An intersection control system includes: a storage storing multiple pieces of intersection control information that are different from each other, each piece of the intersection control information including multiple pieces of permitted trajectory information each of which indicates a permitted travel trajectory that a vehicle is permitted to follow, and a plurality of the travel trajectories not interfering with each other; and one or more processors configured to acquire multiple pieces of travel trajectory information each of which indicates a travel trajectory that each of a plurality of the vehicles located near the intersection follows when passing through the intersection, select a piece of the intersection control information that matches the pieces of the travel trajectory information from among the pieces of the intersection control information, and send the selected piece of the intersection control information to the vehicles located near the intersection.