I have a long list of Ensembl IDs and am completely unfamiliar with the Ensembl browser. I want to convert these guys to Refseq IDs using the UCSC table browser, mySQL, or some other tool. So given a list like this:
ENSG00000197021
ENSG00000204379
How do I turn them into this?
CXorf40B
XAGE1A
I gather from what I've tried that there are not 1-to-1 mappings for Ensembl gene IDs to RefSeq names, but I'd like to be wrong. At a minimum, I'd like to get the hg18 or hg19 coordinates for a list of these genes, but Biomart only comes back with about 3/4 of them. Any help?
Do you only get coordinates for 3/4 of your Ensembl gene IDs or only RefSeq IDs for 3/4 of your Ensembl gene IDs? From which version of Ensembl are your Ensembl gene IDs? Lastly, CXorf40B and XAGE1A are HGNC symbols.
Ensembl has more genes than RefSeq (at least for human), which might partly explain why you only get mappings for 3/4 of your genes.
Similar post: Gene Id Conversion Tool
As Bert says, your examples are not Refseq IDs. Please refine the question title.