The impact of earthquake induced by shale gas mining has attracted the attention of the government, academia and the public. It is of scientific significance and application value for the prevention and control of earthquake disaster risk to carry out seismic vulnerability research of induced earthquake. There are significant differences between induced earthquake and natural earthquake in ground motion characteristics, and the seismic response of engineering structures is also very different. In order to reveal the influence of induced earthquake and natural earthquake on the seismic effects of building structure and the distribution of failure probability, this paper takes typical masonry structure as the research object and develops the vulnerability study considering the effects of induced earthquake. Analysis models of typical three-story and six-story masonry structures are established. 40 natural ground motions with earthquake magnitude close to the epicenter and induced earthquake ground motions are used as input to carry out Pushover analysis. Vulnerability curves based on peak acceleration PGA and basic periodic acceleration response spectrum value Sa of the structure are established respectively. The analysis shows that the induced seismic ground motion has more high frequency components, while the natural ground motion has more low frequency components. When PGA is used as the vulnerability parameter, the vulnerability of natural ground motion is significantly higher than that of induced earthquake. When Sa is taken as the input parameter of vulnerability, the vulnerability curves of three-story masonry structure under the action of two kinds of ground motions are close, while the vulnerability of six-story masonry structure under the action of induced seismic ground motions is higher than that of natural earthquakes. In addition, the cyclic loading method is used to analyze the vulnerability of masonry structures under the action of two induced earthquakes. The results show that the damage probability of structures under the action of two induced earthquakes increases obviously.