"The assumption is that it was not a stray," she said, although there was no immediate report of Israeli retaliation.
An Israeli Arab teenager was killed on the border last month by what may have been a rocket, mortar fire or an explosive device, prompting Israel to carry out retaliatory air raids on Syrian army positions.
Today's incident was the first of its kind from Syrian territory since Israel on Tuesday launched a fierce air campaign on Gaza with the stated aim of stemming a rising tide of rocket fire by Palestinian militants.
Military officials said they believed the attacks were carried out by a small Palestinian group in an act of solidarity with Gazan militants.