This is a research of the relationship between the characteristics of local degeneracy on mutational hotspots regains on genes of human genome. There includes the introduction of related research background and a draft of the calculation methods of local degeneracy and clustering. SNP spots are regarded as the foundation to decide mutational hotspots. 2 831 genes of human genome are selected and analyzed by their characteristics of local degeneracy on hotspots regains. Furthermore, genes whose hotspots are aggregated in relatively high local degeneracy regains and their low counterpart are analyzed and classified by their biological function. The selected genes are clustered by their parameters of local degeneracy. Some function classes whose selected genes are clustered together through clustering are found. For certain function classes, all selected genes of each class have similar parameters of local degeneracy. It appears that the local degeneracy of amino acid residues that contain SNPs of certain gene depends on the function of the proteins these genes produce. The fundamental reason for this phenomenon may be that by their nature, SNPs connect local degeneracy in mutational hotspot regions and biological function. Depending on whether they are degenerate SNPs affect the functions of proteins, and each no degenerate SNP may be a potential source of phenotypic diversity. Human genes appear to select high local degeneracy at the amino acid residues that contain SNPs. This may be the result of natural selection. This result shows that their trait of local degeneracy also like each other, which is a good clue to predict gene function by their local degeneracy.