The deal, which is mediated by Russian Federation, will start with a cease-firem, while the rebels in Daraa will hand over their heavy and medium weapons to the Syrian army, said SANA.
Under the agreement, Syrian forces will not be allowed to remain in the area re-taken by the government, sources told Al Jazeera.
Fighters who wish to remain in the province will be assured by Russian Federation that the government will not target them, especially those wanted for military service.
Still, there is little information about the tens of thousands of others who headed to the frontier with the Israeli-occupied Golan Heights in search of safety.
State television footage showed government tanks rolling toward the border crossing, which the rebels seized from Syrian forces in April 2015.
Israel's military says it has struck a Syrian target after a shell launched from there landed inside the buffer zone at the border.
Syrian regime forces took up positions and raised flags at the Nasib border crossing with Jordan on Saturday after the opposition forces agreed to hand over the post as part of a Russian-brokered deal.
The United Nations says the assault, which began on June 19, has pushed more than 320,000 people to flee, but SANA said the deal would see them return to their homes.
US forces have backed rebels fighting Assad's government during the civil war.
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If anyone is to blame, it is those who orchestrated the recent agreements on Daraa, where they sought to end the fighting and hand over the southern areas without considering the consequences it will have on the people and without finding a solution to the millions who are expected to flee the war this summer.
Rebels who did not wish to return under Mr Assad's rule would leave for the insurgent stronghold in north-west Syria, they said.
"The Syrian regime alone can guarantee security in the south, and it has the power to do so by regaining control", commented Russian Foreign Minister Sergei Lavrov.
Most of the hospitals had shut down amid the destruction in insurgent territory, which now barely had access to water or electricity, he said.
The UN humanitarian coordinator in Jordan, Anders Pederson, said most of the displaced along the Jordanian border had headed back inside Syria.
The rebels in southern Syria once received significant backing and support from the US that has receded and all but dried up over the past few years.
The Norwegian Refugee Council has called it the largest displacement of Syria's seven-year war.