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Table 3 Copy number variants (CNVs) associated with each of the carcass traits in Charolais (CH), Holstein-Friesian (HF), and Limousin (LM) with no obvious underlying pedigree relationship. 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
9 7.28 Mb 7.29 Mb Weight CH 3 Deletion 0.0201 ADGRB3
1 9.91 Mb 9.92 Mb Weight HF 6 Deletion 0.0276 APP U6
7 10.49 Mb 11.09 Mb Weight HF 3 Duplication 0.0286 OR7A89, OR7A95
22 61.33 Mb 61.38 Mb Weight HF 3 Mixed 0.0146 CFAP100
2 136.75 Mb 136.91 Mb Conformation HF 6 Mixed 0.0047 U6, 5S rRNA
7 23.81 Mb 23.86 Mb Conformation HF 25 Mixed 0.0053 GRAMD2B
11 103.48 Mb 103.50 Mb Conformation HF 3 Mixed 0.0044 CAMSAP1
11 49.90 Mb 49.91 Mb Conformation HF 3 Mixed 0.0056 TMBSB10
21 58.26 Mb 58.28 Mb Conformation HF 3 Mixed 0.0049 ITPK1
7 45.49 Mb 45.52 Mb Conformation LM 4 Deletion 0.0109 APC2, PCSK4, REEP6
10 39.73 Mb 39.73 Mb Fat LM 6 Deletion 0.0045 RPL10L, U1
  1. aThe population frequency is the number of animals in the population with a deletion or duplication variant of the CNV
  2. bThe marginal R2 is the R2 which is attributable to the fixed effect in the linear mixed model, in this case the CNV is the fixed effect