
The flight was operated by Swift airline on behalf of DHL and had taken off from Leipzig, Germany, before the plane crashed around 0330 GMT, a spokesman for the governmental national crisis management centre said. All of the people in the house survived, he added.
An airport spokesman said the plane was a Boeing 737-400.
Police told a press conference that 12 people had been evacuated from the house hit by the plane.
Rescue services said the plane hit the ground and slid at least 100m before crashing into the building.
The head of national crisis management centre said the cause of the crash was being investigated.
Firefighters were seen at 0530 GMT pouring water onto a smoking building some 1.3km north of the airport runway in the Lithuanian capital. A large police and ambulance presence was seen nearby and several major streets were cordoned off.
The flight had departed from Leipzig at 0208 GMT, Flightradar24 said on X.