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Table 2 Copy number variants (CNVs) associated with each of the carcass traits in Charolais (CH), Holstein-Friesian (HF), and Limousin (LM), but with a possible underlying population structure between the animals with the CNV. When a CNV was present as both duplications and deletions in the population the CNV type was reported as mixed

From: Genome-wide association analyses of carcass traits using copy number variants and raw intensity values of single nucleotide polymorphisms in cattle

Chromosome Start position End position Associated trait Breed Population frequencya CNV type Marginal R2 b Flanking genes
8 15.37 Mb 15.38 Mb Weight HF 3 Deletion 0.0289 bta-mir-873, bta-mir-876
25 15.58 Mb 15.59 Mb Weight HF 7 Deletion 0.0337 XYLT1
16 16.55 Mb 16.56 Mb Conformation HF 17 Mixed 0.0002 BRINP3
20 43.06 Mb 43.08 Mb Conformation HF 4 Deletion 0.0314 CDH6
25 15.58 Mb 15.59 Mb Conformation HF 7 Deletion 0.0315 XYLT1
25 15.58 Mb 15.59 Mb Fat HF 7 Deletion 0.0296 XYLT1
10 24.59 Mb 24.60 Mb Fat LM 4 Mixed 0.0045 TRAV16
  1. aThe population frequency of the CNV is the number of animals in the population in which the CNV differed from the normal state
  2. bThe marginal R2 is the R2 which is attributable to the fixed effect, i.e. the CNV, in the linear mixed model