The man was intercepted on his way to the ISIS-held Syrian town of Jarablus and is now in custody. The official said he had a Japanese passport on him and told interrogators that he wanted to join ISIS.
Read more from our special coverage on "ISIS"
The official spoke on condition of anonymity in line with government practice.
Japanese officials in Tokyo confirmed today that a Japanese national is being held and said they are seeking further details.
The state-run Anadolu Agency said the man is 24 and has the initials M.M. It said he contacted the group over social media.
Separately, five foreigners were arrested near the border as they tried to cross into Syria, according to a security source cited by Anadolu.
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