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Table 3 Description of 1-Mb windows that explained more than 0.8% of genetic variance and significant SNPs within those windows for genome-wide recombination number in brown layers

From: Identification of recombination hotspots and quantitative trait loci for recombination rate in layer chickens

GGA_Mb # SNP GV%a WPPAb Most significant SNPc SPPId GV% SNP MAFe Position, Mb P-valuef Candidate gene
1_15 22 0.83 0.49 Gga_rs13713650 0.34 0.10 0.38 15.28 0.022 CBLL1
1_66 19 5 0.57 Gga_rs13879050 0.45 0.10 0.39 66.67 0.06 RECQL
2_73 16 19.74 0.80 Gga_rs14203992 0.74 0.20 0.35 73.74 0.07 CDH10
2_138,140–141 72 12.16 0.29 Gga_rs13794969 0.17 2.24 0.39 138.20 0.005 MYC
4_85 33 2.21 0.80 Gga_rs14498387 0.67 0.54 0.29 85.48 0.07 RNF212, MAEA, FGFRL1, MRPL35
12_2 23 0.83 0.61 Gga_rs14032471 0.50 0.46 0.071 2.72 0.1 FANCD2, GNAI2
  1. aGV%, proportion of the genetic variance explained by window or SNP
  2. bWPPA, window posterior probability of association
  3. cMost significant SNP, SNP with the highest SPPI in the 1 Mb region
  4. dSPPI, SNP posterior probability of inclusion
  5. eMAF, minor allele frequency
  6. fP-value, the significance of the single SNP as a fixed effect in ASREML