-South Korea signaled plans on Monday to remove Japan from a list of countries with fast-track trade status from September, citing problems with export control measures.
Japanese Industry Minister Hiroshige Seko said on Tuesday that Seoul had failed to show how Japan had purportedly fallen short of international export control measures.
"From the start, it is totally unclear under what basis South Korea can say that Japan's export control measures don't meet the export control regime," Seko said on Twitter.
The tighter trade regulations, including potential lengthy permit application processes, will apply to South Korean exports to Japan.
Japan announced earlier this month that it was removing South Korea from its own "white list" of countries that have enjoyed minimum trade restrictions, citing an erosion of trust.
"The Japanese government made a decision to exclude South Korea from white-listed countries, following export restrictions," South Korean President Moon Jae-in said on Tuesday, without mentioning South Korea's own measures.
"It is disappointing and regrettable in light of the two countries' shared efforts for friendship and cooperation," Moon said at a lunch for activists who fought for independence during the 1910-1945 Japanese occupation of the Korean peninsula.
South Korea would continue trying to resolve the issue diplomatically, he said.
Relations between the two countries have deteriorated since a ruling by South Korea's Supreme Court last year that Japanese companies should compensate South Koreans who were conscripted as forced laborers during World War Two.