ClinVar Miner

Submissions for variant NM_000545.8(HNF1A):c.1766dup (p.Val590fs)

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Total submissions: 1
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Women's Health and Genetics/Laboratory Corporation of America, LabCorp RCV003479762 SCV004223505 likely pathogenic Maturity onset diabetes mellitus in young 2023-11-08 criteria provided, single submitter clinical testing Variant summary: HNF1A c.1766dupC (p.Val590SerfsX59) causes a frameshift which results in an extension of the protein by 18 amino acids and disrupt the C-terminal transactivation domain of the translated HNF1A protein. Other downstream protein extension variants terminating in the vicinity or downstream of this variant (i.e., predicted extension by 17 or 20 amino acids), such as c.1822_1823delAG (p.Ser608ProfsX40), c.1840_1841delAA (p.Asn614ProfsX34) and c.1786delG (p.Val596CysfsX64), have been classified as pathogenic/likely pathogenic by the Clingen Monogenic Diabetes Variant Curation Expert Panel due to identification in individuals affected with features of HNF1A-MODY. At-least one downstream protein extension variant terminating at the same location as this variant (i.e., predicted extension by 18 amino acids), namely, c.1819dupC (p.Gln607ProfsX42) has been classified as uncertain significance by the same expert panel presumably due to lack of clinical evidence. However, each of these variants is also predicted to disrupt the C-terminal transactivation domain. Furthermore, at-least missense variant located in the impacted region, c.1781G>T (p.Ser594Ile) has been classified as pathogenic by the expert panel, supporting a critical relevance of this domain to HNF1A protein function. This variant was absent in 239064 control chromosomes. To our knowledge, no occurrence of c.1766dupC in individuals affected with Maturity Onset Diabetes Of The Young 3 and no experimental evidence demonstrating its impact on protein function have been reported. No submitters have cited clinical-significance assessments for this variant to ClinVar after 2014. Based on the evidence outlined above, the variant was classified as likely pathogenic.

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