general rule what to expect at the 5'-end of viral RNA?

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general rule what to expect at the 5'-end of viral RNA?

Post by sovo » Wed Jan 10, 2007 1:27 pm

I would like to use Epicenters Terminator 5'-phosphate-dependent exonuclease to digest human rRNA, but don't want to destroy any viral RNA present in the sample. The enzyme only digests RNA with a 5'-monophosphate, not those with a cap, hydroxyl group or triphosphosphate. We are interested in any virus which might be present, so I can't give you an exclusive list, but is there anything like a general rule about what to expect at the 5'-end of the RNA of an RNA virus? And what about the viral mRNA (do you call them mRNA?) - how do they look like?
Any help will be greatly appreciated!
Thank you,

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Post by MrMistery » Wed Jan 10, 2007 2:56 pm

well i think the viral mRNA must have a cap and a poly A tail, otherwise the cellular machinery would degrade them immediately no?
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Post by Shallos » Thu Feb 08, 2007 4:11 am

Any way, i don't think it is possible to exclusively protect "all" the viral rna in your digestion because of the diversity of virus. You may focus on several virus that you are interested in and design your experiements.

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