I have some genotype data which gives me some problems, and I suspect that the genome build is not what it is supposed to be. I have a bim file with the following line:
1 rs2465136 0 980280 G A
According to dbSNP (https://www.ncbi.nlm.nih.gov/projects/SNP/snp_ref.cgi?rs=2465136), this is a SNP on chr1, but the coordinate matches no genome build (1055037 or 990417, instead of 980280). However, a little further down that page, that number occurs in a 1KG handle (1000GENOMES|CEU.trio.12.15.2008_268_chr1_980280). I'm sure I'm missing something obvious here, but could someone explain to me what is going on?