Dot-matrix comparison of the PGF and COX sequences spanning the RCCX (A) and HLA-DRB (B) regions. The X-axes represent the PGF contig and encoded genes and the Y-axes display those of COX. Axis numbering is in kilobases. Coding genes are labeled in black and pseudogenes in gray. (A) No variations were calculated from comparison of the duplicated region (boxed region of homology) of PGF with COX. Striped boxes represent endogenous retrovirus sequences that identify long (L) C4 genes. The dot-matrix analysis was performed using sequences taken for PGF from contig position 26,001 to 180,559 of AL645922, and for COX from 12,001 of AL662849 to 55,541 of AL662828. (B) No PGF/COX variations were calculated between sequences bordered by open circles through which the gene content differs between haplotypes. A more detailed comparison of the HLA-DRB1 loci with exon locations is shown. The dot-matrix analysis was performed using sequences taken for PGF from contig position 128,102 of AL662796 to 27,557 of AL662789, and for COX from 130,001 of AL670296 to 108,819 of AL662842.
