Aguero said the team were aware of the United situation.
The 23-year-old said: "I knew when we were on the pitch because I heard the fans cheering - it was then I realised it must have been a goal for Wigan.
"The truth is it was a good game, I am happy for the win and the goals. We have to continue like this, we were really good."
Aguero has enjoyed a fine first season at City since his £38million club record move from Atletico Madrid and has repeatedly rubbished speculation about his future.
He said: "I am happy with my goals and I hope to continue scoring more.
"But the important thing is my goals mean we win - that's what's important."