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If you find an easier way to get the CDS and the protein sequences please let me know. Even if it involves not using Genbank, as long as I can use NCBI's FTP everything is fine...

"not using Genbank" and "as long as I can use NCBI's FTP" seems a bit contradictory. GenBank is NCBI, no?

Perhaps UniProt.org has what you want? (You haven't said what it is that you're after...)

For example, 742726 being your tax_id (taxonomy ID), it delivers the proteins with http://www.uniprot.org/uniprot/?query=taxonomy:742726&sort=score

I see there is a gff tab for download (easily turned into a URL).

As far as I know, NCBI, Ensembl, and UniProt exchange sequences and annotation regularly.

In reply to Re^3: Debugging Bioperl warnings for Genebank files that are missing info by erix
in thread Debugging Bioperl warnings for Genebank files that are missing info by Sosi

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