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The brain contains pace-keeper cells. These give the "tick-tock" to the brain's natural built in clock. I would have to assume consciousness is wired into this natural clock, allowing consciousness a reference by which we perceive other measures of time.

 

As an analogy, one might use a metronome to help with their timing while learning to play piano. Eventually, one starts to coordinate with the metronome until that timing becomes a natural reference. In the case of consciousness, the pacer cells are the living metronome, with alignment done at an unconscious level.

 

Since the unconscious is not fully conscious, our consciousness senses the gap in time with the inner metronome (unconscious gaps).

 

This is like listening to the metronome, while learning to play piano, through head phones. The head phones are switch on (conscious) and off (unconscious on). One can still get the gist of the pace, but there is also a discontinuity where one needs to extrapolate at an unconscious intuitive level. This adds the human mystique to time.

 

http://www.hhmi.org/news/siegelbaum.html

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