ClinVar Miner

Submissions for variant NM_000267.3(NF1):c.2022C>T (p.Ser674=) (rs2230851)

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Total submissions: 8
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
ARUP Laboratories, Molecular Genetics and Genomics, ARUP Laboratories RCV000680333 SCV000885831 benign not provided 2017-12-12 criteria provided, single submitter clinical testing
Ambry Genetics RCV000130488 SCV000185357 benign Hereditary cancer-predisposing syndrome 2014-06-30 criteria provided, single submitter clinical testing Lines of evidence used in support of classification: General population or subpopulation frequency is too high to be a pathogenic mutation based on disease/syndrome prevalence and penetrance
GeneDx RCV000680333 SCV000519041 benign not provided 2016-12-30 criteria provided, single submitter clinical testing This variant is considered likely benign or benign based on one or more of the following criteria: it is a conservative change, it occurs at a poorly conserved position in the protein, it is predicted to be benign by multiple in silico algorithms, and/or has population frequency not consistent with disease.
Genetic Services Laboratory, University of Chicago RCV000218285 SCV000595970 likely benign not specified 2015-09-02 criteria provided, single submitter clinical testing
Integrated Genetics/Laboratory Corporation of America RCV000218285 SCV000919870 benign not specified 2017-10-23 criteria provided, single submitter clinical testing Variant summary: The NF1 c.2022C>T (p.Ser674Ser) variant involves the alteration of a non-conserved nucleotide, resulting in a synonymous change. Mutation taster predicts a damaging outcome for this variant. 5/5 splice prediction tools predict no significant impact on normal splicing. ESE finder predicts that this variant may affect binding of ESE sites. However, these predictions have yet to be confirmed by functional studies. This variant was found in 757/250454 control chromosomes (gnomAD) at a frequency of 0.0030225, which is approximately 15 times the estimated maximal expected allele frequency of a pathogenic NF1 variant (0.0002084), suggesting this variant is likely a benign polymorphism. In addition, multiple clinical diagnostic laboratories/reputable databases classified this variant as benign/likely benign. Taken together, this variant is classified as benign.
Invitae RCV000206675 SCV000262399 benign Neurofibromatosis, type 1 2018-01-16 criteria provided, single submitter clinical testing
Laboratory for Molecular Medicine,Partners HealthCare Personalized Medicine RCV000218285 SCV000269448 benign not specified 2014-11-24 criteria provided, single submitter clinical testing Ser674Ser in exon 18 of NF1: This variant is not expected to have clinical signi ficance because it does not alter an amino acid residue and is not located withi n the splice consensus sequence. It has been identified in 2.6% (113/4406) of Af rican American chromosomes from a broad population by the NHLBI Exome Sequencing Project (; dbSNP rs2230851).
PreventionGenetics RCV000218285 SCV000306244 benign not specified criteria provided, single submitter clinical testing

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