Japan has three types of universities, national, public and private. The PhD fees for both national and public universities are set by the local or central authorities. Usually, universities will have a higher set charge for international students, though not by much.
Currently, national university fees are set at around ¥535,800 (USD $4,865) per year. Students will also have to pay a one-off admission fee of roughly ¥282,000 (USD $2,560). This is significantly cheaper than the tuition fees international students are required to pay in the UK which average around £15-25,000 per year.
The cost to study at a public university in Japan is very similar to their national universities, though the admission cost is slightly higher. Students should expect to pay around ¥537,800 (USD $4,880) per year, with an additional ¥384,800 (USD $3,490) admission fee.
However private universities can be much more expensive and tuition fees tend to vary depending on the subject. Fees can range from ¥700,000 (USD $6,355) for a Medicine course, to ¥1,220,000 (USD $11,070) for a course in the Arts department. Admission fees are lower than national and public universities, costing around ¥220,000 (USD $2,000).
Make sure to check whether or not you will actually have to pay these fees. Japan has many scholarship programmes and tuition fee reduction schemes that extend to international applicants. Depending on your area of study or academic record, you may be eligible for lower or no fees.