I'm working with the Drosophila larvae as my model system.
My gene of interest makes five predicted polypeptide isoforms and I am trying to determine which of these isoforms is being expressed in the larval muscle cells. All these isoforms differ from each other in only the C-terminus, otherwise they have identical sequences. Their MW are in range of 115-130 kDa.
Does anyone have a good idea of what technique I can use to identify which of these five isoforms is being expressed in the muscle?
I tried Western Blotting, but the Ab we have recognises the N-termius, and it doesnt discriminate one isoform from another. I just see one single band. Someone else had mentioned PCR but I dont know how exactly to go about it.
Anyone have a good strategy and/or protocol?