Police, backed by helicopters and special forces, also launched overnight raids on more than 100 suspected IS and Kurdish militant locations in Istanbul, according to media reports. Some 5,000 officers were deployed in the operation.
Three F-16 fighter jets took off from a base in Diyarbakir, southeast Turkey, in the early morning and hit two IS headquarters and one "assembly point" before returning, the prime minister's office said in a statement.
Read: Turkey agrees to open bases to US for bombing IS: US official
"Turkish fighter jets didn't cross the Syrian border during the operation," said one official, adding that the attacks had taken place in an area of Syria, across the border from the Turkish town of Kilis.
A cross-border firefight on Thursday in the same area between the Turkish army and IS left one militant and one soldier dead.
Broadcasters CNN Turk and NTV reported that anti-terror police raided more than 100 locations across Istanbul.
A press officer for the Istanbul police declined to comment.
Read: Suicide bomber kills 31 in Turkey attack blamed on Islamic State
The prime minister's office said on Thursday that Turkey will take any necessary measures to protect public order and national security following attacks by IS and Kurdish militants.
It has been hit by a wave of violence in the largely Kurdish southeast after a suspected IS suicide bombing killed 32 people, many of them Kurds, in a town on the Syrian border.
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