Syrian state media reported they'd fired on several enemy projectiles, and that Israeli airstrikes had "failed to achieve any of its objectives".
Israeli press reports meanwhile highlighted that an Iranian plane flew from Tehran to Beirut, allegedly carrying weapons for Hezbollah.
The attacks were reported after Israel reported a single incident of Syrian fire landing in the Israeli-occupied Golan.
The Syrian armed forces shot down "aggressive opponent targets" southern of Damascus on Thursday evening, according to records by state media.
"Reports regarding an [Israeli army] aircraft or an airborne [army] target having been hit are false", it said in an English-language statement.
Israel has carried out hundreds of air strikes in neighboring Syria against what it says are Iranian targets.
"Israel has targeted this area because the Syrian army barracks there have become a recruiting ground for Hezbollah and their militias to deploy in Quneitra", Said Seif told Reuters.
The Israeli military had made no comment on the reported strikes during which Syrian air defenses opened fire for the first time since the deadly downing of a Russian transport plane in September, the Syrian Observatory for Human Rights said.
Israel and the USA have even put pressure on Russian Federation, another close ally of Syrian President Bashar al-Assad in the war against terrorist groups, to chase Iran out of Syria.
He added that Israel would "continue security coordination" with Russian Federation.
After the September attack, during which 15 Russian servicemen were killed, Russia and the Syrian government blamed Israel for the crash, and Moscow was quick to equip Damascus with the advanced S-300 air defence system.
There was no evidence however that the S-300 batteries were used to intercept Israeli missiles overnight.