[BioC] GeneID -> nt sequence

Paul Grosu paul_grosu at harvard.edu
Mon Jul 25 21:46:41 CEST 2005


Hi -

Anyone know how I can get the nucleotide sequence(s) to a GeneID?

Here is an example:

Let's say I have the following gene ID (960)  and below is the link to 
it on NCBI:

http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene&cmd=Retrieve&dopt=Graphics&list_uids=960#ubor85_RefSeq

when I do the following commands:

library(annotate)
getSEQ("960")

I get:

[1] "LLGKILVITLVQNFGREFTLEFLAAYPKVVAGVANALAYKYHWDPSLFL"

But these gene has several variants so I wanted to find the different 
sequence variants which I'm having trouble figuring out from the 
AnnBuilder or annotate packages.

Thanks,
Paul



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