Published 14/08/2016 at 20:54 GMT | Updated 15/08/2016 at 07:10 GMT
The world champion won the first two of the three-race head-to-head against the 23-year-old who helped him clinch a team gold in the team sprint, alongside Phillip Hindes.
Britain's Jason Kenny holds up a flag in the stands as he celebrates winning gold in the Men's Sprint final track cycling event at the Velodrome during the Rio 2016 Olympic Games in Rio de Janeiro on August 14, 2016.
Image credit: AFP
Kenny and Skinner have been sharing a room in the Olympic Village but when it came to the races the 28-year-old had no room for sentiment and put his younger rival firmly in his place.
Though Skinner said the two had kept it light hearted in the run up to the event.
"I kept telling him how strong I was and he kept telling me how good he felt," said Skinner. "But he kept telling me how strong he was. You can't help but laugh while you're saying it so it's all in good fun."
"I wouldn't say it's harder being beaten by a team mate," Skinner said. "Jason 100 per cent deserved that, he was better tactically and in the legs.
Speaking about his preparation for the event, Kenny said he pretended he was racing against himself.
"I race as if I'm racing myself and if I couldn't have beaten myself then I didn't really do it right," the 28-year-old told reporters after a dominant victory over the man he has been sharing digs with at the Olympic village.
"It's good for the team," Kenny said of the rivalry between himself and Skinner. "In the past we have been kind of hanging on and it's been grim to be in the team. We need each other
"Now Callum has made that final step up and we have a really strong younger team coming through as well and we can be more consistently competitive at the world championships."
It is Kenny's fifth Olympic gold, following his two team sprint titles in Beijing and London and the individual sprint also in 2012. He now has as many golds as Sir Steve Redgrave and Sir Bradley Wiggins and is one behind fellow cyclist Sir Chris Hoy.
"A Great Britain one-two is amazing," said Hoy on the BBC. "Jason had so much in the tank, he had phenomenal power."
Russia’s Denis Dmitriev – beaten by Kenny the night before in the semi-final – took bronze.
Jason Kenny (GBR) of Britain and Callum Skinner (GBR) of Britain compete. REUTERS/Matthew Childs