I doubt that's a problem. I don't have any clearance issues on my 950sm, but the 450exc I turned into a supermoto has bad chain rub on the tire (many do) No issues there either. That's a thick area of the tire.
My local dealer actually keeps a jack plane on hand specifically for shaving that area down on tires used for sumo conversions.
Post a pic of the area and we can go from there.