Hey guys, it's been a while...
and I'm guessing this is a very trivial question although I can't seem to wrap my head around it:
in order to determine the subcellular localization of my favourite RNA (i.e. nuclear vs. cytoplasmic; I am reluctant to do FISH) I am going to fractionate my cells and isolate both nuclear and cytoplasmic RNA.
Now here's where I am unsure: I'd like to simply do a relative quantification, for instance to determine that RNA X is three times as abundant in the cytoplasm vs. the nucleus. Which gene would I use for normalization, if that is even possible?
Thanks a lot!