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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGGTTGGGACCGCACAACTCAGTTGGTTGCACTTGCTTGTTTGTTGCTTGATCCATATTATAGAACGTTCAATGGGTTCCAGgtacagagattaacttttatgcaatgcactagtagtagcaaaatctttcagtttgattttagcattatatttgatgtttgatatccctttttgctaactg...

Basic information

species Oryza sativa
transcript LOC_Os08g44260.1
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g44260.1 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G449163_T01 (Zea mays), 5'ss of exon 6
TGATGGTTGGGACCGCACAACTCAGTTGGTTGCACTTGCTTGTTTGTTGCTTGATCCATATTATAGAACGTTCAATGGGTTCCAGgtacagagattaacttttatgcaatgcactagtagtagcaaaatctttcagtttgatt-ttagcattatatttgatgtttgatatccctttttgctaactg
|||||| |||||||||||||| ||||||||| ||||||||||||| ||||||||||| |||||| |||| |||| ||| ||||||||| | || ||  |  |       ||  || ||  |  |  || ||||   ||   || |||  || ||  |  |    |    | ||| ||||  ||   
TGATGGATGGGACCGCACAACCCAGTTGGTTTCACTTGCTTGTTTATTGCTTGATCCCTATTATCGAACTTTCAGTGGATTCCAGgtaaacagtttg-cagtagacttctgttctggtcctttctgaacctttgttttctcttcttaatataatgatgcacacgtctcctgcctgtttgagaaaaa

upper sequence: LOC_Os08g44260.1 (Oryza sativa), 5'ss of exon 14
lower sequence: GRMZM2G046050_T01 (Zea mays), 5'ss of exon 2
TGATGGTTGGGACCGCACAACTCAGTTGGTTGCACTTGCTTGTTTGTTGCTTGATCCATATTATAGAACGTTCAATGGGTTCCAGgtacagagattaacttttatgcaatgcactagtagtagcaaaatctttcagtttgatt-ttagcattatatttgatgtttgatatccctttttgctaactg
|||||| |||||||||||||| ||||||||| ||||||||||||| ||||||||||| |||||| |||| |||| ||| ||||||||| | || ||  |  |       ||  || ||  |      | ||||   ||   || |||  || ||  |  |    |    | ||| ||||  |    
TGATGGATGGGACCGCACAACCCAGTTGGTTTCACTTGCTTGTTTATTGCTTGATCCCTATTATCGAACTTTCAGTGGATTCCAGgtaaacagtttg-cagtagacttctgttctggtcctttttggacctttgttttctcttcttaatataatgatgcacacgtatcctgcctgtttgagagaaa

upper sequence: LOC_Os08g44260.1 (Oryza sativa), 5'ss of exon 14
lower sequence: GLYMA20G33040.1 (Glycine max), 5'ss of exon 8
TGATGGTTGGGACCGCACAACTCAGTTGGTTGCACTTGCTTGTTTGTTGCTTGATCCATATTATAGAACGTTCAATGGGTTCCAGgtacagagattaacttttatgcaatgcactagtagtagcaaaatctttcagtttgattttagcattatatttgatgtttgatatccctttttgctaactg------
|||||| |||||  | ||||  ||||||||| ||||||||  |||||||||||||||||||||| | || ||||  ||||| |||||| || ||||  | || |  |||     ||  | || |    | | ||| |   | |  |  |  ||     || |||  | | | | ||| |||  |       
TGATGGATGGGATAGGACAAGCCAGTTGGTTTCACTTGCTAATTTGTTGCTTGATCCATATTATCGGACATTCACAGGGTTTCAGgta-agggattggcatt-actcaactagtta--aatatcttc-tatgtcaatgccactagaagaagattagcaatttttcct-ttcttatttactatttactattg

upper sequence: LOC_Os08g44260.1 (Oryza sativa), 5'ss of exon 14
lower sequence: GLYMA10G34510.1 (Glycine max), 5'ss of exon 8
TGATGGTTGGGACCGCACAACTCAGTTGGTTGCACTTGCTTGTTTGTTGCTTGATCCATATTATAGAACGTTCAATGGGTTCCAGgtacagagattaacttttatgcaatgcactagtagtagcaaaatctttcagtttgattt---tagcattatatttgatgtttgatatccctttttgctaactg-------
|||||| |||||  | ||||  ||||||||| ||||||||  |||||||||||||||||||||| | || ||||  ||||| |||||| || ||||  |  |||  |||    ||| | |    ||  ||||  | ||  ||     ||| |  | ||| |   |||    |  || ||| |||  |        
TGATGGATGGGATAGGACAAGCCAGTTGGTTTCACTTGCTAATTTGTTGCTTGATCCATATTATCGGACATTCACAGGGTTTCAGgta-agggattg-ccattactcaa----ctaattg----aatttcttctatttcaatgccactagaagaagattagcaatttttcctttctatttactatttactattga

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|29675876|gb|CB672151.1|CB672151
EST:     TTGCTTGTTTGTTGCTTGATCCATATTATAGAACGTTCAATGGGTTCCAG                         GCCCTTGTGGAAAAGGATTGGCTAGCATTTGGCCATCCATTTGCAGAGCGA
genomic: TTGCTTGTTTGTTGCTTGATCCATATTATAGAACGTTCAATGGGTTCCAGgtacagagat ... acttctttagGCCCTTGTGGAAAAGGATTGGCTAGCATTTGGCCATCCATTTGCAGAGCGA