The following taxes would be imposed when you purchase a property in Japan.
1) Real property acquisition tax (Fudosan Shutoku Zei)
The real property acquisition tax is a prefectural tax on individuals who acquire land or who acquire houses located in the prefecture during the year.
2) Registration and license tax (Toroku Menkyo Zei)
The registration and license tax is a national tax imposed on a person who registers a real estate.
3) Stamp tax (Inshi Zei)
The stamp tax is a national tax imposed on a person who prepares contracts concerning transfer of real property.
4) Fixed assets tax (Kotei Shisan Zei)
The fixed assets tax is a municipal flat-rate tax imposed on the registered owner of property located in cities, towns, and villages according to the tax rules as of 1st January of each year.
5) City planning tax (Toshi Keikaku Zei)
The city planning tax is a specific purpose local tax used to fund urban development projects. It is imposed by municipalities that are engaged in projects under the City Planning Law and Land Readjustment Law.
Also, Income tax and Local inhabitant tax would be imposed if you have incomes of sale or rent generated from the property in Japan.