The Israeli military alleges that the aircraft - an Iranian copy of a stealthy Lockheed Martin RQ-170 Sentinel - was armed with explosives and was meant to strike an Israeli village.
However, an Israeli security official seemed to acknowledge the leak was sanctioned, telling Reuters that it provided details about "the IRGC air force (which) the Israeli defence establishment sees as the entity that will try to attack Israel, based on Iranian threats to respond to the strike on T-4".
On Tuesday, to drive home that point, the Israeli government reportedly distributed maps to Israeli news organizations showing five Iranian-controlled bases in Syria.
For his turn, the representative of Iran's Supreme Leader to the Quds Force of the Islamic Revolution Guards Corps, Hojjat ol Eslam Ali Shirazi, warned against the consequences of Israel's "provocative behavior". The action is believed to have been taken in response to an attempt to fly a UAV into northern Israel on 10 February.
Syria blamed the attack on Israel.
Since Syria was gripped by civil war in March 2011, Iran has remained a close ally of the country and supported its legitimate government in the face of foreign-backed militancy at the request of Damascus.
A complete recording of the call is available here. And as the military source also noted, "This is the first time we saw Iran do something against Israel - not by proxy".
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One factor that could work to Israel's advantage is Trump's comfort with the use of force, as he showed in the joint mission with Britain and France to strike Syrian chemical weapon sites Friday, April 13.
The Iranian presence in Syria may pose the most hard and complicated threat to Israel in half a century.
Although nobody would confirm the admission officially, a senior member of the IDF was quoted in the New York Times Monday as stating that Israel did indeed attack a Syrian air base a week ago.
Those fears deepened after Assad's forces recaptured the eastern Ghouta suburbs of Damascus earlier this month after a devastating offensive and the suspected chemical attack. "Allowing Iran to strengthen itself in Syria is like accepting that the Iranians strangle us". He said American, Russian and Jordanian officials engage regularly on the mission to "de-conflict" southern Syria through a monitoring center in Amman.
The question is whether this new period of direct confrontation between the two powers in the Middle East will be a limited one or not.
"This could prompt Iran, if it thought for a moment that it might not retaliate, that it now needs to", said Danny Yatom, a former Mossad director in an interview with Israel Army Radio.
The confusion during the false alarm highlights growing concerns of escalation in the wake of a US -led coalition strike on Syria's chemical weapons infrastructure Saturday and an April 9 strike on an air base Israel is believed to have carried out.