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Table 2 EMSA-based in vitro analysis of a complex of TBP and one of synthetic 26 bp ODNs identical to natural promoters near the SNPs being tested

From: Disruptive natural selection by male reproductive potential prevents underexpression of protein-coding genes on the human Y chromosome as a self-domestication syndrome

Gene, dbSNP ID [8] Allele:WT min 26 bp oligodeoxyribonucleotides (ODNs), 5′ → 3′ Prediction Experiment
-ln (KD) ln-unit Δln (KD) ln-unit KD ± SEMnM -ln (KD) ln-unit Δln (KD) ln-unit
SHOX -45A gaggtcgccgcgtAtaaatagtgaga 20.31 −1.10 39 ± 7 17.06 −1.90
rs1452787381 -45G gaggtcgccgcgtGtaaatagtgaga 19.21 260 ± 70 15.16
GTPBP6 -24G atcacgagcacgtGatgaggagcggc 17.30 1.38 1500 ± 200 13.41 0.07
rs1393008234 -24 T atcacgagcacgtTatgaggagcggc 18.68 1400 ± 200 13.48
ASMT -30G ggtgaccttttgtGcccagaataggt 18.18 0.75 600 ± 300 14.33 −0.51
rs1402972626 -30A ggtgaccttttgtAcccagaataggt 18.93 1000 ± 300 13.82
ZFY -56C ggcggagggggccCaactaccatccc 17.67 0.51 1000 ± 400 13.82 −0.70
rs1452787381 -56 T ggcggagggggccTaactaccatccc 18.18 2000 ± 1000 13.12
CDY2A -24G agaatgttccataTaatcgtcatagc 19.27 −0.51 160 ± 30 15.65 −1.14
rs20067072 -24 t agaatgttccataCaatcgtcatagc 18.76 500 ± 200 14.51
  1. Notes. For each TBP–ODN complex: KD, equilibrium dissociation constant; SEM, standard error of the mean. All experimental data and their SEMs are the output of publicly available software GraphPad Prism 5 (URL = http://graphpad-prism.software.informer.com/5.01), the input data of which were the dependences of reaction rates on ODN concentrations, as illustrated in Fig. 2c and d
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BMC Genomic Data

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