ClinVar Miner

Submissions for variant NM_031935.3(HMCN1):c.4772G>A (p.Ser1591Asn)

gnomAD frequency: 0.00004  dbSNP: rs140480677
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Total submissions: 5
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Illumina Laboratory Services, Illumina RCV000342794 SCV000351837 uncertain significance Age related macular degeneration 1 2018-01-12 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.
Labcorp Genetics (formerly Invitae), Labcorp RCV002522077 SCV003265941 uncertain significance not provided 2024-01-21 criteria provided, single submitter clinical testing This sequence change replaces serine, which is neutral and polar, with asparagine, which is neutral and polar, at codon 1591 of the HMCN1 protein (p.Ser1591Asn). This variant is present in population databases (rs140480677, gnomAD 0.02%). This variant has not been reported in the literature in individuals affected with HMCN1-related conditions. ClinVar contains an entry for this variant (Variation ID: 294153). Algorithms developed to predict the effect of missense changes on protein structure and function output the following: SIFT: "Not Available"; PolyPhen-2: "Benign"; Align-GVGD: "Not Available". The asparagine amino acid residue is found in multiple mammalian species, which suggests that this missense change does not adversely affect protein function. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance.
Genome-Nilou Lab RCV000342794 SCV004179773 uncertain significance Age related macular degeneration 1 2023-04-11 criteria provided, single submitter clinical testing
Ambry Genetics RCV004021386 SCV004883126 uncertain significance not specified 2023-12-26 criteria provided, single submitter clinical testing The c.4772G>A (p.S1591N) alteration is located in exon 31 (coding exon 31) of the HMCN1 gene. This alteration results from a G to A substitution at nucleotide position 4772, causing the serine (S) at amino acid position 1591 to be replaced by an asparagine (N). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear.
Breakthrough Genomics, Breakthrough Genomics RCV002522077 SCV005187093 uncertain significance not provided criteria provided, single submitter not provided

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