The Syrian regime's defense ministry claimed in a statement that it shot down two Israeli military aircraft on Tuesday after a regime held position in the country's south was allegedly attacked.

"Our air defences blocked the attack and shot down the military aircraft in (the southern province of) Quneitra and a drone" in the province of Damascus, said the statement carried by state news agency SANA.

Israel's military denied the Syrian regime's claim that two Israeli military aircraft were shot down.

"Overnight two surface-to-air missiles were launched from Syria after the (Israeli) mission overnight to target Syrian artillery positions," military spokesman Arye Shalicar said.

"At no point was the safety of (Israeli) aircraft compromised. Nothing true about what they claim," Shalicar added.

An Israeli military spokeswoman said that Monday's projectile was most likely not intentional, rather spillover from "internal fighting in Syria."

It was the fourth such incident in nine days, and came as a new Syrian ceasefire brokered by Russia and the United States came into force on Monday.

The initial 48-hour truce does not apply to areas held by the Daesh terror group.

Israeli warplanes have conducted several air raids on Assad regime positions over the past weeks after stray shells hit the Israeli-occupied area.

Syria and Israel have been at a state of war for decades. Israel captured the Golan Heights from Syria in the 1967 Mideast war.