Historic Centre (Old Town) of Tallinn is a Cultural World Heritage Sites (#822) dating back to the 13th century. The Old Town is exceptionally well-preserved despite the ravages of fire and war in the intervening centuries. The old town is easily accessible from the airport or the central Tallinn bus terminal.
Tomioka Silk Mill and Related Sites is a Cultural World Heritage Sites (#1449) from the late 19th century, which at the time was the world leading exporter of raw silk. The site is located within a day trip distance from Tokyo, Japan.
Hiraizumi – Temples, Gardens and Archaeological Sites Representing the Buddhist Pure Land is a Cultural World Heritage Sites (#1277) with exceptional combination of gardens, water, and the surrouding landscape. The Hiraizumi site makes up for a fantastic combination with Sendai and the Matsushima Bay.
The Historic Villages of Shirakawa-go and Gokayama are Cultural World Heritage Sites (#734) consisting of large gassho-style houses with steeply pitched tatched roofs. The Shirakawa-go village can be visited in a two day combination with various things to do in Kanazawa, or a lovely over-night stay in one of the gassho-style houses.
Fujisan, sacred place and source of artistic inspiration is a Cultural World Heritage Site (#1418), a 3,776m tall volcano, and iconic symbol of Japan. Mount Fuji can on clear sky days be seen from various places in Japan, including Tokyo, Yokohama, and Hakone, and also from the Shinkansen between Tokyo and Kyoto.
The Historic Monuments of Ancient Kyoto (Kyoto, Uji and Otsu Cities) are a Cultural World Heritage Site (#688) located in Kyoto and Shiga prefectures of Japan. The historic monuments consists of 17 components parts spread over the three cities Kyoto, Uji and Otsu. Kyoto gives easy access to several other World Heritage Sites, but can also be combined with visits to Osaka, Kobe and other Japanese national treasures.
Shiretoko is a Natural World Heritage Site (#1193) located in at the north eastern peninsula on Hokkaido in Japan. The area is rather inaccessable, but makes up for a good exploration of Hokkaido as well. Shiretoko is rich in animal wildlife, including the Japanese Brown Bear - The bear activity peaks in the period from May to July.
The Ogasawara islands (Bonin islands) is a Natural World Heritage Site (#1362) located 1,000 km south of Tokyo, Japan. It is located in the same sub-tropical climate zone as the Okinawa islands, but are far less visited due to the very limited options and long duration to get there.
Shirakami-Sanchi is a Natural World Heritage Site (#663) located in the Tohoku region on the border between Aomori and Akita prefectures in Japan. The core zone is have strict access rules, so mainly visitors only enter the buffer zone. The area is especially beautiful in the autumn season.