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In Computer Aided Design, Computer Graphics, Robotics, etc., students suffer from inefficient and non-proficient use of the 3D modeling software due to a lack of mathematical knowledge. Deficient knowledge and skills may lead students to use the modeling software through trial-and-error without understanding the algorithms and mathematics. Spatial/geometric transformation is recognized as one of the key factors in learning 3D modeling software. This paper presents a newly developed educational Augmented Reality (AR) mobile application to help students intuitively learn the geometric reasoning of transformation matrices and the corresponding trigonometric equations through play. The application, developed in primary and advanced levels, intends to facilitate the understanding of fundamentals of spatial transformations and their mathematical representations in a self-learning approach. The results of a pilot user study conducted on 7 undergraduate students for the primary level reveal that students’ math scores improved after playing with the application.