The invention discloses a method for extracting procyanidine from grape seeds by utilizing an aqueous two-phase system. The method comprises the following steps: 1) pretreating a material, namely drying grape seeds in a drying oven at the temperature of 50-80 DEG C for 18-36 hours, and grinding into powder; and 2) performing aqueous two-phase extraction, namely adding an aqueous two-phase extraction solution composed of ethanol, ammonium sulfate, distilled water and sodium chloride into a centrifugal device, adding the grape seed powder, fully mixing, centrifuging at a rotating speed of 3000-6000 revolutions per minute for 10-15 minutes, and standing for extracting, thereby obtaining procyanidine, wherein the aqueous two-phase extraction solution is composed of 30 wt%-35wt% of ethanol, 20wt%-25wt% of ammonium sulfate, 1.8 wt%-2.2wt% of sodium chloride and the balance of distilled water; and a mass ratio of the grape seed powder to the aqueous two-phase extraction solution is 1:(16-30). The method is rapid in phase separation and low in time consumption, the moisture content of the extraction system is high, an extract can be effectively prevented from being inactivated or denatured, the separation process is complete and economic and is simple in operation, and enlarged production and continuous operations are facilitated.