I have a mix of GenBank and FASTA files depicting plasmids, primers, etc. So far I got couple of problems I can't figure out how to solve

1. In graphical plasmid view all qualifiers are shown under their generic names, i.e. 'promoter', 'rep_origin' and so on. It would be nice if labels were used for markings instead, i.e. 'CMV promoter' or 'pUC origin', or it could be done using couple of mouse clicks.

2. Automated annotation of FASTA files when asked for, like it done in PlasMapper... or at least possibility to create a local database based on annotated sequences...

Help would be really appreciated

Thanks Agu, no.1 worked fine.

As for FASTA.. Many elements in plasmids are quite common, like CMV or SV40 promoters, pUC origin, Amp(R) or Kan(R)/Neo(R) and so on. If database of such elements exists and is checked against for a FASTA sequence, manual annotation of certain elements can be avoided. Most likely CDSs and Kozak/SD sequence must be checked manually, but initial automation would be appreciated. Don't know if it makes more sense now.