Some databases provide Genbank coordinates. Others provide RefSeq coordinates. I am looking for a table of pairwise associations between identical Genbank and Refseq records.
The ultimate goal is: if I have e.g. a BED file with tens of thousands of annotations across thousands of Genbank genomes, I would like to replace the Genbank accession ID with the identical Refseq accesion id for each line in the BED fle, provided such a corresponding Refseq ID exists.
Yes, RefSeq is a curated subset of Genbank that has been copied and so the records are technically distinct. However, the RefSeq geome pages on NCB provide a link to "Identical Genbank Sequence" For example: RefSeq genome page for E.coli MG1655 provides a link to "Identical Genbank Sequence"