The purpose of this article was to investigate the apoptosis effect of the n-butanol extract from Capparis spinosa L. (CSBE) on human Gastric Cancer cells SGC-7901. MTT assay was used to measure the inhibitory rate of CSBE Morphological changes of apoptosis were observed with fluorescence microscope. Flow cytometry was employed to analyse the apoptotic rate of CSBE on SGC-7901 cells. Laser confocal microscopy(LCM) was adopted to assess [Ca2+]i in the cells. The proliferation of SGC-7901 cells were inhibited after treated with CSBE in the dose of 5, 25, 50, 100, 200 and 400 μg/mL for 72 h, and the IC50 was 31.542 μg/mL. After SGC-7901 cells were treated by CSBE for 40h, morphological changes of early apoptosis were observed. After SGC-7901 cells were treated with CSBE in the dose of 15, 30 and 60 μg/mL for 72h, the apoptotic rate was 58.6%, 92.298% and 95.898% respectively. When the operating time was 24h, the intracellular [Ca2+]i was significant increased. In a conclusion, The CSBE could induce SGC-7901 cell apoptosis, and one of the mechanism was to increase [Ca2+]i in SGC-7901 cells.