I'd send it back whilst you can.
Why do I say that?
Well, many moons ago I spent 3500 quid on a PC. I was using a 3970x IIRC. Sandybridge E. I bought an MSI Big Bang Xpower II which at the time was the equivalent of the Godlike. IE their most expensive overbuilt mobo. It lasted 10 months. At which point the VRM died and it would only run at 1.1ghz.
By this time X99 had launched. I first contacted the store I got it from and they said they could not replace it. Obviously with a PC like that (much like this one of yours) that wasn't good enough so I contacted MSI in Holland and they issued me an RMA.
Cool. However when they got it back they then tell me they don't stock any replacement boards. "OK well what X79 board CAN you send me?" Their answer was "none. We don't have any ".
So I paid all that for a board, spent 3500 pounds on an 11 month old PC and they can't send me a board to get it working again.
Their offer was pathetic. In the end IIRC I got back about 200 quid after constant arguing with them.
In other words? Get it backed now. I would bet they DO NOT stock RMA boards for something so expensive and I wouldn't trust them as far as I could throw them.
Not bought an MSI board since.