The drinking vessel - which bears her lipstick and an autograph and the phrase "We pray for Japan" - was used by the `Marry the Night` hitmaker at a press conference in Japan three months after an earthquake and tsunami hit the country in March 2011.
A total of 1,300 bids were received in the weeklong auction, which finished on 06.05.12.
All the money raised will be used to help young artists in Japan who want to study in the US.
The teacup was among a number of items being sold at the auction, with a crystal piano used by Japanese rock star Yoshiki earning the highest bid at £85,000.
Gaga herself is currently on her way to Japan on the latest leg of her `Born This Way Ball` tour, tweeting: "On my way to TOKYO!!! I`m so excited I`m gonna sit by the pilot on the planes and ask him to go faster!! *are we there yet* :))(sic)"
Last year, Gaga raised $250,000 for earthquake victims in Japan by designing a wristband.
The `Born This Way` singer urged her twitter followers to buy the $5 red and white accessory - which reads "We pray for Japan" in both English and Japanese - before telling her fans, whom she refers to as her `Monsters`, that they had already accumulated the large sum.
She tweeted: "Monsters: in just 48 hrs you`ve raised a quarter of a million dollars for Japan Relief. It`s important we help. X (sic)"