In order to effectively improve the utilization efficiency of the Yangtze River shoreline resources, this article explores and practices the system of paid use of the Yangtze River shoreline resources in the Jiangsu section based on the concept of sustainable development of the Yangtze River. Through the comprehensive consideration of the natural conditions and socio-economic conditions of shoreline waters and land areas, the pricing method for the paid use of Yangtze River shoreline in the Jiangsu section is proposed with the benchmark price of water depth, the shoreline grade coefficient, the actual utilization grade matching coefficient of shoreline, and the shoreline utilization efficiency coefficient as indicators. Based on this method, the practice application in the Yangzhou section of Yangtze River shoreline shows that most of the original enterprises on the Yangzhou sections have high utilization efficiency of the shoreline, but there are also a few companies occupying excellent shoreline and the utilization efficiency is low. It is recommended to adopt the system of paid use of shoreline to promote the exit or transformation and upgrading of enterprises, and to improve the rational and efficient use of shoreline resources.