Should be no problem at all. I mean, think about it... Typically, they go from the dish through your home to a wall plate. At the wall plate there is an F-connector that someone has to put some sort of piece of cable onto before running to the set top box.
It isn't recommended because there can be some small amount of signal loss across the F-connector and if it ever comes loose... behind drywall. Well, it's not exactly easy to get to.
If you can get to it, don't even think twice. If you can NOT get to the F-connector when you are done, then make sure you document exactly where that connection point is in case there is a problem down the road. I don't forcast any problems ever though.