According to the UK-based Syrian Observatory for Human Rights, a civil war watchdog, Iranian troops and non-Syrian pro-Iranian forces were the strike's intended targets.
The Israeli military declined to comment on the reported attack.
Israeli officials have repeatedly said they would not allow Iran to maintain a long-term military presence in Syria. Reports later surfaced that advanced Iranian Air defenses had been the target of the strike.
Syrian state outlets published a video of a flash in the dark sky, claiming it showed the air defences responding to the bombardment.
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Unconfirmed reports said that the jets flew in via Jordan and passed over the al-Tanf area where the United States has a military base and Al Jazeera reported that between four to six missile struck the base causing material damage.
"The Zionist regime tries to gain dominance over Syria after Daesh, but resistance forces and military advisers from the Islamic Republic of Iran will continue their presence alongside Syria to counter terrorism, " he added.
Moscow, Tehran and Damascus accused Israel of carrying out those raids.
The Syrian air defences have hit an Israeli warplane during an airstrike by Israel on Syria's T-4 Air base, the Syrian Army said. The Syrian government has on multiple occasions slammed the Israeli regimes aggression actions and also warned about the "dangerous repercussions" of Israeli assaults on its territories.
The two countries are technically still at war.
Prior to the strike on Sunday, Israeli Prime Minister Benjamin Netanyahu again demanded that Iran retreat from Syria, a position he will pursue when he meets with Russian President Vladimir Putin this week.