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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGCATTCGCGACTTACACCAATGCCAAAAGAATAGTAAAATTGGTAAATGATGTTGGTGCTGTGGTGAACAATGATCCTGATGTTAATAAATACCTAAAGgtatggaacttttgcattctatcgcatccaaaacaaacatgtcacttctcaaattggccatcagagtcttatatgtccaccatctattcaaaataatgtc...

Basic information

species Oryza sativa
transcript LOC_Os01g63270.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g63270.2 (Oryza sativa), 5'ss of exon 12
lower sequence: GRMZM2G085577_T01 (Zea mays), 5'ss of exon 12
AGCATTCGCGACTTACACCAATGCCAAAAGAATAGTAAAATTGGTAAATGATGTTGGTGCTGTGGTGAACAATGATCCTGATGTTAATAAATACCTAAAGgtatgga---acttttgcattctatcgcatccaaaacaaacatgtcacttctcaaattggccatcag----agtcttatatgtccaccatc-tattcaaaataatgtc---------------------------------------
||| || || || ||||| ||||||||||||||||| |||||||| ||||||||||||||||| |||||||||||||| || ||||| ||||| || |||||||| |   ||  |||   | |    | | || ||  | ||  |    | |   ||   |||  |     |  | | | | |  || |    || ||  ||  |                                          
AGCGTTTGCAACATACACTAATGCCAAAAGAATAGTGAAATTGGTGAATGATGTTGGTGCTGTTGTGAACAATGATCCCGAAGTTAACAAATATCTGAAGgtatgaatggacgattgtcctttgaacccttcagaaagatcaatttgtatttgtgatccaccaaaaagagtaaccctttttctatactactacatacaggatggtccatatcatttacttaaagtgttcttttccttttcctgccag

upper sequence: LOC_Os01g63270.2 (Oryza sativa), 5'ss of exon 12
lower sequence: Vv06s0004g06020.t01 (Vitis vinifera), 5'ss of exon 12
AGCATTCGCGACTTACACCAATGCCAAAAGAATAGTAAAATTGGTAAATGATGTTGGTGCTGTGGTGAACAATGATCCTGATGTTAATAAATACCTAAAGgtatggaacttttg-----cattctatcgcatccaaaacaaacatgtcacttctcaaattggccatcagagtcttatatgtccaccatctattcaaaataatgtc
||||||||| || ||||||||||| ||||| ||||| ||  |||| ||||||||||||||||| || |||| ||||||||| || ||| | ||  | ||||||    |  |||      | ||| |     | ||| | ||   |||    || ||  |  |    || |   ||| |  |  |   |||| | |  |   |   
AGCATTCGCTACATACACCAATGCTAAAAGGATAGTCAAGCTGGTGAATGATGTTGGTGCTGTTGTCAACACTGATCCTGAAGTCAATGAGTATTTGAAGgtaaaatatctttaattaactttccagatggtgcaatataattttgtttgctcgcacttgtgtggccacaa--ttacagttgaaatgtctaatgagtaagtt---
















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|701958|gb|D48249.1|D48249
EST:     ATGTTGGTGCTGTGGTGAACAATGATCCTGATGTTAATAAATACCTAAAG                         GTGGTGTTCATTCCCAACTACAATGTATCTGTGGCCGAGGTGCTCATTCCT
genomic: ATGTTGGTGCTGTGGTGAACAATGATCCTGATGTTAATAAATACCTAAAGgtatggaact ... ttcctctcagGTGGTGTTCATTCCCAACTACAATGTATCTGTGGCCGAGGTGCTCATTCCT
EST: gi|27577680|gb|CB000375.1|CB000375
EST:     TGTTGGTGCTGTGGTGAACAATGATCCTGACT-TTAATAAATACCTAAAG                         GTGGTGTTCATTCCCAACTACAATGTATCTGTGGCCGAGGTGCTCATTCCT
genomic: TGTTGGTGCTGTGGTGAACAATGATCCTGA-TGTTAATAAATACCTAAAGgtatggaact ... ttcctctcagGTGGTGTTCATTCCCAACTACAATGTATCTGTGGCCGAGGTGCTCATTCCT
EST: gi|29623807|gb|CB628818.1|CB628818
EST:     ATGTTGGTGCTGTGGTGAACAATGATCCTGATGTTAATAAATACCTAAAG                         GTGGTGTTCATTCCCA-CTACA-TGTATCT
genomic: ATGTTGGTGCTGTGGTGAACAATGATCCTGATGTTAATAAATACCTAAAGgtatggaact ... ttcctctcagGTGGTGTTCATTCCCAACTACAATGTATCT
EST: gi|29623647|gb|CB628658.1|CB628658
EST:     TGTTGGTGCTGTGGTGAAACA-TGATCCTGATGTTAATAA-TACCTAAAG                         GTGGTGTTCATTCCCA-CTACAATGTATCT
genomic: TGTTGGTGCTGTGGTGAA-CAATGATCCTGATGTTAATAAATACCTAAAGgtatggaact ... ttcctctcagGTGGTGTTCATTCCCAACTACAATGTATCT
EST: gi|218500897|gb|FG952814.1|FG952814
EST:     ATGTTGGTGCTGTGGTGAACAATGATCCTGATGTTAATAAATACCTAAAG                         GTGGTGTTCATTCCCAACTACAATGTATCTGTGGCCGAGGTGCTCATTCCT
genomic: ATGTTGGTGCTGTGGTGAACAATGATCCTGATGTTAATAAATACCTAAAGgtatggaact ... ttcctctcagGTGGTGTTCATTCCCAACTACAATGTATCTGTGGCCGAGGTGCTCATTCCT