The Reference DB Creator - BCdatabaser - is a pipeline to create reference databases for arbitrary markers and taxonomic groups from NCBI data. It can optionally be used to trim and orient the sequences and train taxonomic classifiers.
This is not an easy tool to use, it took some time to even get the example sets to work. Users can download the tool for offline use and to modify.
There are some practice data sets that can help familiarize the user with the tool but it will require some effort to understand it.