Syrian forces in turn responded with what the Israeli military called "substantial Syrian antiaircraft fire", which appears to have caused the crash of an Israeli fighter jet after its two-member crew ejected.
Israel's Ambassador Danny Danon called on the Security Council "to condemn this unsafe act and to put an immediate end to Iranian provocations".
Both pilots aboard the Israeli jet are safe, the Israeli army said, although one pilot was severely injured as a result of an emergency evacuation from the plane.
The Britain-based Observatory, which monitors the Syria war through a network of activists on the ground, says the second round targeted outposts in the southwestern suburbs of Damascus.
Danny Danon, Israel's ambassador to the United Nations, urged the UN Security Council to condemn Iran's actions and halt its "provocations".
Separately, a Revolutionary Guards' official said he could not confirm the report because Israelis were "liars".
Israel launched the air strikes after anti-aircraft fire downed an Israeli F-16 warplane returning from a bombing raid on Iran-backed positions in Syria on Saturday.
The Israeli military released grainy black and white footage of what it said was the drone's control vehicle in Syria being destroyed.
"The government and army of Syria as an independent country have a legitimate right to defend (the country's) territorial integrity and counter any type of foreign aggression".
Watch 1218 drones form the Olympic rings during Opening Ceremony
An army of high-flying drones expected to light up the sky at the opening ceremony of the Olympics was grounded. What an incredible way to display just how far drone technology has come in the last few years.
Check out the latest pics from Auto Expo 2018
These products will also be relevant to India , with a majority of them positioned in the affordable segment, previews suggest. The all-new MINI Countryman was unveiled at the Auto Expo and would be locally produced at the BMW Group plant in Chennai .
Late Miles Bridges 3 sends Michigan State to win over Purdue
As a whole, the Boilermakers shot just 40.6 percent (26-for-64) from the field and 6-for-19 (31.6 percent) from behind the arc. That pair - Jallow hadn't scored in nine games - combined for 23 points and six 3-pointers against the Boilermakers .
"Iran's calculated escalation of threat and its ambition to project its power and dominance, places all the people of the region - from Yemen to Lebanon - at risk", spokeswoman Heather Nauert said in a statement. "We share the concerns of many throughout the region that Iran's destabilizing activities that threaten global peace and security, and we seek greater worldwide resolve in countering Iran's malign activities", Rankine-Galloway said. "This morning Iran brazenly violated Israel's sovereignty", he said. Salami added: "We have no military presence in Syria".
Israel struck 12 targets in Syria, including four Iranian targets, in a "large-scale attack" after the drone infiltration, the Israel Defense Forces said.
Conricus declined to give details on the drone's presumed mission or whether it was armed. The Israeli raids came after it intercepted an Iranian drone entering its airspace.
Israeli aircraft have been operating relatively freely in Syria and Lebanon since the 1980s despite encountering largely ineffective anti-aircraft fire.
Amid the cross-border escalation, one of Israel's F-16 was downed by Syrian air-defense systems.
The Israeli air force launched a further series of strikes targeting what it said were Iranian and Syrian military targets in Syria. "The IDF is ready and capable to inflict a heavy price on anyone that attacks us".
"Security Council members must not stand idly by while Iran is instigating unsafe escalations and violating Security Council resolutions", he said.
Hezbollah said on Saturday the "brave confrontation of the aggressing Israeli planes", including downing an F-16, ushers in a "new strategic phase" that puts an end to the violation of Syrian airspace and territories.
Low-intensity conflict, in which they use Shi'ite militiamen attacking from the Syrian side of the Golan Heights, "is much better for them than full scale war", Litvak said.
The Israeli military declined to comment. Until this weekend, counterstrikes by Syria and Hezbollah against Israel had caused little damage.