AUGcontext DB: a comprehensive catalog of the mRNA AUG initiator codon context across eukaryotes.

ABSTRACT: The mRNA translation defines the composition of the cell proteome in all forms of life and diseases. In this process, precise selection of the mRNA translation initiation site (TIS) is crucial, as it establishes the correct open reading frame for triplet decoding. We have gathered and curated all published TIS consensus context sequences. We also included the TIS consensus context from novel 538 fungal genomes available from NCBI's RefSeq database. To do so, we wrote ad hoc programs in PERL to find and extract the TIS for each annotated gene, plus ten bases upstream and three downstream. For each genome, the sequences around the TIS of each gene were obtained, and the consensus was further calculated according to the Cavener rules and by the LOGOS algorithm. We created AUGcontext DB, a por

SUBMITTER: Osnaya VG 

PROVIDER: S-EPMC11834415 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature