As for the railway system, the Tianjin-Pukou, Shanghai-Nanjing and Nanjing-Wuhu Trunk Railways meet in Nanjing, which has become an important hub of railways linking north, east and central China.

The city also boasts an efficient network of public transportation. The bus network, which is currently run by four companies (Nanjing Gongjiao, Zhongbei, Argos and Xincheng), provides more than 170 routes to all parts of the city and suburban areas. The city's first mass transit line, Metro Line No.1, started service on May 15, 2005, and Metro Line No. 2 will begin construction in November 2005. The city is planning to complete a 433-kilometer long Metro and light-rail system by 2050. The expansion of the Metro network will greatly facilitate the intra-city transportation and reduce the currently heavy traffic congestion.

Nanjing's airport, Lukou International Airport, serves both national and international flights. The airport is ranked 15th among 126 civil airports in China in terms of yearly passenger transport, and 10th for yearly cargo transport. The airport currently has 85 routes to national and international destinations, which include Japan, Korea, Thailand and Singapore. The airport is connected by a 29-km highway directly to the city center, and is also linked to various inter-city highways, making it accessible to the passengers from the surrounding cities.

Port of Nanjing is the largest inland port in China, yearly throughput reaching 66 million tons in 2003. The port area is 98 kilometres in full length and has 64 berths including 16 berths for ships with a tonnage of more than 10,000. Nanjing is also the biggest container port along Yangtze River; in March 2004, the one million container-capacity base, Longtan Containers Port Area opened, further consolidating Nanjing as the leading port in the region