The spatial planning is a planning system of multi planning integration of main function area planning, land use planning, urban and rural planning. The whole process of the spatial planning system is integrated with GIS basic platform, including technical standards, basic research, planning preparation, information platform construction and so on, which need a lot of GIS tools and technologies as strong support. Therefore, the teaching content, teaching methods and teaching organization of GIS course of urban and rural planning major need to innovate actively and keep pace with the times, seek the teaching emergency way that connects with the spatial planning system of the new era, and constantly improve the students" technical practical ability and innovative thinking ability, so as to cultivate practical and innovative talents who meet the needs of the spatial planning system in the new era.