ClinVar Miner

Submissions for variant NM_003282.4(TNNI2):c.525G>T (p.Lys175Asn)

dbSNP: rs797046046
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Total submissions: 2
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Genetic Services Laboratory, University of Chicago RCV000193314 SCV000249169 likely pathogenic Distal arthrogryposis type 2B1 2014-09-22 criteria provided, single submitter clinical testing
Victorian Clinical Genetics Services, Murdoch Childrens Research Institute RCV000193314 SCV002767823 pathogenic Distal arthrogryposis type 2B1 2021-05-06 criteria provided, single submitter clinical testing Based on the classification scheme VCGS_Germline_v1.3.4, this variant is classified as Pathogenic. Following criteria are met: 0101 - Gain of function is a known mechanism of disease in this gene and is associated with distal arthrogryposis type 2B1 (DA2B; MIM#601680) (PMIDs: 17194691, 25340332). (I) 0107 - This gene is associated with autosomal dominant disease. (I) 0115 - Variants in this gene are known to have variable expressivity (PMID: 27790376). (I) 0200 - Variant is predicted to result in a missense amino acid change from lysine to asparagine. (I) 0251 - This variant is heterozygous. (I) 0301 - Variant is absent from gnomAD (both v2 and v3). (SP) 0501 - Missense variant consistently predicted to be damaging by multiple in silico tools or highly conserved with a major amino acid change. (SP) 0602 - Variant is located in a hotspot region or cluster of pathogenic variants (DECIPHER). (SP) 0705 - No comparable missense variants have previous evidence for pathogenicity. However, an inframe-deletion of the same residue, p.(Lys175del) also known as p.(Lys176del), has been reported in individuals with DA2B (PMID: 26526134), demonstrating the importance of this amino acid for protein function. (I) 0802 - This variant has moderate previous evidence of pathogenicity in unrelated individuals. It has been reported in 3 unrelated individuals with DA2B (PMID: 23401156, ClinVar, LOVD). (SP) 0905 - No published segregation evidence has been identified for this variant. (I) 1007 - No published functional evidence has been identified for this variant. (I) 1102 - Strong phenotype match for this individual. (SP) 1204 - This variant has been shown to be de novo in the proband (parental status not tested but assumed). (SP) Legend: (SP) - Supporting pathogenic, (I) - Information, (SB) - Supporting benign

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