The invention relates to a method for constructing heterogeneous organ transplantation base donor pigs, and belongs to the field of animal biotechnology. On the basis of fetal fibroblasts, three genes, including GGTA1, CMAH and B4GalNT2, are knocked out by the CRISPR / Cas9 gene editing technology, three humanized modifying genes, including hCD55, hCD59 and hCD46, are inserted at fixed points, and the heterogeneous transplantation base donor pigs modified by CMAHKO / B4GalNT2KO / hCD55 / hCD59 / hCD46 genes is constructed according to a somatic cell nuclear transfer technique. The method solves common problems in heterogeneous organ transplantation, including antigen-antibody immunological rejection reaction and complement regulation, to a certain extent, and lays a foundation for research and development of the specific heterogeneous organ transplantation donor pigs suitable for organs, such as hearts, kidneys and livers as well as tissue such as pancreas islet and skin on the basis of base donor pigs, thereby having high application value and promising application prospect in the construction of the multi-gene modified heterogeneous transplantation donor pigs.