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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