ClinVar

Description

The PALB2 p.Lys7= variant was not identified in the literature nor was it identified in the dbSNP, LOVD 3.0, or Zhejiang University Database. The variant was identified in ClinVar (classified as likely benign by Ambry Genetics, Color Genomics and Invitae). The variant was identified in control databases in 1 of 243046 chromosomes at a frequency of 0.000004 (Genome Aggregation Database Feb 27, 2017). The variant was observed in the European population in 1 of 109480 chromosomes (freq: 0.000009), while the variant was not observed in the African, Other, Latino, Ashkenazi Jewish, East Asian, Finnish, or South Asian populations. The p.Lys7= variant is not expected to have clinical significance because it does not result in a change of amino acid and is not located in a known consensus splice site. In addition, in silico or computational prediction software programs (SpliceSiteFinder, MaxEntScan, NNSPLICE, GeneSplicer, HumanSpliceFinder) do not predict a difference in splicing. In summary, based on the above information the clinical significance of this variant cannot be determined with certainty at this time although we would lean towards a more benign role for this variant. This variant is classified as likely benign.