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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGCACATCGTCAAAGATGTACCTAATTATACCTTGCAGCATATTTTGCTGCAGAACAATGAAAACAAGCCTGTCACACACAGCAGAGATACACAGGAAgtaagcattcatgacaaactactctagatgtaacattttgcttaatatgcttcctcgaattagtttggatctatgaatgccagtgaatttcatttgtaat...

Basic information

species Oryza sativa
transcript LOC_Os01g22630.2
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g22630.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G098174_T01 (Zea mays), 5'ss of exon 7
ATGGCACATCGTCAAAGATGTACCTAATTATACCTTGCAGCATATTTTGCTGCAGAACAATGAAAACAAGCCTGTCACACACAGCAGAGATACACAGGAAgtaagcattcatgacaaactactctagatgtaacattttgcttaatatgcttcctcgaattagtttggatctatgaatgccagtgaatttcatttgta-at-------------------------------------------------------------------------------------
|||||||||||| |||||  |||| |||  | | |||||||||||    |||||||| || |||||||||||||| || ||||||||||||||||||||||||||  |     |    ||  | ||  | | |   |||| ||    | || |    || | |||||  |  | ||| ||   |  |||||  | |   ||                                                                                     
ATGGCACATCGTTAAAGACATACCAAATGGTTCTTTGCAGCATATCACACTGCAGAATAACGAAAACAAGCCTGTGACGCACAGCAGAGATACACAGGAAgtaag--tctggcatgtcctgttttacgtttga---tttgttt---ttactactgttaaattgtttgatttcaggaa-gcagttttatttctctcgagcatttctgtagccagctgcctagttactttgctgccgtatgaatctggatgcctcgtgtcgtgatctgtcccaatgtctcatttgcag

upper sequence: LOC_Os01g22630.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G056573_T01 (Zea mays), 5'ss of exon 7
ATGGCACATCGTCAAAGATGTACCTAATTATACCTTGCAGCATATTTTGCTGCAGAACAATGAAAACAAGCCTGTCACACACAGCAGAGATACACAGGAAgtaagcatt-catgac--aaactactctagatgtaac------attttgcttaatatgcttcctcgaattagtttggatctatgaa----tgcc--agtgaattt-catttgtaat----------------------------------------------------
||||||||| || |||||| |||| |||  |   |||||||||||    |||||||| ||||||||||||||||| || ||||||||||||||||||||||||||     |||| |   |  | |  |  || |          | ||   |  | || || |  ||| | ||||   ||| |  |    ||||  ||| | ||| |  | ||| |                                                    
ATGGCACATTGTTAAAGATATACCGAATGGTTTTTTGCAGCATATCACACTGCAGAATAATGAAAACAAGCCTGTGACGCACAGCAGAGATACACAGGAAgtaagtggggcatgtcctgatttgcgttgaatctgttttagtagtgttaaattgtttgatttcaggaactcgtttatttctcttgaacattgccgtagtaactttgctctcgtattgtatgcatgtggaagcctcgtgtcatgatccgttgcaatgtcttatttgcag
















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|66926295|gb|CX113143.1|CX113143
EST:     GCAGAACAATGAAAACAAGCCTGTCACACACAGCAGAGATACACAGGAA                         ATACCATATGTTCCTGGAATATCTATGCTAAAGATCCTTAAGGCTATCAAA
genomic: GCAGAACAATGAAAACAAGCCTGTCACACACAGCAGAGATACACAGGAAgtaagcattc ... tgaattgcagATACCATATGTTCCTGGAATATCTATGCTAAAGATCCTTAAGGCTATCAAA
EST: gi|218505169|gb|FG956729.1|FG956729
EST:     TGCAGAACAATGAAAACAAGCCTGTCACACACAGCAGAGATACACAGGAA                         ATACCATATGTTCCTGGAATATCTATGCTAAAGATCCTTAAGGCTATCAAA
genomic: TGCAGAACAATGAAAACAAGCCTGTCACACACAGCAGAGATACACAGGAAgtaagcattc ... tgaattgcagATACCATATGTTCCTGGAATATCTATGCTAAAGATCCTTAAGGCTATCAAA