I discovered at an early age that I could "will" myself to wake up at a desired time. It's certainly not perfect, but my accuracy is way better than chance.
Living things have all sorts of biological clocks, so this isn't really magic. Rather, it might be a bit surprising that we have some conscious control over it.
Yeah, I'm pretty much sure OP is unnecessarily complicating things. It I am getting up like 5 minutes before the alarm every time I know I really need to get up at that specific time (because I know something more important than just dragging my ass to the fucking office needs to happen this time), well, that means I somehow know subconsciously really well what's the time is. Because either I'm living in my sleep ever since, or I actually got up, turned off the alarm clock so it won't bother me, got dressed and went on with my day. Not just lied there fooling myself I'm awake before I actually got awake.
But even if your brain is measuring time operating at a precision of "around five minutes before," the variance will sometimes cause that to be 3 seconds before.
Living things have all sorts of biological clocks, so this isn't really magic. Rather, it might be a bit surprising that we have some conscious control over it.