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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATATTCCATTGGAGAAGGTTCAAGCTAAATCTTCTGGAAGTGTTCTGCCATATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGGgtatgtattgtgttgctgtttccaatttgtcataattgcatagattttctgtcaccacccacacattccttgtaacctgaatttaaattgatgaataacaatacctggtaaatctgaatatctcattttgaatttgtgttctgcag

Basic information

species Oryza sativa
transcript LOC_Os01g04190.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g04190.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G153704_T03 (Zea mays), 5'ss of exon 3
ATATTCCATTGGAGAAGGTTCAAGCTAAATCTTCTGGAAGTGTTCTGCCATATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGGgtatgtattgtgttgctgtttccaatttgtcataattgcatagattttctgtcaccacccacacattccttgtaacctgaatttaaattgatgaataacaatacctg-gtaaatctga-atatctcattttgaatttgtgttctgcag----------------------------------------------
|||||||||||||||||||||||| |||||| || ||| ||||||||||||||| |||||||||||||||||||||||| | |||||||| ||||||||||||||| | | |||||| | | | | | || | || | | | || | ||| || | | |||| | | |||||||| | ||| | | | | |||| || || | || |||| || |
ATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGACATGTTCTGCCATATGTTGGCGTTGCTTGTTTGGGGGCTATTCTGTTTGGTTACCATCTTGGgtatgtactttattgctgctacaag---atgcttgtttcttaagcacaattggatgaagcata-atttactgca-ttttaattgacaaaaatgaataatgagctggaagtataacagttacatctt-ttctgcacttctgttgtggacacaaaaactgttagttaatagcatgaatccgtgttatggaatgtag

upper sequence: LOC_Os01g04190.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G153704_T05 (Zea mays), 5'ss of exon 3
ATATTCCATTGGAGAAGGTTCAAGCTAAATCTTCTGGAAGTGTTCTGCCATATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGGgtatgtattgtgttgctgtttccaatttgtcataattgcatagattttctgtcaccacccacacattccttgtaacctgaatttaaattgatgaataacaatacctggtaaatctgaatatctcattttgaatttgtgttctgcag
|||||||||||||||||||||||| |||||| || ||| ||||||||||||||| |||||||||||||||||||||||| | |||||||| ||||||||||||||| | | |||||| | | | || ||| || | ||| | | | | | ||| |||| |||||| || | |||| |
ATATTCCATTGGAGAAGGTTCAAGTTAAATCCTCAGGACATGTTCTGCCATATGTTGGCGTTGCTTGTTTGGGGGCTATTCTGTTTGGTTACCATCTTGGgtatgtactttattgctgctacaag------atgcttgt-----ttcttaagcacaattggatgaagcataatttactgcattttaattgacaaaaatgaataatgagctg-----------------------------------

upper sequence: LOC_Os01g04190.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G098011_T02 (Zea mays), 5'ss of exon 3
ATATTCCATTGGAGAAGGTTCAAGCTAAATCTTCTGGAAGTGTTCTGCCATATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGGgtatgtattgtgttgctgtttccaatttgtcataattgcatagattttctgtcaccacccacacattccttgtaacctgaatttaaattgatgaataacaatacctggtaaatctgaatatctcattt-tgaatttgtgttctgcag----------------------------------------------
|||||||| ||||||||||||||| |||||| || ||| |||| |||||||||| || ||||||||||||||||||||| | |||||||||||||||||||||||| | | | || | | | | || || | || | | | | || | ||| || | | |||| | ||||||||||| || | | || ||| || | || | || || |
ATATTCCACTGGAGAAGGTTCAAGTTAAATCCTCAGGACATGTTATGCCATATGTTGGTGTTGCTTGTTTGGGGGCTATTCTGTTTGGTTATCATCTTGGgtatgtactttatcactactacaag---atgattgtttcttaaacacaattggataaagcata-atttactgca-ttttaattgatgaaaatgaataacaagctgaaaataaaatagttccatcttttctgcacttatcttgtgaacacaaaaactgttagataataccaggaatccatttcatggaatgtag

upper sequence: LOC_Os01g04190.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA13G07780.1 (Glycine max), 5'ss of exon 3
ATATTCCATTGGAGAAGGTTCAAGCTAAATCTTCTGGAAGTGTTCTGCCATATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGGgtatgtattgtgttgctgtttccaatttgtcataattgcatagattttctgtcaccacccacacattccttgtaacctgaatttaaattgatgaataacaatacctggtaaatctgaatatctcattttgaatttgtgttctgcag
|| || | | ||| | ||||||||||||| |||||| |||||||| || |||||||| | || || |||||||||||||||||||| ||||||| || | | | | | | ||| | || || | || || || ||| |||| | || ||| || || || || ||| |
ATGTTGTTCCAGCTACTCCTCAGGGCAAATCTTCTGGAAATGTTCTACCATATGTTGGTGTTGCTTGCCTCGGAGCCATTTTATTTGGTTATCATCTCGGgtatggatagcctcttcatatt-agtatgt---gggtcaatggacaataatgcagcatgt-cattttctttgtg-ctgccatctaagtt-ataaa-aatgatatgagt--------------------------------------

upper sequence: LOC_Os01g04190.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv14s0006g02720.t01 (Vitis vinifera), 5'ss of exon 3
ATATTCCATTGGAGAAGGTTCAAGCTAAATCTTCTGGAAGTGTTCTGCCATATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGGgtatgtattgtgttgctgtttccaatttgtcataattgcatagattttctgtcaccacccacacattccttgtaacctgaatttaaattgatgaataacaatacctggtaaatctgaatatctcattttgaatttgtgttctgcag
|| || | || | ||||||||||||| ||| |||||| ||| || ||||||||| |||| || ||| | |||||||||||||| ||||||| ||| || || | | ||| |||| |||||| || | |||| || || || | |||| | |||| ||| | | | | |||
ATGTTGATGTCACTGCTCCCCAGGGCAAATCTTCTGGAACAGTTTTGCCATTTGTTGGTGTTGCTTGTCTGGGAGCAATTCTGTTTGGTTATCATCTAGGgtatg---------actgattt--atct-tagaaatagcatgctttttctatctgt-----taaattc--tgaaatct-----tcaattaaagaatttgaatttcctttcaccatttatacact----------------------

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|88738909|gb|CI762417.1|CI762417
EST:     TATATGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGG                         AGTGGTCAACAGCGCTCTTGAATATCTTGCAAAGGACCTTGGAATTTCTGA
genomic: TATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGGgtatgtattg ... tgttctgcagAGTGGTCAACGGCGCTCTTGAATATCTTGCAAAGGACCTTGGAATTTCTGA
EST: gi|88385512|gb|CI564172.1|CI564172
EST:     TATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGG                         AGTGGTCAACGGCGCTCTTGAATATCTTGCAAAGGACCTTGGAATTTCTGA
genomic: TATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGGgtatgtattg ... tgttctgcagAGTGGTCAACGGCGCTCTTGAATATCTTGCAAAGGACCTTGGAATTTCTGA
EST: gi|88368202|gb|CI575084.1|CI575084
EST:     TATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGG                         AGTGGTCAACGGCGCTCTTGAATATCTTGCAAAGGACCTTGGAATTTCTGA
genomic: TATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGGgtatgtattg ... tgttctgcagAGTGGTCAACGGCGCTCTTGAATATCTTGCAAAGGACCTTGGAATTTCTGA
EST: gi|300215629|gb|HO088255.1|HO088255
EST:     TATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGG                         AGTGGTCAATGGCGCTCTTGAATATCTTGCAAAGGACCTTGGAATTGCTGA
genomic: TATGTGGGCGTTGCTTGTTTGGGGGCTATTTTATTTGGTTATCATCTTGGgtatgtattg ... tgttctgcagAGTGGTCAACGGCGCTCTTGAATATCTTGCAAAGGACCTTGGAATTTCTGA