Transportation

International Airport Access
Narita Airport (Tokyo)
Access to Narita International Airport
Kansai Airport (Osaka)
Access to Kansai International Airport
Central Japan Airport (Nagoya)
Access to Central Japan International Airport

Domestic Air Flight
Japan Airlines (JAL)
JAL Network
All Nippon Airways (ANA)
ANA Network

Railway Services
Railways
Trains
Japan Rail Pass
Subway
Digital timetable & course and fare search

Automobiles
Bus
Taxi
Car Rental
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Discount Tickets
Railways
Railways & Buses
Domestic Air Service
Passenger Boats
Buses & Taxis

information from http://www.jnto.go.jp/eng/arrange/transportation/index.html