- Chub: Freshwater fish often found in clear, fast-flowing rivers
- Common carp: A widespread species introduced to the Jordan River basin
- European eel: A migratory fish that travels between Europe and the Mediterranean Sea, including the Jordan River
- Galilee killifish: An endemic species found only in the Sea of Galilee and its tributaries, including the Jordan River
- Nile tilapia: A tropical species introduced to the Jordan River basin
- Syrian barbel: A freshwater fish native to the Jordan River basin
Amphibians:
- Eastern spadefoot toad: A burrowing species that can survive in arid conditions
- Fire salamander: A brightly colored species found in moist forests and near water bodies, including the Jordan River
- Green toad: A common toad species found in various habitats, including the Jordan River basin
- Marsh frog: A wetland species found in marshes, swamps, and along riverbanks, including the Jordan River
- Tristram's frog: An endangered species endemic to the Jordan River basin
Reptiles:
- Balkan water snake: A non-venomous species found in freshwater habitats, including the Jordan River
- European pond turtle: A semi-aquatic species that inhabits ponds, lakes, and rivers, including the Jordan River
- Jordan River frog: An endemic frog species found in the Jordan River basin
- Levant viper: A venomous species found in various habitats, including near water bodies like the Jordan River
- Palestinian viper: Another venomous species found in the Jordan River basin
Mammals:
- Eurasian beaver: A semi-aquatic species that builds dams and lodges on rivers, including the Jordan River
- Greater white-toothed shrew: A small, insectivorous species found in a variety of habitats, including the Jordan River basin
- Levant vole: A small rodent species found in moist habitats, including near water bodies like the Jordan River
- Otter: A semi-aquatic species that preys on fish and other aquatic animals, found in the Jordan River basin
- Water shrew: A small, aquatic species that feeds on insects and other invertebrates found in the Jordan River