A good rule of thumb is 10,000 yen per day of travel. This includes short-haul intercity travel, but not long-haul like Shinkansen. Transportation: Long haul: Expect to spend up to 15,000 yen per long-haul train such as Shinkansen between Tokyo-Kyoto/Osaka, Tokyo-Kanazawa and Kyoto/Osaka-Hakata.