Abstract: Water retention and biodiversity conservation zone of Great Xing'an Mountains is an important ecological barrier in North China. Quantitative analysis of dynamics and internal relationship among the ecosystem service functions is of great scientific significance for reasonable utilization of natural resources and sustainable development in this region. Based on multi-source data and the models for ecosystem service function evaluation, dynamics of service functions in the ecological functional zone of Great Xing'an Mountains during 2000-2015 was analyzed, including water supply, carbon storage and habitat quality function. Furthermore, this study discussed the balance and coordination among the ecosystem service functions through the combination of correlation analysis and trade-off and synergic relation model. The results were concluded as follows: (1) woodland was the dominant ecosystem in this region, accounting for 67.80% of the total area, followed by wetland and grassland. The three ecosystem types accounted for 92.35% of the total area. During 2000-2015, woodland increased by 2 080 km², while grassland and wetland decreased by 1 365 and 1 265 km², respectively. The area of other ecosystems changed insignificantly. (2) From 2000 to 2015, the function of water supply was obviously weakened, carbon storage was enhanced slightly, and the habitat quality was significantly improved. Wherein, water supply decreased by 1.51 billion cubic meters, the quantity of carbon storage increased by 16.79 Tg, and the area with good or higher habitat quality increased by 5 746 km², accounting for over 85.41% of the total ecological functional area. The habitat quality of biological inhabitation and activity zone was significantly improved. (3) At the regional and municipal scale, water supply and carbon storage showed a trade-off relation whereas carbon storage and habitat quality presented a synergic relation. A trade-off relation was revealed between water supply and habitat quality functions at the regional scale. At the municipal scale, there was a trade-off relation between Chifeng City and Heihe City, but a synergic relation between Great Xing'an Mountains Prefecture and Tongliao City. The results provide important data support and decision basis for regional natural resources management, ecological planning and improvement of overall benefit of ecological system.