This paper focuses on the sources, pollution status and potential ecology risks of heavy metals (Cr, Cu, Hg, As, Cd, Pb, and Zn) in the surface water, top sediment of river bed and soil along banks of Bortala River, which locates in the oasis region of Xinjiang, northwest China. Results showed that: (1) As a whole, contents of 7 tested heavy metals of Bortala River were low, while the maximum values of Hg, Cd, Pb, and Cr in the river water were significantly higher than those of Secondary Category of the Surface Water Quality Standards of People's Republic of China (GB 3838-2002) and Drinking Water Guideline from WHO. Analysis showed that the heavy metals contents of top sediment on river bed and soils along river banks were significantly higher than those of the river water. (Correlation analysis and enrichment factor (EF) calculation showed that in the river water, top sediment on river bed and soils along river banks, Hg, Cd, Pb, and Cr mainly originated from industrial emissions, urban and rural anthropogenic activities, transportation and agricultural production activities; While Cu, Zn, and As mainly originated from natural geological background and soil parent materials. (3) Pollution assessment showed that in three matrices, the single factor pollution index(Pi) and the integrated pollution index (Pz) of 7 heavy metals were all lower than 1, and they all belonged to safe and clean levels. (4) Potential ecology risk evaluation showed that as a whole the single factor potential ecological risk (Eir) and the integrated potential ecology risks (RI) of 7 heavy metals were relatively low, and would not cause threats to the health of water and soil environment of river basin, while the potential ecology risks of Cd, Hg, Pb, and Cr were significantly higher than those of other heavy metals.