in one's bones

Meanings

1. (of a feeling, belief, etc.) Derived from instinct, intuition, or an ingrained inclination.
2. Used other than figuratively or idiomatically: see in, one's, bones: especially, referring to rheumatic aches sensitive to atmospheric pressure, temperature, and humidity.

Etymology

The figurative sense has a linguistic life of its own as a metaphor comparable with others such as at the heart of it all, but it is also related to the literal theme that people with rheumatism can feel weather changes in their bones and joints.