |    |  |||    |    |  |  ||      ||   || ||| ||  || | | |  | ||           
GTGGCAAATCCAATAACCAAatatcctt----tcttatatttggctgggtaattctttgtttttcatga--tacttgtcaaactttctatgtccttaacgaataat-cac----------

upper sequence: LOC_Os02g01100.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G105192_T02 (Zea mays), 5'ss of exon 7
GTGGCAAATCCAATAACCAAatatccttggtgcatcagatttctttaatgagatctaatatcaaaacaaattaacctagaatagttatatttctgtagctatttgtgcaaatgaaataca
||||||||||||||||||||||||||||      | | ||||   |    |  |||    |    |  |  ||      ||   || ||| ||  || | | |  | || ||        
GTGGCAAATCCAATAACCAAATatcctt----tcttatatttggctgggtaattctttgtttttcatga--tacttgtcaaactttctatgtccttaacgaataat-cacat--------

upper sequence: LOC_Os02g01100.2 (Oryza sativa), 5'ss of exon 9
lower sequence: GRMZM2G134888_T01 (Zea mays), 5'ss of exon 8
GTGGCAAATCCAATAACCAAatatccttggtgcatcagat--ttctttaatgagatctaatatcaaaacaaattaacctagaatagttatatttctgtagctatttgtgcaaatgaaataca-
||||||||||||||||||||||||||||||||   ||  |  |  | | || | |   |||   | ||    ||      |   |  |||||||  |||  ||   | |  | | || |||  
GTGGCAAATCCAATAACCAAatatccttggtgtgccaattgatagtctcataaaaaaaaatggaacaaatgtttctttatgtccaagtatattttagtacata---gagttagttaactactt

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|29678444|gb|CB674719.1|CB674719
EST:     CCACGGTGGCAAATCCAATAACCAA                         ATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC
genomic: CCACGGTGGCAAATCCAATAACCAAatatccttgg ... aaataatcacATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC
EST: gi|27548100|gb|CA766182.2|CA766182
EST:     CCACGGTGGCAAATCCAATAACCAA                         ATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC
genomic: CCACGGTGGCAAATCCAATAACCAAatatccttgg ... aaataatcacATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC
EST: gi|87006659|gb|CI295042.1|CI295042
EST:     CCACGGTGGCAAATCCAATAACCAA                         ATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC
genomic: CCACGGTGGCAAATCCAATAACCAAatatccttgg ... aaataatcacATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC
EST: gi|86498766|gb|CI141399.1|CI141399
EST:     CCACGGTGGCAAATCCAATAACCAA                         ATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC
genomic: CCACGGTGGCAAATCCAATAACCAAatatccttgg ... aaataatcacATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC
EST: gi|29663318|gb|CB659593.1|CB659593
EST:     CCACGGTGGCAAATCCAATAACCAA                         ATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC
genomic: CCACGGTGGCAAATCCAATAACCAAatatccttgg ... aaataatcacATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC
EST: gi|29659581|gb|CB655856.1|CB655856
EST:     CCACGGTGGCAAATCCAATAACCAA                         ATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC
genomic: CCACGGTGGCAAATCCAATAACCAAatatccttgg ... aaataatcacATATGCATTGACCATAACCCCATTGGCTATGAGTTTGGAAGAATTGCTGCC