The Israeli military said its aircraft struck several targets in Syria and were back in Israeli-controlled airspace when several anti-aircraft missiles were launched from Syria toward the Israeli jets.
Israel's "Arrow" anti-missile defense system shot down the Syrian missile, making it the first time the system was put to use.
The IDF, in turn, said on Friday that it used the advanced Arrow missile defense system to shoot down a Syrian anti-aircraft missile that was sacked at an Israeli jet. Several anti-aircraft missiles were launched from Syria following the mission and the Israeli aerial defence systems intercepted one of the missiles.
Our main problem is with the transfer of advanced weapons from Syria to Lebanon. "There will be no compromise on this issue", he added.
Rima Khalaf, the executive secretary of the United Nations Economic and Social Commission for Western Asia (ESCWA), resigned from the UN post after refusing to withdraw a report that concludes "Israel has established an apartheid regime that dominates the Palestinian people as a whole".
An airstrike near Palmyra would be one of the deepest inside Syria since the beginning of the fighting.
Meanwhile, Israel's Ambassador to Russia Gary Koren was summoned on Friday for a meeting with Russia's Deputy Foreign Minister, a day after presenting his credentials to Russian president Vladimir Putin.
The two countries established coordination a year ago to avoid conflicts in Syrian airspace, ostensibly to allow both countries to operate freely. Several moments later, two loud explosions were heard in Jerusalem.
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The Britain-based Syrian Observatory for Human Rights claimed that Israeli aircraft struck a truck driving near the town of Khan Arnabeh in the Quneitra province, on the road to Damascus.
It was another acknowledgment of Israel's ongoing operations in Syria.
"The Syrians must understand that they are held responsible for these arms transfers to Hezbollah and that if they continue to allow them then we will do what we have to do".
"We are a sovereign country that acts to protect our security interests". "Everybody must take that into account - everybody".
The incident is the most significant military squabble between the Syria and Israel since the Syrian civil war started in March 2011. The United States, Israel, and the Arab League consider Hezbollah a terrorist organization while the European Union classifies Hezbollah's military wing as a terrorist group.
Israeli Channel 10 TV reported that Israel deployed its Arrow defense system for the first time against a real threat and hit an incoming missile, intercepting it before it exploded in Israel. In 2014, the Syrian government and an opposition group both said an IDF strike had hit Damascus' suburbs and airport.
On Friday, Israeli Intelligence and Atomic Energy Minister Yisrael Katz confirmed the attacks saying that it targeted a convoy which was supposedly carrying weapons to the Shiite Hezbollah movement.