You need a board with internal USB 3.0 headers. The least expensive ATX board that offers this is the Gigabyte GA-Z68MX-UD2 $149.99
There's not good search feature for this, you just have to check under the details tab and under Internal I/O Connectors it'll list USB 3.0 x2. If it just lists USB 2.0 then it's not going to work.