ClinVar Miner

Submissions for variant NM_024675.4(PALB2):c.2218C>T (p.Gln740Ter)

dbSNP: rs1555460445
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Total submissions: 8
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Ambry Genetics RCV000567438 SCV000665127 pathogenic Hereditary cancer-predisposing syndrome 2017-03-23 criteria provided, single submitter clinical testing The p.Q740* pathogenic mutation (also known as c.2218C>T), located in coding exon 5 of the PALB2 gene, results from a C to T substitution at nucleotide position 2218. This changes the amino acid from a glutamine to a stop codon within coding exon 5. This alteration is expected to result in loss of function by premature protein truncation or nonsense-mediated mRNA decay. As such, this alteration is interpreted as a disease-causing mutation.
Women's Health and Genetics/Laboratory Corporation of America, LabCorp RCV000587693 SCV000699551 likely pathogenic Hereditary breast ovarian cancer syndrome 2022-01-07 criteria provided, single submitter clinical testing Variant summary: PALB2 c.2218C>T (p.Gln740X) results in a premature termination codon, predicted to cause a truncation of the encoded protein or absence of the protein due to nonsense mediated decay, which are commonly known mechanisms for disease. Truncations downstream of this position have been classified as pathogenic by our laboratory. The variant was absent in 251494 control chromosomes. c.2218C>T has been reported in the literature in one individual affected with Breast Cancer. However, this individual also carries another pathogenic variant (BRCA1 c.3817C>T, p.Gln1273Ter). To our knowledge, no experimental evidence demonstrating an impact on protein function has been reported. Five clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar after 2014 without evidence for independent evaluation. All laboratories classified the variant as pathogenic/likely pathogenic. Based on the evidence outlined above, the variant was classified as likely pathogenic.
Mendelics RCV000567438 SCV000839024 likely pathogenic Hereditary cancer-predisposing syndrome 2018-07-02 criteria provided, single submitter clinical testing
Mendelics RCV000989559 SCV001140014 likely pathogenic Familial cancer of breast 2019-05-28 criteria provided, single submitter clinical testing
Invitae RCV000989559 SCV001208206 pathogenic Familial cancer of breast 2023-11-28 criteria provided, single submitter clinical testing This sequence change creates a premature translational stop signal (p.Gln740*) in the PALB2 gene. It is expected to result in an absent or disrupted protein product. Loss-of-function variants in PALB2 are known to be pathogenic (PMID: 17200668, 17200671, 17200672, 24136930, 25099575). This variant is not present in population databases (gnomAD no frequency). This variant has not been reported in the literature in individuals affected with PALB2-related conditions. ClinVar contains an entry for this variant (Variation ID: 481035). For these reasons, this variant has been classified as Pathogenic.
Color Diagnostics, LLC DBA Color Health RCV000567438 SCV001348361 pathogenic Hereditary cancer-predisposing syndrome 2023-12-06 criteria provided, single submitter clinical testing This variant changes 1 nucleotide in exon 5 of the PALB2 gene, creating a premature translation stop signal. This variant is expected to result in an absent or non-functional protein product. This variant has been reported in an individual affected with breast cancer (PMID: 31125277). This variant has not been identified in the general population by the Genome Aggregation Database (gnomAD). Loss of PALB2 function is a known mechanism of disease (clinicalgenome.org). Based on the available evidence, this variant is classified as Pathogenic.
GeneDx RCV003318598 SCV004023183 pathogenic not provided 2023-02-06 criteria provided, single submitter clinical testing Nonsense variant predicted to result in protein truncation or nonsense mediated decay in a gene for which loss of function is a known mechanism of disease; Not observed at significant frequency in large population cohorts (gnomAD); This variant is associated with the following publications: (PMID: 31589614, 31125277, deFatimaMartinezGonzalez[article]2022, 35610400)
Myriad Genetics, Inc. RCV000989559 SCV004189402 pathogenic Familial cancer of breast 2023-09-12 criteria provided, single submitter clinical testing This variant is considered pathogenic. This variant creates a termination codon and is predicted to result in premature protein truncation.

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