Author: Wang, Shiliang; Sundaram, Jaideep P.; Stockwell, Timothy B.
Title: VIGOR extended to annotate genomes for additional 12 different viruses Document date: 2012_6_4
ID: wd3ir3wg_12
Snippet: The genomes of VEEV and alphavirus encode only two genes. However, two different proteins can be produced from the first large gene by a mechanism known as stop codon leakage (also known as stop codon read-through) (9) . For the majority of mRNA, translation will terminate when the ribosome reaches the first stop codon (UGA). An Arg residue, however, will be incorporated into the protein product at the stop codon position (UGA) for a portion of m.....
Document: The genomes of VEEV and alphavirus encode only two genes. However, two different proteins can be produced from the first large gene by a mechanism known as stop codon leakage (also known as stop codon read-through) (9) . For the majority of mRNA, translation will terminate when the ribosome reaches the first stop codon (UGA). An Arg residue, however, will be incorporated into the protein product at the stop codon position (UGA) for a portion of mRNA (5-50%), and the translation will be aborted at the next stop codon downstream. The stop codon read-through site region is selected by aligning the deduced amino acid sequence to the reference protein in database, and confirmed by the identity (>60%) of the peptide sequences flanking the potential stop leakage site (100 residues on each side). The leakage site is finalized by the codon (UGA) and the conserved motif (Arg-Leu) next to the read-through site (9) .
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