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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAATGGGTGGTGCTGCCATGTATGAACTTGTCCGAGTTGGTAATGATAACCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtataggacggtgaaattctacctcacatatttgtggtgccttttccccacatgacatgtacaatataaatttcaccaattttttcttgtgattaccgtttgcag

Basic information

species Oryza sativa
transcript LOC_Os06g45120.2
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g45120.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA08G23990.1 (Glycine max), 5'ss of exon 2
GGAATGGGTGGTGCTGCCATGTATGAACTTGTCCGAGTTGGTAATGATAACCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtataggacggtgaaattctacctcacatatttgtggtgccttttccccacatgacatgtacaatataaatttcaccaattttttcttgtgattaccgtttgcag
|| |||| ||| ||||| ||||||||||| || || |||||| ||||||| |||||||| |||||||||||||| || ||  |||| || ||||| ||||||      |  |   || |    |   |||||  |  | |    |    || |   |   ||    |   | ||  |||||||                      
GGCATGGCTGGGGCTGCTATGTATGAACTCGTGCGTGTTGGTCATGATAATCTCATTGGTGAAATTATTCGTCTCGAAGGGAATTCTGCTACCATCCAAGgtg-----cattttcataccgtgtgcaatattactacttcaaactaattacttatgagaaactcattggttctctgcaattttag--------------------

upper sequence: LOC_Os06g45120.2 (Oryza sativa), 5'ss of exon 2
lower sequence: GLYMA07G00430.1 (Glycine max), 5'ss of exon 2
GGAATGGGTGGTGCTGCCATGTATGAACTTGTCCGAGTTGGTAATGATAACCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtataggacggtgaaattctacctcacatatttgtggtgccttttccccacatgacatgtacaatataaatttcaccaattttttcttgtgattaccgtttgcag
|| |||| ||||||||| ||||||||||| || || |||||| ||||||| |||||||| |||||||||||||| || || ||||| || ||||| ||||||  |   |  |   |   |  || |  | | ||     |    |||      || |   |     |   | ||  |||||||                      
GGCATGGCTGGTGCTGCTATGTATGAACTCGTGCGTGTTGGTCATGATAATCTCATTGGTGAAATTATTCGTCTCGAAGGGGATTCTGCTACCATCCAAGgtgcatttccat---accttctctaatgtttctgcaa-actgcatccttctgcgaaactcat----tcgttctctgcaattttag--------------------

upper sequence: LOC_Os06g45120.2 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv04s0008g02580.t01 (Vitis vinifera), 5'ss of exon 2
GGAATGGGTGGTGCTGCCATGTATGAACTTGTCCGAGTTGGTAATGATAACCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtataggacggtgaaattctacctcacatatttgtggtgccttttccccacatgacatg-tacaatataaatttcaccaattttttcttgtgattaccgtttgcag
|||||||  || ||||| ||||||||||| || ||||||||| |||| ||||| ||   ||||||||||||  | || || |||||||| ||||| ||||||||   |        ||   | ||    |  |         | ||     | ||  || ||  |   ||| |  |  |  ||| | ||   |  | |        
GGAATGGCAGGAGCTGCTATGTATGAACTGGTTCGAGTTGGTTATGACAACCTTATCCTGGAAATTATTCGATTGGAAGGAGATTCAGCTACCATCCAAGgtatttcattcaagtgtttgtcttctaggagataaaagaatctatcatggaaagaattgatatgaagaaaagtggatgaggtttcttttagaagaaacca------

upper sequence: LOC_Os06g45120.2 (Oryza sativa), 5'ss of exon 2
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 5'ss of exon 2
GGAATGGGTGGTGCTGCCATGTATGAACTTGTCCGAGTTGGTAATGATAACCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtatag-gacggtgaaattctacctcacatatttgtggtgccttttccccacatgacatgtacaatataaatttcaccaattttttct-tgtgattacc-gtttgcag
|||||||  || ||||| ||||||||||| ||||| |||||  |||| ||||| ||||| |||||||||||  | || || ||||| ||||| || || |||||   |||  | |||   |   |  | | ||  || ||| || | | |||      | |  | | ||| |||    |  | ||  | | ||  | |  ||||    
GGAATGGCAGGGGCTGCTATGTATGAACTGGTCCGTGTTGGACATGACAACCTTATTGGAGAAATTATTCGGTTAGAAGGAGATTCTGCCACAATCCAGGgtattttgacttttaaaacgt---tttcttgttactgttgcattcttctcac----tgtatttactttaattttggaaaggtcttaatgtatgtcttcttgtttttt-

upper sequence: LOC_Os06g45120.2 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S44_102V6.1 (Physcomitrella patens), 5'ss of exon 2
GGAATGGGTGGTGCTGCCATGTATGAACTTGTCCGAGTTGGTAATGATAACCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtatag-gacggtgaaattctacctcacatatttgtggtgccttttccccacatgacatgtacaatataaatttcaccaattttttcttgtgattaccgtttgcag
|||||||| || || |||||||| ||  | ||||| || ||  | ||||| || ||||| || |||||||||||||||||||||||||| ||||||||||||   | || | |   | || |  |   || ||||   ||            |   || | ||| |      | ||  || | ||  ||||  |  | |  |    
GGAATGGGAGGAGCAGCCATGTACGAGTTGGTCCGTGTAGGACACGATAAGCTGATTGGAGAGATTATTCGTCTTGAGGGTGATTCAGCTACCATTCAAGgtgcggagaagctttcagtcga--tggaatttttggaatgaacggattagttagtccaagcacatttctttctccattaagtcttcgttgttttatcggcgt----

upper sequence: LOC_Os06g45120.2 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S8_312V6.1 (Physcomitrella patens), 5'ss of exon 2
GGAATGGGTGGTGCTGCCATGTATGAACTTGTCCGAGTTGGTAATGATAACCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtatag-gacggtgaaattctacctcacatatttgtggtgccttttccccacatgacatgtacaatataaatttcaccaattttttcttgtgattaccgtttgcag
|| ||||| || || || ||||| ||  | || || || ||  | ||||| || || || ||||| ||||| ||||||||||||||||| || |||||||||  || ||   || |||   |  | |  | ||| |     ||           ||    |   |  |  |  |      | | || |   ||||           
GGCATGGGAGGAGCCGCGATGTACGAGTTGGTTCGTGTCGGACACGATAATCTGATAGGAGAAATCATTCGCCTTGAGGGTGATTCAGCTACAATTCAAGgtgcagagatattgtaatcagatttgatgtctttctttcagctgaattttcggggatgaatgttaccttgaaatggttgttctcttgtgaggattttgac------

upper sequence: LOC_Os06g45120.2 (Oryza sativa), 5'ss of exon 2
lower sequence: PP1S10_201V6.1 (Physcomitrella patens), 5'ss of exon 2
GGAATGGGTGGTGCTGCCATGTATGAACTTGTCCGAGTTGGTAATGATAACCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtataggacggtgaaattctacctcacatatttgtggt----gccttttccccacatgacatgtacaatataaa---tttcaccaattttttcttgtgattaccgtttgcag
|||||||| || || || ||||||||  | || || || ||  |||||||  | ||||| || || ||||| |||||||||||||||||||| || ||||||||  ||    |   || |     |   |||||||      ||   |    |  |  |||| | |  |||      | |||| || |||||     | |            
GGAATGGGAGGAGCAGCTATGTATGAGTTAGTTCGTGTGGGACATGATAAGTTGATTGGAGAGATAATTCGACTTGAGGGTGATTCAGCCACTATCCAAGgtatgcga----gttcttttggtaaagggatttgtgaaattagctagtctgtctgagcacatatgccttattttccctctcactaactttttaacagggtgctt--------

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|58692180|gb|CK080867.1|CK080867
EST:     CCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAG                         TTTATGAGGAAACAGCTGGGTTGATGGTCAATGATCCAGTGTTGAGAACAA
genomic: CCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtataggacg ... ccgtttgcagTTTATGAGGAAACAGCTGGGTTGATGGTCAATGATCCAGTGTTGAGAACAA
EST: gi|58597715|gb|CK008243.1|CK008243
EST:     CCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAG                         TTTATGAGGAAACAGATGGGTTGATGGTCAATGATCCAGTGTTGAGAACAA
genomic: CCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtataggacg ... ccgtttgcagTTTATGAGGAAACAGCTGGGTTGATGGTCAATGATCCAGTGTTGAGAACAA
EST: gi|29656411|gb|CB652686.1|CB652686
EST:     CCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAG                         TTTATGAGGAAACAGCTGGGTTGATGGTCAATGATCCAGTGTTGAGAACAA
genomic: CCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtataggacg ... ccgtttgcagTTTATGAGGAAACAGCTGGGTTGATGGTCAATGATCCAGTGTTGAGAACAA
EST: gi|29620942|gb|CB625953.1|CB625953
EST:     CCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAG                         TTTATGAGGAAACAGCTGGGTTGATGGTCAATGATCCAGTGTTGAGAACAA
genomic: CCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtataggacg ... ccgtttgcagTTTATGAGGAAACAGCTGGGTTGATGGTCAATGATCCAGTGTTGAGAACAA
EST: gi|29634503|gb|CB639512.1|CB639512
EST:     CCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAG                         TTTATGAGGAAACAGCTGGGTTGATGGTCAATGATCCAGTGTTGAGAACAA
genomic: CCTCATTGGGGAAATTATTCGTCTTGAGGGTGATTCAGCCACCATTCAAGgtataggacg ... ccgtttgcagTTTATGAGGAAACAGCTGGGTTGATGGTCAATGATCCAGTGTTGAGAACAA