Comparative study of numerically and experimentally obtained seismic responses of un-reinforced masonry building supported on in-house designed un-bonded fibre reinforced elastomeric isolator (U-FREI) are presented in this article. The effectiveness of U-FREI is established very clearly in terms of controlled dynamic response of the model building. Experimental studies are carried out on a shake table with elaborate instrumentations for measurement of acceleration and displacements at different floor levels. Numerical study of the model building supported on U-FREI is carried out to compare the results with experimental investigation. Multi-linear pivot hysteretic plasticity model is used to simulate the behavior of FREI, while plate elements are used for brick-masonry walls. Experimentally obtained force-displacement curves of FREI are used for defining the properties of multi-linear model representing FREI. The dynamic responses obtained from the numerical studies are compared with those from experimental investigations. This study indicates that the seismic responses of building supported on U-FREI can be numerically evaluated with quite reasonable accuracy. A good numerical model can be judiciously used at the preliminary design stage, followed by actual testing and construction of the base isolated building.