The "Sholay" writer, 80, said whatever his son commented was wrong.
"Undoubtedly what Salman said is wrong, the simile, example and the context. The intention was not wrong.
Nevertheless, I apologise on behalf of his family his fans & his friends. Forgiveness is to pardon the unpardonable or it is no virtue at all," Salim posted on Twitter.
Salman, 50, had to undergo rigorous training for the wrestling drama and in his interview to an online Entertainment portal he said that after shooting a scene, he used to feel like a "raped woman".
The superstar's comment did not go down well with many, who took to Twitter to express their angst and slammed Salman.
Salim, however, said rather than focusing on his son's mistake people should celebrate International Yoga Day.
"To err is human to forgive divine. Today on Intl yoga day lets not run our shops on this mistake."