Zhangjiagang county in Yangtze River Delta region was chosen as the typical area to study the spatial variation of heavy metals of copper (Cu), lead (Pb) and cadmium (Cd) in rice grains. Results indicated that Pb content in rice grains of some samples was significantly higher than the National Food Health Standard (NFHS) (GB2762-2005). Most of those samples appeared in the areas near the industries. Cu and Cd in rice grains had no threat to human’s health at present, but attentions should be taken to the accumulation of Cu and Cd in the areas near the industries. Spatially, Cu and Pb contents in rice grains were higher in Anthrosols than in Cambosols but converse to Cd (p＜0.05). Heavy metal contents in rice grains also depended on the types of industries. Cu and Cd were higher in the areas close to the chemical industries, while Pb was higher in the areas close to the metallurgy industries. The accumulations of Cu and Cd in rice grains were significantly affected by their contents in soil, and accumulation of Cd influenced by soil pH as well. These results can provide important basic information and reference for assessing security of agricultural product quality and performing effective agricultural management in the region.