Systematic genomic screening and analysis of mRNA in untranslated regions and mRNA precursors: combining experimental and computational approaches

摘要: Motivation: The untranslated regions (UTRs) of mRNA upstream (5'UTR) and downstream (3'UTR) the open reading frame, as well precursor, carry important regulatory sequences. To reveal unidentified signals, we combine information from experiments with computational approaches. Depending on available knowledge, three different strategies are employed. Results: Searching a consensus template, new RNAs RNA elements can be identified in genomic screens. By this approach, identify candidate motifs resembling iron-responsive 5'UTRs HemA, FepB FrdB Escherichia coli. If an element is not yet defined, it may analyzed by combining results SELEX (selective enrichment ligands exponential amplification) search databases or A cleavage stimulating factor (CstF) binding 3 polyadenylation site precursor serves test example. Alternatively, found studying foldings their correlation simple experimental tests. We delineate novel instability 3'UTR estrogen receptor way.