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Nucleic Acids Research, 1982, Vol. 10, No. 1 391-402
© 1982

Articles

Key for protein coding sequence identification: computer analysis of codon strategy

Francis Rodier*, Jaime Gabarro-Arpa, Ricardo Ehrlich and Claude Reiss

Institut de Recherche en Biologie Moléculaire, CNRS and University of Paris VII 2 Place Jussieu, F-75251 Paris Cedex 5, France

*To whom all correspondence should be addressed

Received September 29, 1981. The signal qualifying an AUG or GUG as an initiator in mRNAs processed by E.coli ribosomes is not found to be a systematic, literal homology sequence. In contrast, stability analysis reveals that initiators always occure within nucleic acid domains of low stability, for which a high A/U content is observed. Since no aminoacid selection pressure can be detected at N-terminl of the proteins, the A/U enrichment results from a biased usage of the code degenerascy. A computer analysis Is presented which allows easy detection of the codon strategy. N-terminal codons carry rather systematically A or U in third position, which suggests a mechanism for translation ini tiation and helps to detect protein coding sequences in sequenced DNA.


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