| Japanese shrew mole | Urotrichus talpoides |
| Small Japanese mole | Mogera wogura |
| Greater horseshoe bat | Rhinolophus ferrumequinum |
| Little Japanese horseshoe bat | Rhinolophus cornutus |
| Japanese large-footed bat | Myotis macrodactylus |
| Ikonnikov's whiskered bat | Myotis ikonnikovi |
| Long-legged whiskered bat | Myotis frater |
| Japanese house bat | Pipistrellus abramus |
| Tube-nosed bat | Murina hilgendorfi |
| Japanese giant noctule | Nyctalus aviator |
| Japanese macaque | Macaca fuscata |
| Japanese hare | Lepus brachyurus |
| Japanese squirrel | Sciurus lis |
| Japanese giant flying squirrel | Petaurista leucogenys |
| Japanese dormouse | Glirulus japonicus |
| Large Japanese field mouse | Apodemus speciosus |
| Small japanese field mouse | Apodemus argenteus |
| Asian black bear | Ursus thibetanus |
| Common raccoon | Procyon lotor |
| Raccoon dog | Nyctereutes procyonoides |
| Japanese red fox | Vulpes vulpes |
| Japanese marten | Martes melampus |
| Japanese weasel | Mustela itatsi |
| Japanese badger | Meles anakuma |
| Masked palm civet | Paguma larvata |
| Wild boar | Sus scrofa |
| Sika deer | Cervus nippon |
| Japanese serow | Caprocornis crispus |