This paper provides a novel framework that learns canonical embeddings for non-rigid shape matching. In contrast to prior work in this direction, our framework is trained end-to-end and thus avoids instabilities and constraints associated with the commonly-used Laplace-Beltrami basis or sequential optimization schemes. On multiple datasets, we demonstrate that learning self symmetry maps with a deep functional map projects 3D shapes into a low dimensional canonical embedding that facilitates non-rigid shape correspondence via a simple nearest neighbor search. Our framework outperforms multiple recent learning based methods on FAUST and SHREC benchmarks while being computationally cheaper, data efficient, and robust.