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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTCAAAATGATTAAGGAAGTTGGTGACGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatctgaagataaatccataggaggaaatatgcatttcatacttttgcaaaatattcccagtgaaataaataactgattgtaagcaaaatgtgcactgatctatag

Basic information

species Oryza sativa
transcript LOC_Os02g47220.1
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g47220.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G178822_T01 (Zea mays), 5'ss of exon 6
ATTCAAAATGATTAAGGAAGTTGGTGACGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatctgaagataaatccataggaggaaatatgcatttcatacttttgcaaaatattcccagtgaaataaataactgattgtaagcaaaatgtgcactgatctatag
||||||  |||||||||||||||| || |||||||| |||||||||||||||||||| |||||||| ||||| ||||||||||||||||||||||| | |            ||  |||||     |||| | |   | ||    | | |  |  || |   ||       |||||              
ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTTGGGAGTGTATGGCGTGCTATGAATAAACAGAATGGCGAAGTTgtatgtatctgaagatagaacttctctc-----taaacatttt----ttttactatgaactctgtataacacgag-aatttgctgatgctttaatgtag------------

upper sequence: LOC_Os02g47220.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GRMZM2G108829_T01 (Zea mays), 5'ss of exon 5
ATTCAAAATGATTAAGGAAGTTGGTGACGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatctgaagat--aaatccataggaggaaatatgcatttcatacttttgcaaaatattcccagtgaaataaataactgat-tgtaagcaaaatgtgcactgatctatag
||||||  |||||||||||||||| || |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||  || | | | |||   | | |   | | |    |     ||||  |  ||     | || |  || ||   | |    |                  
ATTCAAGTTGATTAAGGAAGTTGGCGATGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAGAATGGTGAAGTTgtatgtatctgaagattgaacttctttggatacattttaactgtgaactctgaatgaaatggtaacaacatgaaaatttgctaatgctttaatgtag-----------------

upper sequence: LOC_Os02g47220.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA09G34610.1 (Glycine max), 5'ss of exon 2
ATTCAAAATGATTAAGGAAGTTGGTGACGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatctgaagataaatccataggaggaaatatgcatttcatacttttgcaaaatattcccagtga-aataaataactga-ttgtaagcaaaatgtgcactgatctatag
 | |||  | ||||||||| ||||||| ||||| || |||| ||| ||| | ||||| ||||| |||| ||||||||||||| ||||      ||  |   |  | |||     |  ||||||     ||  |   | | |  | |   ||||| |   | | ||| |                        
GTACAAGTTAATTAAGGAAATTGGTGATGGGACGTTTGGGACTGTCTGGAGAGCTATTAATAAGCAAACTGGTGAAGTTgtaagtatgctttaattgacataatgaaggtggc-tctatttcaag---ttagatgttgtcctaaatcctaataagttgttaaattgcag-----------------------

upper sequence: LOC_Os02g47220.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA16G08080.1 (Glycine max), 5'ss of exon 2
ATTCAAAATGATTAAGGAAGTTGGTGACGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtat-ctgaagataaatccataggaggaaatatgcatttcatacttttgcaaaatattcccagtgaaataaataactgattgtaagcaaaatgtgcactgatctatag
 | |||  | ||||||||||| ||||| || || || |||||||| ||| | || || ||||| |||| ||||||||||||| ||||  |   | |  |   ||| | | |  |  ||||||  || |||  | || |  ||| | |   | |                                      
GTACAAGTTAATTAAGGAAGTAGGTGATGGAACATTTGGGAGTGTTTGGAGAGCCATTAATAAGCAAAGTGGTGAAGTTgtaagtatgttttgggtcgaatgatacgtgaagtt--gcattttgtattttctctaatttgtcctaatattacag-------------------------------------

upper sequence: LOC_Os02g47220.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA01G35190.1 (Glycine max), 5'ss of exon 2
ATTCAAAATGATTAAGGAAGTTGGTGACGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtat-ctgaagataaatccataggaggaaatatgcatttcatacttttgcaaaatattcccagtga-aataaataactga-ttgtaagcaaaatgtgcactgatctatag
 | |||  | ||||||||||||||||| |||||||| |||||||| ||| | ||||| ||||| ||||  |||||||||||| |||| ||  |  | |    |||  | |  || |  ||||||     ||| |   | | |  | |   ||||| |     | ||| |                        
GTACAAGTTAATTAAGGAAGTTGGTGATGGGACTTTTGGGAGTGTCTGGAGAGCTATTAATAAGCAAACCGGTGAAGTTgtaagtatgctttaactgacatgata--aaggtatctctatttcaag---ttggatgttgtcctaaatcctaataagttgtaaaattgcag-----------------------

upper sequence: LOC_Os02g47220.1 (Oryza sativa), 5'ss of exon 5
lower sequence: GLYMA16G17580.1 (Glycine max), 5'ss of exon 2
ATTCAAAATGATTAAGGAAGTTGGTGACGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatctgaaga-taaatccataggaggaaatatgcatttcatacttttgcaaaatattcccagtgaaataaataactgattgtaagcaaaatgtgcactgatctatag
 | |||  | ||||||||||||||||| || || || |||||||| ||| | || || ||||| |||| ||||||||||||| |||| |  ||| || |   ||| | | |  ||     |   |  |||  | || |  ||| | |   | |                                      
GTACAAGTTAATTAAGGAAGTTGGTGATGGAACATTTGGGAGTGTTTGGAGAGCCATTAATAAGCAAAGTGGTGAAGTTgtaagtatgtttagagtagaatgatacgcgaagttacattgtgtgtgttttctctaatttgtcctaatattacag-------------------------------------

upper sequence: LOC_Os02g47220.1 (Oryza sativa), 5'ss of exon 5
lower sequence: Vv02s0033g01110.t01 (Vitis vinifera), 5'ss of exon 2
ATTCAAAATGATTAAGGAAGTTGGTGACGGGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatctgaagataaatccataggaggaaatatgcatttcatacttttgcaaaatattcccagtgaaataaataactgattgtaagcaaaatgtgcactgatctatag
 |  |  || || |||||||||||||| |||||||| || ||||| ||||| || |||||||| || | ||||||||||||| | | |       |  | |||||       |||   ||| | |||   | ||| |  | | |   || | |     || |  |  |    |   |             
GTATACGATAATCAAGGAAGTTGGTGATGGGACTTTTGGAAGTGTTTGGCGAGCAATAAATAAGCAGACTGGTGAAGTTgtaagcagc-------atgttcatagtttt---tattgctttgaaactgaaggaaattgattctatataagtcagggtttgttcttttgtttcaacag-------------

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|58610974|gb|CK038686.1|CK038686
EST:     GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTT                         GTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
genomic: GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatct ... tgatctatagGTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
EST: gi|58662505|gb|CK051191.1|CK051191
EST:     GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTT                         GTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
genomic: GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatct ... tgatctatagGTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
EST: gi|29625051|gb|CB630062.1|CB630062
EST:     GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTT                         GTGGCAGTTAAG
genomic: GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatct ... tgatctatagGTGGCAGTTAAG
EST: gi|2317408|gb|C22462.1|C22462
EST:     GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTT                         GTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
genomic: GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatct ... tgatctatagGTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
EST: gi|218482677|gb|FG959726.1|FG959726
EST:     GGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTT                         GTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTATGAGGAATGCATG
genomic: GGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatct ... tgatctatagGTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
EST: gi|88839102|gb|CI378026.1|CI378026
EST:     GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTT                         GTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
genomic: GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatct ... tgatctatagGTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
EST: gi|58664681|gb|CK053367.1|CK053367
EST:     GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTT                         GTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
genomic: GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatct ... tgatctatagGTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
EST: gi|58670491|gb|CK059177.1|CK059177
EST:     GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTT                         GTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
genomic: GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatct ... tgatctatagGTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
EST: gi|58665074|gb|CK053760.1|CK053760
EST:     GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTT                         GTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG
genomic: GGACTTTCGGGAGTGTATGGCGTGCTATAAATAAACAAAATGGTGAAGTTgtatgtatct ... tgatctatagGTGGCAGTTAAGAAAATGAAGAGGAAATATTATTCTTTTGAGGAATGCATG