The article describes the electronic educational resources – multimedia training system for congenital malformations and developmental anomalies. The work objective is an integrated approach to self-training and testing that combines the traditional principle of the control of knowledge and graphic tests with animation elements that provides high-quality remote to increase knowledge. We describe the structure of the system, screenshots, as well as Web-technology used for its development. The functionality of the system and the experience of Internet-based applications to improve the skills of doctors and students are given training. Criterion for assessing the level of knowledge of students on the basis of test results, taking into account the complexity of tests offered have been proposed. Evaluating the effectiveness of the use of distance training system allows us to conclude that multimedia training system «Congenital malformations» can be successfully applied for remote medical information support medical genetic counselors and physicians of different specialties involved in diagnosing congenital malformations in children and for training students – future doctors.