We propose and analyze an interface between a topological qubit and a superconducting flux qubit. In our scheme, the interaction between Majorana fermions in a topological insulator is coherently controlled by a superconducting phase that depends on the quantum state of the flux qubit. A controlled-phase gate, achieved by pulsing this interaction on and off, can transfer quantum information between the topological qubit and the superconducting qubit.