Squamata Oppel, 1811

Serpentes Linnaeus, 1758

Typhlopidae Merrem, 1820

Ramphotyphlops Fitzinger, 1843
Ramphotyphlops braminus (Daudin, 1803)

Colubridae Oppel, 1811

Cyclophiops Boulenger, 1888
Cyclophiops herminae (Boulenger, 1895)
Cyclophiops semicarinatus (Hallowell, 1861)

Lycodon Boie, 1827
Lycodon ruhstrati (Fischer, 1886)
Lycodon ruhstrati multifasciatus (Maki, 1931)

Opisthotropis Gunther,, 1872
Opisthotropis kikuzatoi (Okada et Takara, 1958)

Pareas Wagler, 1830
Pareas iwasakii (Maki, 1937)

Euprepiophis Fitzinger, 1843
Euprepiophis conspicillatus (Boie, 1826)

Achalinus Peters, 1869
Achalinus werneri  (Denburgh, 1912)
Achalinus formosanus (Boulenger, 1908)
Achalinus formosanus chigirai (Ota et Toyama, 1989)
Achalinus spinalis (Peters, 1869)

Elaphe Fitzinger, 1833
Elaphe climacophora (Boie, 1826)
Elaphe quadrivirgata (Boie, 1826)
Elaphe taeniura (Cope, 1861)
Elaphe taeniura schmackeri (Boettger, 1895)
Elaphe taeniura friesei (Werner, 1926)
Elaphe carinata (Gunther, 1864)
Elaphe carinata carinata (Gunther, 1864)
Elaphe carinata yonaguniensis (Takara, 1962)

Amphiesma Dumeril, Bibron et Dumeril, 1854
Amphiesma pryeri (Boulenger, 1887)
Amphiesma vibakari (Boie, 1826)
Amphiesma vibakari danjoense (Toriba, 1986)
Amphiesma vibakari vibakari (Boie, 1826)
Amphiesma concelarum (Malnate, 1963)
Amphiesma ishigakiense (Malnate et Munsterman, 1960)

Calamaria H. Boie in F. Boie, 1827
Calamaria pavimentata (Dumeril, Bibron et Dumeril, 1854)
Calamaria pavimentata miyarai (Takara, 1962)
Calamaria pfefferi (Stejneger, 1901)

Dinodon Dumeril, Bibron et Dumeril, 1854
Dinodon semicarinatum (Cope, 1860)
Dinodon rufozonatum (Cantor, 1842)
Dinodon rufozonatum rufozonatum (Cantor, 1842)
Dinodon rufozonatum walli (Stejneger, 1907)
Dinodon orientale (Hilgendorf, 1880)

Rhabdophis Fitzinger, 1843
Rhabdophis tigrinus (Boie, 1826)
Rhabdophis tigrinus tigrinus (Boie, 1826)

Elapidae Boie, 1827

Elapinae Boie, 1827

Sinomicrurus Slowinski, Boundy et Lawson, 2001
Sinomicrurus japonicus (Gunther, 1868)
Sinomicrurus japonicus takarai (Ota, Ito et Lin, 1999)
Sinomicrurus japonicus boettgeri (Fritze, 1894)
Sinomicrurus japonicus japonicus (Gunther, 1869)
Sinomicrurus macclellandi (Reinhardt, 1844)
Sinomicrurus macclellandi iwasakii (Maki, 1935)

Hydrophiinae Fitzinger, 1843

Hydrophis Latreille, 1802
Hydrophis melanocephalus (Gray, 1849)
Hydrophis ornatus (Gray, 1842)
Hydrophis ornatus maresinensis (Mittleman, 1947)
Hydrophis cyanocinctus (Daudin, 1803)

Laticauda Laurenti, 1768
Laticauda colubrina (Schneider, 1799)
Laticauda semifasciata (Reinwardt, 1837)
Laticauda laticaudata (Linnaeus, 1758)

Emydocephalus  Krefft, 1879
Emydocephalus ijimae (Stejneger, 1898)

Pelamis Daudin, 1803
Pelamis platura (Linnaeus, 1766)

Lapemis Gray, 1835
Lapemis curtus (Shaw, 1802)

Viperidae Laurenti, 1768

Crotalinae Oppel, 1811

Protobothrops Hoge et Romano-Hoge, 1983
Protobothrops elegans (Gray, 1849)
Protobothrops mucrosquamatus (Cantor, 1839)
Protobothrops tokarensis (Nagai, 1928)
Protobothrops flavoviridis (Hallowell, 1861)

Gloydius Hoge et Romano-Hoge, 1981
Gloydius tsushimaensis (Isogawa, Moriya et Mitsui, 1994)
Gloydius blomhoffii (Boie, 1826) 

Ovophis Burger in Hoge et Romano-Hoge, 1981
Ovophis okinavensis (Boulenger, 1892)