Statistical analysis of synonymous and stop codons in pseudo-random and real sequences as a function of GC content.

ABSTRACT: Knowledge of the frequencies of synonymous triplets in protein-coding and non-coding DNA stretches can be used in gene finding. These frequencies depend on the GC content of the genome or parts of it. An example of interest is provided by stop codons. This is relevant for the definition of Open Reading Frames. A generic case is provided by pseudo-random sequences, especially when they code for complex proteins or when they are non-coding and not subject to selection pressure. Here, we calculate, for such sequences and for all 25 known genetic codes, the frequency of each amino acid and stop codon based on their set of codons and as a function of GC content. The amino acids can be classified into five groups according to the GC content where their expected frequency reaches its maximum. We

SUBMITTER: Wesp V 

PROVIDER: S-EPMC10752896 | biostudies-literature | 2023 Dec

REPOSITORIES: biostudies-literature