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. 2012 Jul 11;7(7):e39929. doi: 10.1371/journal.pone.0039929

Figure 4. Association with size at the HMGA2 locus.

Figure 4

(A) Haplotypes spanning HMGA2 were inferred with PHASE for a set of nine SNPs that included all size-associated SNPs at the locus. (B) The haplotype counts differ in the set of all little breed horses (American Miniature to Puerto Rican Paso Fino) vs. all big breed horses (Friesian to Shire). (C) For each breed, the count of chromosomes inferred to be carrying that haplotype. (D) Size-associated SNPs occur within and adjacent to HMGA2. SNP associations from the 16-breed GWA scan are plotted above the genes in this locus. These SNPs were discovered and genotyped by capillary sequencing (see main text). Each gene’s exons (vertical bars), introns (horizontal lines) and direction of transcription (arrow) are indicated.