Is it condescending to say you're welcome?

Is it truly appropriate to use the phrase "you're welcome" in a manner that might be perceived as condescending? Isn't the essence of this phrase meant to be a gracious acknowledgment of a kindness or favor? When we respond with "you're welcome," shouldn't our tone and body language convey sincerity and gratitude, rather than a sense of superiority or dismissiveness? How can we ensure that our words and actions reflect a genuine appreciation for the goodwill shown towards us, rather than coming across as dismissive or patronizing?