ClinVar Miner

Submissions for variant NM_000528.4(MAN2B1):c.1838G>A (p.Arg613Gln)

gnomAD frequency: 0.00005  dbSNP: rs543222535
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Total submissions: 6
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
GeneDx RCV000521153 SCV000619386 uncertain significance not provided 2018-11-06 criteria provided, single submitter clinical testing The R613Q variant in the MAN2B1 gene has not been reported previously as a pathogenic variant, nor as a benign variant, to our knowledge. Although not present in the homozygous state, this variant is observed in 37/16394 (0.22%) alleles from individuals of South Asian background in the ExAC dataset (Lek et al., 2016). The R613Q variant is a semi-conservative amino acid substitution, which may impact secondary protein structure as these residues differ in some properties. This substitution occurs at a position that is conserved in mammals. In silico analysis is inconsistent in its predictions as to whether or not the variant is damaging to the protein structure/function. We interpret R613Q as a variant of uncertain significance.
Invitae RCV001083132 SCV001043527 likely benign Deficiency of alpha-mannosidase 2024-01-27 criteria provided, single submitter clinical testing
Illumina Laboratory Services, Illumina RCV001083132 SCV001284404 uncertain significance Deficiency of alpha-mannosidase 2018-01-13 criteria provided, single submitter clinical testing This variant was observed in the ICSL laboratory as part of a predisposition screen in an ostensibly healthy population. It had not been previously curated by ICSL or reported in the Human Gene Mutation Database (HGMD: prior to June 1st, 2018), and was therefore a candidate for classification through an automated scoring system. Utilizing variant allele frequency, disease prevalence and penetrance estimates, and inheritance mode, an automated score was calculated to assess if this variant is too frequent to cause the disease. Based on the score, this variant could not be ruled out of causing disease and therefore its association with disease required further investigation. A literature search was performed for the gene, cDNA change, and amino acid change (if applicable). No publications were found based on this search. This variant was therefore classified as a variant of unknown significance for this disease.
Genome-Nilou Lab RCV001083132 SCV001712290 uncertain significance Deficiency of alpha-mannosidase 2021-05-18 criteria provided, single submitter clinical testing
CeGaT Center for Human Genetics Tuebingen RCV000521153 SCV004137894 likely benign not provided 2022-10-01 criteria provided, single submitter clinical testing MAN2B1: BP4
Mayo Clinic Laboratories, Mayo Clinic RCV000521153 SCV004224566 uncertain significance not provided 2022-11-21 criteria provided, single submitter clinical testing BP4

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