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There are 136 referenced airports for this country:
| Name | ICAO Code | IATA Code |
| Aguni | RORA | AGJ |
| Akeno | RJOE | |
| Akita | RJSK | AXT |
| Amakusa | RJDA | |
| Amami | RJKA | ASJ |
| Aomori | RJSA | AOJ |
| Asahikawa | RJEC | AKJ |
| Asahikawa | RJCA | |
| Ashiya | RJFA | |
| Atsugi | RJTA | |
| Chichijima | RJAO | |
| Chitose | RJCC | CTS |
| Chitose | RJCJ | SPK |
| Chofu | RJTF | |
| Chubu Centrair International Airport | RJNN | NGO |
| Name | ICAO Code | IATA Code |
| Fuchu | RJTZ | |
| Fukue | RJFE | FUJ |
| Fukui | RJNF | |
| Fukuoka | RJFF | FUK |
| Fukushima | RJSF | |
| Futema | ROTM | |
| Gifu | RJNG | |
| Hachijojima | RJTH | HAC |
| Hachinohe | RJSH | |
| Hakodate | RJCH | HKD |
| Hamamatsu | RJNH | |
| Hanamaki | RJSI | HNA |
| Hateruma | RORH | HTR |
| Hiroshima | RJOA | HIJ |
| Hiroshimanishi | RJBH | |
| Name | ICAO Code | IATA Code |
| Hofu | RJOF | |
| Hyakuri | RJAH | |
| Ichigaya | RJAI | |
| Iejima | RORE | |
| Iki | RJDB | IKI |
| Iruma | RJTJ | |
| Ishigaki Jima | ROIG | ISG |
| Iwakuni | RJOI | |
| Iwami | RJOW | |
| Iwo Jima Is. | RJAW | IWO |
| Izumo | RJOC | IZO |
| Kadena | RODN | DNA |
| Kagoshima | RJFK | KOJ |
| Kamigoto | RJDK | |
| Kanoya | RJFY | |
| Name | ICAO Code | IATA Code |
| Kansai | RJBB | |
| Kasumigaura | RJAK | |
| Kasuminome | RJSU | |
| Kerama | ROKR | |
| Kikai Kikaigashima Is | RJKI | |
| Kisarazu | RJTK | |
| Kitadaito | RORK | KTD |
| Kitakyushi | RJFR | KKJ |
| Kobe | RJBE | UKB |
| Kochi | RJOK | KCZ |
| Kohnan | RJBK | |
| Komatsu | RJNK | KMQ |
| Komatsujima | RJOP | KMQ |
| Kozushima | RJAZ | |
| Kumamoto | RJFT | KMJ |
| Name | ICAO Code | IATA Code |
| Kumejima | ROKJ | UEO |
| Kushiro | RJCK | |
| Kushiro Kenebetsu | RJCS | KUH |
| Matsumoto | RJAF | MMJ |
| Matsushima | RJST | |
| Matsuyama | RJOM | MYJ |
| Memanbetsu | RJCM | MMB |
| Metabaru | RJDM | |
| Miho | RJOH | YGJ |
| Minamidaito Jima | ROMD | MMD |
| Minamitorishima | RJAM | |
| Misawa | RJSM | MSJ |
| Miyakejima | RJTQ | MMY |
| Miyako | ROMY | MMY |
| Miyazaki | RJFM | KMI |
| Name | ICAO Code | IATA Code |
| Monbetsu | RJEB | MBE |
| Muroran Yakumo | RJCY | |
| Nagasaki | RJFU | NGS |
| Naha | ROAH | OKA |
| Nakashibetsu | RJCN | SHB |
| Nanki Shirahama | RJBD | SHM |
| Niigata | RJSN | |
| Nijima | RJAN | KIJ |
| Nyutabaru | RJFN | |
| Obihiro | RJCB | OBO |
| Odate Noshiro | RJSR | |
| Oita | RJFO | OIT |
| Ojika | RJDO | |
| Okayama | RJOB | OKJ |
| Oki | RJNO | OKI |
| Name | ICAO Code | IATA Code |
| Okierabu | RJKB | |
| Okushiri | RJEO | OIR |
| Ominato | RJSO | |
| Osaka | RJOO | ITM |
| Osaka Yao | RJOY | |
| Oshima | RJTO | OIM |
| Ozuki | RJOZ | |
| Rebun | RJCR | RBJ |
| Rishiri Is | RJER | RIS |
| Sado | RJSD | |
| Saga | RJFS | |
| Sapporo Okadama | RJCO | SPK |
| Sasebo | RJFW | |
| Sendai | RJSS | SDJ |
| Shimofusa | RJTL | |
| Name | ICAO Code | IATA Code |
| Shimojishima | RORS | SHI |
| Shonai | RJSY | |
| Tachikawa | RJTC | |
| Tajima | RJBT | |
| Takamatsu | RJOT | TAK |
| Takigahara | RJAT | |
| Tanegashima | RJFG | TNE |
| Tarama | RORT | |
| Tateyama | RJTE | |
| Tokachi | RJCT | |
| Tokunoshima | RJKN | TKN |
| Tokushima | RJOS | TKS |
| Tokyo | RJTI | |
| Tokyo Haneda | RJTT | HND |
| Tokyo Narita | RJAA | NRT |
| Name | ICAO Code | IATA Code |
| Tottori | RJOR | TTJ |
| Toyama | RJNT | TOY |
| Tsuiki | RJFZ | |
| Tsushima | RJDT | TSJ |
| Utsunomiya | RJTU | |
| Wakkanai | RJCW | WKJ |
| Yaizu Shizuhama | RJNY | |
| Yakushima | RJFC | KUM |
| Yamagata | RJSC | GAJ |
| Yamaguche Ube | RJDC | UBJ |
| Yokota | RJTY | OKO |
| Yomitan | ROKW | |
| Yonaguni Jima | ROYN | OGN |
| Yorun | RORY | RNJ |
| Zama | RJTW | |
| Name | ICAO Code | IATA Code |
| Zama Kastner | RJTR |
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