In order to further understand the impact of updraft on the complex charge structure characteristics within thunderstorm clouds, the WRF model with electrification and discharge parameterization scheme is used to simulate the process of a strong thunderstorm with inverted charge structure on June 6, 2012 in the DC3 experiment. The results show that the electrification region corresponds to the strong echo region, which mainly occurs in the ice-water mixing region with cloud water content greater than 0.2 g/kg in the updraft region. The non-inductive electrification mechanism dominates the electrification process in thunderstorm clouds. There is considerable charged particles in the periphery area of the updraft, which is mainly formed by the backward horizontal transport of charged particles from the electrified area by the airflow. The polarity of homogeneous particles change little in a large range, but the net charge distribution presents more complex due to the different content and charge of particles. The updraft with a certain intensity can destroy the continuity of the charge area, resulting in a high-density and smaller area with positive and negative staggered distribution in the convection region. Since there is no updraft in the stratiform area, the charged particles mainly come from the horizontal transport in the updraft area, so the charge structure in the stratiform cloud area is relatively continuous and wide, but the charge density is relatively weak. Due to the different intensity and inclination degree of updraft in different cell life periods, there are certain differences in the distribution characteristics of hydrometeor particles among cells, which makes their reversal temperature and electrification rate significantly different. Therefore, the charge area in the updraft area becomes more fragmented and the charge structure becomes more complex during the merger.