One was located in Damascus's worldwide airport, the other was nearby at the al-Mazzeh airport just outside the capital.
On Tuesday, the Israeli military said it intercepted four incoming rockets from Syria. That Iranian launch followed a rare Israeli daylight air raid near the Damascus International Airport. Damage to the building was deliberately limited and it was not completely destroyed.
In Moscow, Russian Deputy Foreign Minister Mikhail Bogdanov said the Israeli strikes in Syria contravened global law and escalate tensions. We conducted an expedited battle procedure, along with a series of air force strikes we carried out tonight.
Tuesday's rocket fire on the Golan was the sixth attempt by Iran to attack Israeli targets since February 2018, and all have been thwarted, Conricus said.
IDF forces took swift action to neutralize the threat. It said three people were injured as a result of the Israeli counter-attack.
A video purporting to show the aftermath of the attack has emerged on social media.
The hundreds of strikes carried out by Israel in Syria have mostly been against Iranian targets or positions of Iran's Lebanese ally, Shiite militant group Hezbollah.
The Observatory earlier reported that 11 people were killed, including seven foreigners.
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"Our air defence confronted the heavy attack and intercepted the hostile missiles, and was able to destroy a lot of them before reaching their targets", Syria's SANA news agency quoted a military source as saying. The report also said several others were wounded in the airstrikes near the capital, Damascus.
It claimed that Syrian air defences destroyed most of the Israeli missiles before they reached their targets.
The strikes further burst into the open what's been a long shadow war between Israel and its archenemy Iran.
Russian Deputy Foreign Minister Mikhail Bogdanov said the air strikes were a wrong move, and Moscow had contacted its allies about the incident, Interfax reported. The strikes, which began at around 1:20 a.m., targeted missile launchers, command centers, bases and weapons warehouses, according to the IDF.
Israel has repeatedly said that it will not accept Iranian military entrenchment in Syria and that it will retaliate for any attack on the Jewish state from Syria.
Israel has carried out frequent air and missile strikes against Iranian targets inside Syria since the country descended into civil war in 2011, but rarely comments on them. Israel sometimes launches its attacks on Syria from planes flying over neighbouring Lebanon.
The four rockets were fired from Syria early on Tuesday hours after Secretary of State Mike Pompeo's announcement on Monday that the us government will ease its stance on Israeli settlements in the West Bank, essentially undermining Palestinian claims regarding land sought for a future state.
"Our message to the leaders of Iranian is simple: You are not immune anymore".