PMID:11939565
| Citation |
Yamagishi, K, Oshima, T, Masuda, Y, Ara, T, Kanaya, S and Mori, H (2002) Conservation of translation initiation sites based on dinucleotide frequency and codon usage in Escherichia coli K-12 (W3110): non-random distribution of A/T-rich sequences immediately upstream of the translation initiation codon. DNA Res. 9:19-24 |
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| Abstract |
Dinucleotide frequencies are useful for characterizing consensus elements as a minimum unit of nucleotide sequence because the neighborhood relations of nucleotide sequences are reflected in dinucleotides. Using a consensus score based on dinucleotide frequencies and intra-species codon usage heterogeneity, denoted by the Z1 parameter, we report the relationship between nucleotide conservation at the translation initiation sites of genes in the Escherichia coli K-12 genome (W3110) and codon usage in its downstream genes. Significant positive correlations were obtained in three regions centered at -13, -4, and +7, which correspond to the Shine-Dalgarno element, the A + T element immediately upstream of the translation initiation site, and the downstream box, respectively. |
| Links | |
| Keywords |
Base Sequence; Codon, Initiator; Conserved Sequence; Dinucleotide Repeats; Escherichia coli/genetics; Gene Order; Protein Biosynthesis |
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