If I was doing this which I have done a million times you want to use one if the emboss packages which can parse out the features and sequences that you are interested in or spit out the features in a table format so you can upload them into a db or parse them on the fly. eg: http://emboss.sourceforge.net/apps/release/6.2/emboss/apps/extractfeat.html
I would avoid using bioperl for this.

In reply to Re: Bioperl or ncbi: parsing refseq files by david_lyon
in thread Bioperl or ncbi: parsing refseq files by roibrodo

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