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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAAATAGTTGGAAGAACCTATTTTCATACATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATTgtaagatagctggatttgttgttcactcctattaaatgagtattcacagtgatcatgaccaaaagaatctctcatcttgcag

Basic information

species Oryza sativa
transcript LOC_Os06g46310.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os06g46310.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G069198_T04 (Zea mays), 5'ss of exon 3
AAAAATAGTTGGAAGAACCTATTTTCATACATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATTgtaagatagctggatttgttgttcactcctattaaatgagtattcac---------agtgatcatgaccaaaagaatctct----catcttgcag
||||| |||||||||||| |||| |||||||||||||| |||||||| ||||| ||||| ||||||||||||||||| ||||||||    |||||   | |||     |  | | ||||||||  |         | ||   ||     | | | | | |      ||||||||
AAAAACAGTTGGAAGAACTTATTCTCATACATAGGGCCTGGATTTCTCGTCTCAATTGCATATATTGATCCTGGAAACTgtaagattaacggattcacttttcttcgattctcattgagtatttcccttccatctattgtgtattcttcacaaattttttggtgtgtcttgcag

upper sequence: LOC_Os06g46310.1 (Oryza sativa), 5'ss of exon 3
lower sequence: GLYMA08G23320.1 (Glycine max), 5'ss of exon 3
AAAAATAGTTGGAAGAACCTATTTTCATACATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATTgtaagatagctggatttgttgttcactcctattaaatgagtattcacagtgatcatgaccaaaagaatctctcatcttgcag------------
| ||  || ||||| ||| ||||| ||||||| ||||| ||||||||||| || ||||| ||||| || || ||||| ||||||||   |  |||  |   |   | ||   | |  || |   | | |  | |     | | |  | ||  || || ||             
AGAACAAGCTGGAAAAACTTATTTGCATACATTGGGCCTGGATTTCTTGTTTCCATTGCATATATCGACCCAGGAAACTgtaagatcattt-attcatcactttattctgaaataaaaggaaatatattcctgacatagatatgcttatcgtatttttcacaatgacttgcag

upper sequence: LOC_Os06g46310.1 (Oryza sativa), 5'ss of exon 3
lower sequence: AT1G15960.1 (Arabidopsis thaliana), 5'ss of exon 2
AAAAATAGTTGGAAGAACCTATTTTCATACATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATTgtaagatagctggatttgttgttcactcctatta-aatgagtattcacagtgatcatgaccaaaagaatctctcatcttgcag--------
||||| || ||||| ||| | || |||||| |||| || |||||||||||||| ||||| || |||||||||||||| ||||||||       |||||   | | |   | |  ||    ||  || |  || ||  | | |  | || | |  | |||  |        
AAAAAGAGCTGGAAAAACTTCTTCTCATACTTAGGCCCTGGATTTCTTGTCTCAATTGCTTACATTGATCCTGGAAACTgtaagattctc---tttgtaaataaatgaaagtgtaacacttacgcagacaga-cacaagctat-gcatttttgttgttgttgttgtacag

upper sequence: LOC_Os06g46310.1 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv09s0070g00210.t01 (Vitis vinifera), 5'ss of exon 3
AAAAATAGTTGGAAGAACCTATTTTCATACATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATTgtaagatag-------ctggatttgttgttcactcctattaaatgagtattcacagtgat--catgaccaaaagaatctc-tcatcttgcag
|  || || ||||| ||| ||||| |||| || || || || |||||||| |||||||| |||||||||||||||||||||||||  |        | | |   || || ||| |||| |||||  | |||  | | ||  | | | | | |   | |  ||  |||||||
AGGAAAAGCTGGAAAAACTTATTTGCATATATGGGTCCTGGGTTTCTTGTGTCTATTGCATATATTGATCCTGGAAATTgtaagactgagacttcttagttcctttttttactactataaaatgc-tcttcctaattatgccctcatctatattttgtgatcgccttgcag

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|33653430|gb|CF276044.1|CF276044
EST:     CATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATT                         TTGAGACAGACCTACAGGCTGGAGCACAGTACAAATATGAG
genomic: CATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATTgtaagatagc ... catcttgcagTTGAGACAGACCTACAGGCTGGAGCACAGTACAAATATGAG
EST: gi|88721773|gb|CI745072.1|CI745072
EST:     CATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATT                         TTGAGACAGACCTACAGGCTGGAGCACAGTACAAATATGAG
genomic: CATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATTgtaagatagc ... catcttgcagTTGAGACAGACCTACAGGCTGGAGCACAGTACAAATATGAG
EST: gi|88692251|gb|CI735826.1|CI735826
EST:     CATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATT                         TTGAGACAGACCTACAGGCTGGAGCACAGTACAAATATGAG
genomic: CATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATTgtaagatagc ... catcttgcagTTGAGACAGACCTACAGGCTGGAGCACAGTACAAATATGAG
EST: gi|44677020|gb|CR290454.1|CR290454
EST:     CATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATT                         TTGAGACAGACCTACAGGCTGGAGCACAGTACAAATATGAG
genomic: CATAGGGCCCGGATTTCTTGTCTCTATTGCGTATATTGATCCTGGAAATTgtaagatagc ... catcttgcagTTGAGACAGACCTACAGGCTGGAGCACAGTACAAATATGAG