To meet the increasing demand for passenger rail transit system from city development and passenger travel, a concept of integrative passenger rail transit system (IPRTS) was defined for the generalized system including railway and urban rail transit, and the disadvantages of the traditional stopping mode of railway trains were analyzed. Then, fundamental principles for IPRTS constructing was presented, i.e., the people foremost, maximum whole benefit, and coordinated development with city. According to different connection forms between railway and urban rail transit, three building modes of the IPRTS were put forward, including dual-purpose mode, common-rail mode, and station transfer mode. The building modes for 23 situations with different characteristics were determined by judgment of 7 conditions, namely, traditional mode adaptability, city position, railway conditions, railway route, urban rail transit conditions and planning, engineering factors, and transportation organization. This can provide a decision support for the IPRTS building.