To comply with the increasing complexity of new mechatronic systems and stricter safety regulations, advanced estimation algorithms are currently undergoing a transformation towards higher model complexity. However, more complex models often face issues regarding the observability and computational effort needed. Moreover, sensor selection is often still conducted pragmatically based on experience and convenience, whereas a more cost-effective approach would be to evaluate the sensor performance based on its effective estimation performance. In this work, a novel estimation and sensor selection approach is presented that is able to stabilise the estimator Riccati equation for unobservable and non-linear system models. This is possible when estimators only target some specific quantities of interest that do not necessarily depend on all system states. An Extended Kalman Filter-based estimation framework is proposed where the Riccati equation is projected onto an observable subspace based on a Singular Value Decomposition (SVD) of the Kalman observability matrix. Furthermore, a sensor selection methodology is proposed, which ranks the possible sensors according to their estimation performance, as evaluated by the error covariance of the quantities of interest. This allows evaluating the performance of a sensor set without the need for costly test campaigns. Finally, the proposed methods are evaluated on a numerical example, as well as an automotive experimental validation case.