| Pref.Code ISO 3166-2
 | Prefecture | Museum, University, Institution | Database | Specimen List | 
| JP-01 | Hokkaido | Hokkaido University Museum | Original Database |  | 
| JP-01 | Hokkaido | Kushiro Campus, Hokkaido University of Education | Original Database |  | 
| JP-01 | Hokkaido | Kitami Region Museum of Science History and Art | Original Database |  | 
| JP-01 | Hokkaido | Mikasa City Museum | Now Building |  | 
| JP-01 | Hokkaido | Akkeshi-cho Kaiji Kinenkan (Akkeshi Town) | Original Database |  | 
| JP-01 | Hokkaido | Okhotsk Museum Esashi | Original Database |  | 
| JP-01 | Hokkaido | Yubetsu-cho Kyodo-kan (Yubetsu Town) | Original Database |  | 
| JP-03 | Iwate | Iwate Prefectural Museum | Original Database |  | 
| JP-04 | Miyagi | Tohoku University Museum | Original Database |  | 
| JP-04 | Miyagi | Tohoku University Museum (Type Bivalvia) | Original Database |  | 
| JP-04 | Miyagi | Sendai City Science Museum (Registered Coll) | Original Database |  | 
| JP-04 | Miyagi | Sendai City Science Museum (Hatai, Masuda Coll.) | Original Database |  | 
| JP-05 | Akita | Mineral Industry Museum, Akita University | Original Database |  | 
| JP-05 | Akita | GeoSta Yuzawa (Yuzawa Geopark) | Original Database |  | 
| JP-07 | Fukushima | Fukushima Museum | Original Database |  | 
| JP-08 | Ibaraki | National Museum of Nature and Science (Botany) | Original Database |  | 
| JP-08 | Ibaraki | National Museum of Nature and Science (Vertebrate) | Original Database |  | 
| JP-08 | Ibaraki | National Museum of Nature and Science (Microfossil) | Original Database |  | 
| JP-08 | Ibaraki | National Museum of Nature and Science (Invertebrate) | Original Database |  | 
| JP-08 | Ibaraki | Geological Museum, GSJ, AIST | Original Database |  | 
| JP-09 | Tochigi | Tochigi Prefectural Museum | Original Database |  | 
| JP-10 | Gunma | Gunma Museum of Natural History (Invertebrate) | Original Database |  | 
| JP-10 | Gunma | Gunma Museum of Natural History (Vertebrate) | Original Database |  | 
| JP-10 | Gunma | Gunma Museum of Natural History (Plant) | Original Database |  | 
| JP-12 | Chiba | Natural History Museum and Institute, Chiba (Invertebrate) | Original Database |  | 
| JP-12 | Chiba | Natural History Museum and Institute, Chiba (Vertebrate) | Original Database |  | 
| JP-13 | Tokyo | University Museum, University of Tokyo | Original Database |  | 
| JP-14 | Kanagawa | Yokosuka City Museum | Original Database |  | 
| JP-17 | Ishikawa | Komatsu City Museum | Original Database |  | 
| JP-18 | Fukui | Fukui City Museum of Natural History | Original Database |  | 
| JP-20 | Nagano | Shinshu University Museum of Nature and Science | Original Database |  | 
| JP-21 | Gifu | Gifu Prefectural Museum | Original Database |  | 
| JP-21 | Gifu | Mizunami Fossil Museum | Original Database |  | 
| JP-22 | Shizuoka | Museum of Natural and Environmental History, Shizuoka | Original Database |  | 
| JP-23 | Aichi | Nagoya University Museum (NUM) | Original Database |  | 
| JP-23 | Aichi | Nagoya University Museum (ESN) | Original Database |  | 
| JP-23 | Aichi | Nagoya University Museum (Coll.) | Original Database |  | 
| JP-23 | Aichi | Gamagori Natural History Museum | Now Building |  | 
| JP-25 | Shiga | Lake Biwa Museum (Plant) | Original Database |  | 
| JP-25 | Shiga | Lake Biwa Museum (Invertebrate) | Original Database |  | 
| JP-25 | Shiga | Lake Biwa Museum (Fish) | Original Database |  | 
| JP-25 | Shiga | Lake Biwa Museum (Vertebrate) | Original Database |  | 
| JP-25 | Shiga | Lake Biwa Museum (Trace Fossil) | Original Database |  | 
| JP-26 | Kyoto | Kyoto University Museum | Original Database |  | 
| JP-28 | Hyogo | Museum of Nature and Human Activities, Hyogo | Original Database |  | 
| JP-28 | Hyogo | Akashi City Museum of Culture | Original Database |  | 
| JP-30 | Wakayama | Wakayama Prefectural Museum of Natural History | Original Database |  | 
| JP-31 | Tottori | Tottori Prefectural Museum | Original Database |  | 
| JP-32 | Shimane | Shimane Prefectural Sanbe Shizenkan Nature Museum | Original Database |  | 
| JP-32 | Shimane | Shimane University Museum | Original Database |  | 
| JP-33 | Okayama | Kurashiki Museum of Natural History | Original Database |  | 
| JP-35 | Yamaguchi | Mine City Museum of History and Folklore, Fossil Museum | Original Database |  | 
| JP-36 | Tokushima | Tokushima Prefectural Museum | Original Database |  | 
| JP-39 | Kochi | Kochi Prefectural Youth Center | Original Database |  | 
| JP-39 | Kochi | Kochi Prefectural Makino Botanical Garden | Original Database |  | 
| JP-39 | Kochi | Evolutionary Paleoecology Laboratory, Kochi University | Original Database |  | 
| JP-39 | Kochi | Sakawa Geology Museum and Institute | Original Database |  | 
| JP-39 | Kochi | Yokogurayama Museum, Ochi Town | Original Database |  | 
| JP-40 | Fukuoka | Kyushu University Museum (Matsumoto Coll.) | Original Database |  | 
| JP-40 | Fukuoka | Kyushu University Museum (Shuto Coll.) | Original Database |  | 
| JP-40 | Fukuoka | Kyushu University Museum (Hayami Coll.) | Original Database |  | 
| JP-40 | Fukuoka | Kyushu University Museum (Otsuka Coll.) | Original Database |  | 
| JP-40 | Fukuoka | Kyushu University Museum (Yanagida Coll.) | Original Database |  | 
| JP-41 | Saga | Saga Prefectural Space and Science Museum | Original Database |  | 
| JP-43 | Kumamoto | Kumamoto Prefecture Museum Network Center | Original Database |  | 
| JP-43 | Kumamoto | Kumamoto City Museum | Original Database |  | 
| JP-46 | Kagoshima | Kagoshima Prefectural Museum | Original Database |  | 
| JP-47 | Okinawa | Okinawa Prefectural Museum and Art Museum | Original Database |  | 
| JP-47 | Okinawa | Ryukyu University Museum | Original Database |  | 
| Special project | Japanese Fossil Vertebrate | Original Database |  |