Clarifying the spatial and temporal variation characteristics of soil erosion in the Chongqing Section of the Three Gorges Reservoir Area and revealing the pattern of the effect with multiple factors on soil erosion under different rainfall spatial partitions, and to provide scientific reference for the decision of soil erosion control in this area. Based on multi-source remote sensing images, meteorological data, DEM and soil data, taking the Chongqing Section of the Three Gorges Reservoir Area as the study area, the WaTEM/SEDEM model was used to simulate soil erosion from 2000 to 2020. The ISODATA clustering method was used for spatial partitioning of rainfall. Geographical detector was used for multi-factor integrated analysis. The results of the study show that: 1) The average soil erosion modulus in the study area was 10878, 10911, 869, 4752, and 2116 t·hm-2·a-1 in 2000, 2005, 2010, 2015, and 2020, respectively, with an overall mitigating trend in the soil erosion situation, and a significant reduction in intense, very intense and severe erosion. 2) The vegetation cover factor had the highest explanatory power for soil erosion in the high rainfall zone; the factors of land use type, slope, geomorphologic type, soil type, and elevation had a higher explanatory power for soil erosion in the low rainfall zone in 2010, while there was no significant difference in the explanatory power of soil erosion in the different rainfall zones in 2020. 3) In the high rainfall area, the interaction between vegetation cover and other factors has the highest explanatory power for soil erosion. In 2010, in the low rainfall area, the interaction between slope and other factors has a higher explanatory power for soil erosion. There is an obvious pattern of differentiation of the driving factors in different rainfall zones with high risk of soil erosion. From the results of the study, it can be seen that soil erosion in the Chongqing section of the Three Gorges Reservoir Area changes significantly, and there are obvious differences in the combined effects of different driving factors on soil erosion in different rainfall zones.