The Mexico international has been linked with Real as he battles to nail down a regular first team start this season.
Eduardo Hernandez, speaking with ESPN Radio Formula, declared: "Javier is focused only on his football. So we just ignore the transfer rumours.
"He has always been at a good level, but I must say it is a very competitive situation and the toughest Javier has ever faced.
"I think this is not the right time to exit. Both he and Manchester want to continue working together."