ClinVar Miner

Submissions for variant NM_000038.6(APC):c.298del (p.Glu100fs) (rs1064794224)

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Total submissions: 3
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
GeneDx RCV000486524 SCV000568263 likely pathogenic not provided 2016-10-03 criteria provided, single submitter clinical testing This deletion of one nucleotide in APC is denoted c.298delG at the cDNA level and p.Glu100LysfsX25 (E100KfsX25) at the protein level. The normal sequence, with the base that is deleted in brackets, is CCGG[delG]AAGG. The deletion causes a frameshift which changes a Glutamic Acid to a Lysine at codon 100, and creates a premature stop codon at position 25 of the new reading frame. This variant is predicted to cause loss of normal protein function through either protein truncation or nonsense-mediated mRNA decay. APC c.298delG has been identified in a patient with fundic gland polyposis and a family history of colon cancer and polyps (Ohtaka 2011). Based on the currently available information, we consider this deletion to be a likely pathogenic variant.
Quest Diagnostics Nichols Institute San Juan Capistrano RCV000486524 SCV000600071 likely pathogenic not provided 2017-05-05 criteria provided, single submitter clinical testing
Invitae RCV000646505 SCV000768278 pathogenic Familial adenomatous polyposis 1 2017-10-12 criteria provided, single submitter clinical testing This sequence change creates a premature translational stop signal (p.Glu100Lysfs*25) in the APC gene. It is expected to result in an absent or disrupted protein product. This variant is not present in population databases (ExAC no frequency). This variant has been reported in an individual affected with familial adenomatous polyposis (PMID: 21646762). ClinVar contains an entry for this variant (Variation ID: 419991). Loss-of-function variants in APC are known to be pathogenic (PMID: 17963004, 20685668). For these reasons, this variant has been classified as Pathogenic.

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