As far as I know, there isn’t a comprehensive resource for what you want, except for more general anatomy, as it is hard to establish those relationships between fly and mammals.
Below are some links that might be useful though.
Uberon is an integrated cross-species anatomy ontology
And Monarch, the homologous for phenotype, focusing on disease.
Marta Costa, PhD
Senior Research Associate
Virtual Fly Brain project
Department of Zoology
University of Cambridge,
Cambridge, CB2 3EJ, UK