The invention belongs to the technical field of oil reservoir development, and in particular relates to a manufacturing method of an intraformationall heterogeneous core capable of realizing separated injection and separated production, and an experimental method thereof. The manufacturing method comprises the following steps: firstly, weighing the quantity of quartz sand and epoxy resin for manufacturing high, medium and low permeable layers with the design size, and mixing the quartz sand and the epoxy resin uniformly and correspondingly; secondly, putting isolating bakelite plates among lower, middle and upper layers of mixed sand in the length direction end face, putting metal moulds separately, scraping, pressurizing and drying, adhering a core end cover to a core end face, coating the surfaces of the other parts of the core with one layer of thickened and uncured epoxy resin, and naturally drying; finally, putting the adhered end cover core into a wood mold, performing integral casting by using the epoxy resin, and curing to form the intraformationall heterogeneous core capable of realizing separated injection and separated production. The manufacturing process is simple to operate, the experimental data is reliable, and the problem that each small layer wave, the state and the reserve recovery degree of the intraformationall heterogeneous core cannot be evaluated quantitatively is solved.