The paper investigates the stages of designing the information system of higher education institutions, which provides storage of all information in a single database and the effective exchange of information between subsystems, which will significantly improve the efficiency of the university. In order to model the subject area as an obligatory stage of the designed system, we analyzed the peculiarities of constructing a diagram of its uses and designed subsystems of the institute and information tracking. The given information represents a sequence of actions for the process of designing of the information system of a higher education institution that allows clearly and as much as possible to form requirements for its development for the decision of tasks of different purposes.