Whole gene sequencing data were generated for all classical HLA loci (HLA-A, -B, -C, -DRB1, -DRB3, -DRB4, -DRB5, -DQA1, -DQB1, -DPA1, and -DPB1) in T1D individuals and for a subset of six loci (HLA-A, -B, -C, -DRB1, -DQB1, and -DPB1) in control individuals because of resource limitations. The gene discussed is HLA-A; the disease is type 1 diabetes mellitus.