Annotation of what? OWL axioms? Or do you mean something like the label of an OWL individual? For the latter, it is the same method. And please, first try it by yourself. This is much faster.
Protege -> OWL based -> RDF representation of OWL axioms by a set of triples Jena API -> RDF -> direct access to the triples > Hi, is it possible we get value from annotation tab as we do from property > like getPropertyValue(); > -- Lorenz Bühmann AKSW group, University of Leipzig Group: http://aksw.org - semantic web research center