The invention discloses a preparation method of phosphatidylserine. The preparation method comprises the following steps: (1) mixing soya bean lecithin and water, thus preparing a mixture M1; (2) adding L-serine and phospholipase D into the mixture M1, and mixing L-serine, phospholipase D and the M1, thus preparing a phosphatidylserine crude product; (3) adding a solvent into the prepared phosphatidylserine crude product for extraction, thus preparing a phosphatidylserine semi-finished product; and (4) enabling the prepared phosphatidylserine semi-finished product to sequentially pass through a silicagel column and an ion exchange resin, thus preparing phosphatidylserine, wherein the solvent is composed of chloroform, ethanol, diethyl ether and water. According to the design, soya bean lecithin is mixed with water firstly, then L-serine and phospholipase D are added for carrying out reaction, then the solvent containing chloroform, ethanol, diethyl ether and water is adopted for carrying out extraction, and the obtained phosphatidylserine semi-finished product is filtered by the silicagel column and the ion exchange resin, the operation is simple and convenient, the prepared phosphatidylserine is high in purity, and the application range of phosphatidylserine is greatly expanded.