¿Qué horas son? is an alternative for the standard ¿Qué hora es?. Both mean "What time is it?". The Diccionario Panhispánico de Dudas says the plural form is "allowed but less advisable" (as reported by Fundéu) and that it's rather common in some parts of Latin America.
Myself, I use both ¿qué hora es? and ¿qué horas son? indifferently. My wife, who I've just queried about the matter, says she used to say ¿qué horas son? but then started to say it in the singular because the plural version sounded "uneducated", but cannot tell how exactly she got that idea into her head. (Actually she still says ¿qué horas son? sometimes.)
The plural question is also used exclusively in idiomatic expressions indicating disapproval, typically like this:
¿Qué horas son éstas de llegar?
or moving things around a bit,
¿Qué horas de llegar son éstas?
The literal meaning of this is "What times for coming home are these?", but the intended meaning is more or less "Do you think you can come home so late!?".
I think the song you're quoting is actually by Manu Chao and it's called Me gustas tú.