Identification of putative regulatory upstream ORFs in the yeast genome using heuristics and evolutionary conservation
Open Access
- 8 August 2007
- journal article
- Published by Springer Nature in BMC Bioinformatics
- Vol. 8 (1) , 295
- https://doi.org/10.1186/1471-2105-8-295
Abstract
The translational efficiency of an mRNA can be modulated by upstream open reading frames (uORFs) present in certain genes. A uORF can attenuate translation of the main ORF by interfering with translational reinitiation at the main start codon. uORFs also occur by chance in the genome, in which case they do not have a regulatory role. Since the sequence determinants for functional uORFs are not understood, it is difficult to discriminate functional from spurious uORFs by sequence analysis.Keywords
This publication has 39 references indexed in Scilit:
- A high-resolution map of transcription in the yeast genomeProceedings of the National Academy of Sciences, 2006
- Rck2 Is Required for Reprogramming of Ribosomes during Oxidative StressMolecular Biology of the Cell, 2006
- Folding Free Energies of 5′-UTRs Impact Post-Transcriptional Regulation on a Genomic Scale in YeastPLoS Computational Biology, 2005
- Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzaeNature, 2005
- Global Gene Expression Profiling Reveals Widespread yet Distinctive Translational Responses to Different Eukaryotic Translation Initiation Factor 2B-Targeting Stress PathwaysMolecular and Cellular Biology, 2005
- Taxonomy and phylogenetic diversity among the yeastsPublished by Springer Nature ,2005
- Genome sequence of the Brown Norway rat yields insights into mammalian evolutionNature, 2004
- Sequencing and comparison of yeast species to identify genes and regulatory elementsNature, 2003
- Surveying Saccharomyces Genomes to Identify Functional Elements by Comparative DNA Sequence AnalysisGenome Research, 2001
- Pet111p, an Inner Membrane-bound Translational Activator That Limits Expression of the Saccharomyces cerevisiaeMitochondrial Gene COX2Journal of Biological Chemistry, 2001