misgiving vs uncertainty

misgiving and uncertainty both are nouns.

Word	Noun	Adjective	Verb	Adverb
misgiving	Yes	No	No	No
uncertainty	Yes	No	No	No

As nouns, uncertainty is a hypernym of misgiving; that is, uncertainty is a word with a broader meaning than misgiving:

Other hypernyms of misgiving include doubt, doubtfulness, dubiety, dubiousness, incertitude.

misgiving (noun)	uncertainty (noun)
doubt about someone's honesty	being unsettled or in doubt or dependent on chance
painful expectation	the state of being unsure of something
uneasiness about the fitness of an action (particularly for reasons of ethics, morals or propriety)