Objective This study aimed to investigate the stereoscopic structure of the coronary artery in miniature pig heart and its application in preservation. Methods Five intact hearts from Guangxi Bama miniature pigs were selected as the experimental objects. Coronary artery casting specimens of the small pig hearts were made by perfusion and corrosion to explore the fabrication process of the small pig coronary artery casting model and three-dimensional ( 3D) model by using crystal-gutta percha embedding and 3D reconstruction technology. Results The result showed that,the model of small pig heart coronary artery cast embedding had high transparency,which could clearly observe the course and branch distribution of small pig heart coronary artery, and no cast branch was broken. The three-dimensional model constructs the anatomical structure of coronary artery in miniature pig heart, which has strong stereoscopic sense, no artifacts, and can be rotated and segmented at any angle in three-dimensional space. Conclusions The crystal embedded cast model can effectively protect the coronary artery cast specimens of miniature pigs, the 3D model can also provide a technical and empirical basis for 3D virtual simulation of animal models.