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Missing Codon Pairs in the Genome of Escherichia Coli

ABSTRACT Escherichia coli genome contains 4290 open reading frames (ORFs). Using own computer programme, the full set of ORFs was analyzed for occurrence of all possible combinations of codons in doublets (codon pairs) except for the combinations stop: stop and stop: sense codons. Thus 19 missing pairs were identified among the overall 1358854 analyzed codon pairs. Two of the missing pairs CCU: AGG and ACU: AGA represented combinations between sense codons and 17 were combinations of sense and stop codons. The stop codons in the latter group of missing pairs were definitely biased. Except for one codon pair (ACU: UGA), where the stop codon was UGA, the stop codon in all the rest was UAG. Surprisingly, there was not a single missing codon pair containing the stop codon UAA. The sense codons found in most of the missing codon pairs belonged to the category of rare codons.