Dear RG users,
I know that a series of genes are expressed in the same tissue of an eukaryotic organism; these genes map in close proximity in the genome, that is they lay hundreds of base pairs far away in the same chromosome; now my question is, is it possible to predict if all of the genes or at least some of them are under the control of the same promoter or if they are expressed in a polycistronic mRNA? any advice in this way will be highly appreciate
Polycistronic mRNAs are very rare in eukaryotic organisms. Usually, genes that are expressed in the same tissue type are regulated by a similar set of transcription factors. You could look at the regulatory elements for the genes to see if they have similar transcription factor binding sites.
Perhaps look at 3C (chromatin conformation) data for links between a distal regulatory site and the promoters of multiple contiguous genes. This is not the same as a single promoter driving the expression multiple genes. The 3C data for human and mouse is publically available from the ENCODE and related projects.
Hi,
A polycistronic eukaryotic mRNA would be a big surprise. Do you think the "intergenic" stretches are "spliced out"? If so, you could get an answer by treating this as a splicing issue and performing PCR/qPCR with junction-specific primers.
Check out the link for a database of published, junction-specific qPCR primer sequences.
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