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Table 3 Variants predicted by SNPfold to affect UTR structure

From: A unified analytic framework for prioritization of non-coding variants of uncertain significance in heritable breast and ovarian cancer

Classa Patient ID Gene mRNA UTR position rsID (dbSNP 142) Ranke p-value
Allele Frequency (%)d
F In 26 patients BRCA2 b c.-52A > G 5’ UTR rs206118 2/900 0.002
14.86
F In 40 patients BRCA2 b c.*532A > G 3’ UTR rs11571836 239/2700 0.089
19.75
P 7-4C CDH1 c c.-71C > G 5’ UTR rs34033771 69/600 0.115
0.56
F 4-2E TP53 b c.*485G > A 3’ UTR rs4968187 169/4500 0.038
5-4A
5.11
F 2-1A, 7-1B, 5-2A.7-1D, 7-2B, 7-2F TP53 b c.*826G > A 3’ UTR rs17884306 371/4500 0.082
7-4C
5.71
  1. aF:Flagged; P:Prioritized
  2. bLong Range UTR SNPfold Analysis
  3. cLocal Range SNPfold Analysis
  4. dIf available
  5. eRank of the SNP, in terms of how much it changes the mRNA structure compared to all other possible mutations