JPY 2.5 billion belong to the customers of the exchange, while the rest were stolen directly from the BITpointJapan.
Customer funds worth 2.5 billion yen have been stolen by hackers during the attack.
Coincheck's $530 million loss remains the industry's record-breaking crypto-exchange hack, but the $40 million theft in bitcoins from world-leading exchange Binance in May served as a dramatic reminder that even those exchanges with hitherto lofty standards of security remain vulnerable.
As of yet, the company says it is not aware of any funds taken from cold wallets.
BITPoint Japan handles various virtual currencies, including bitcoin, ethereum and ripple. The agency believed that the cryptocurrency exchange had poor internal controls, and wanted Bitpoint and a few other exchanges to ensure the enforcement of proper measures to protect users.
Once the hack was detected, Bitpoint put web transactions on hold early this morning before stopping all services at 10:30 am.
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