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NM_022168.4(IFIH1):c.2465G>A (p.Arg822Gln) AND Aicardi-Goutieres syndrome 7

Germline classification:
Pathogenic (2 submissions)
Last evaluated:
Oct 2, 2018
Review status:
1 star out of maximum of 4 stars
criteria provided, single submitter
Somatic classification
of clinical impact:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Somatic classification
of oncogenicity:
None
Review status:
(0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided
Record status:
current
Accession:
RCV000789041.11

Allele description [Variation Report for NM_022168.4(IFIH1):c.2465G>A (p.Arg822Gln)]

NM_022168.4(IFIH1):c.2465G>A (p.Arg822Gln)

Gene:
IFIH1:interferon induced with helicase C domain 1 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
2q24.2
Genomic location:
Preferred name:
NM_022168.4(IFIH1):c.2465G>A (p.Arg822Gln)
Other names:
IFIH1, ARG822GLN (rs376048533)
HGVS:
  • NC_000002.12:g.162272377C>T
  • NG_011495.1:g.51153G>A
  • NM_022168.4:c.2465G>AMANE SELECT
  • NP_071451.2:p.Arg822Gln
  • LRG_1235t1:c.2465G>A
  • LRG_1235:g.51153G>A
  • LRG_1235p1:p.Arg822Gln
  • NC_000002.11:g.163128887C>T
  • NM_022168.3:c.2465G>A
  • Q9BYX4:p.Arg822Gln
Protein change:
R822Q; ARG822GLN
Links:
UniProtKB: Q9BYX4#VAR_073666; OMIM: 606951.0009; dbSNP: rs376048533
NCBI 1000 Genomes Browser:
rs376048533
Molecular consequence:
  • NM_022168.4:c.2465G>A - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Aicardi-Goutieres syndrome 7 (AGS7)
Identifiers:
MONDO: MONDO:0014367; MedGen: C3888244; Orphanet: 51; OMIM: 615846

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000928386Laboratory of Medical Genetics, National & Kapodistrian University of Athens
criteria provided, single submitter

(ACMG Guidelines, 2015)
Pathogenic
(Oct 2, 2018)
germlineclinical testing

PubMed (1)
[See all records that cite this PMID]

SCV003928202OMIM
no assertion criteria provided
Pathogenic
(Feb 5, 2015)
germlineliterature only

PubMed (4)
[See all records that cite these PMIDs]

Feigenbaum, A., Kumar, A., Weksberg, R. Singleton-Merten (S-M) syndrome: autosomal dominant transmission with variable expression. (Abstract) Am. J. Hum. Genet. 43: A48-only, 1988.

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyesnot providednot providednot providednot providednot providedclinical testing
not providedgermlinenot providednot providednot providednot providednot providednot providedliterature only

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]
PMID:
25741868
PMCID:
PMC4544753

Singleton-merten syndrome and impaired cardiac function.

Valverde I, Rosenthal E, Tzifa A, Desai P, Bell A, Pushparajah K, Qureshi S, Beerbaum P, Simpson J.

J Am Coll Cardiol. 2010 Nov 16;56(21):1760. doi: 10.1016/j.jacc.2010.02.078. No abstract available.

PubMed [citation]
PMID:
21070929
See all PubMed Citations (5)

Details of each submission

From Laboratory of Medical Genetics, National & Kapodistrian University of Athens, SCV000928386.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)

Description

PS1, PS3, PP1, PP3, PP5

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providednot providednot providednot providednot providednot providednot provided

From OMIM, SCV003928202.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedliterature only PubMed (4)

Description

Singleton-Merten Syndrome 1

In affected individuals from 3 unrelated families with early and extreme aortic and valvular calcification, dental anomalies, osteopenia, and acroosteolysis (SGMRT1; 182250), previously reported by Feigenbaum et al. (1988), Rutsch et al. (2005), and Valverde et al. (2010), respectively, Rutsch et al. (2015) performed whole-exome sequencing and identified heterozygosity for a c.2465G-A transition in the IFIH1 gene, resulting in an arg822-to-gln (R822Q) substitution at a highly conserved residue in 1 of 2 core helicase domains. The mutation, which segregated with disease in each family, was not found in any unaffected family members; analysis of 17 additional family members from the largest family showed that all but 1 individual with dental anomalies carried the mutation, and 1 individual with only psoriasis carried the mutation, whereas 3 others with only psoriasis did not. The authors noted that the IFIH1 c.2465G-A variant has been reported as a SNP (rs376048533) in 1 individual with 'cardiac and pulmonary phenotypes' from among 6,517 individuals in the NHLBI Exome Variant Server database, and is listed in the Exome Aggregation Consortium Browser with an allele frequency of 0.00002481. In vitro functional analysis revealed that the R822Q mutant enhanced MDA5 function in interferon-beta (IFNB1; 147640) induction, and interferon signature genes were upregulated in patient blood and dental cells. Rutsch et al. (2015) concluded that R822Q is a gain-of-function substitution that causes Singleton-Merten syndrome through dysregulation of the human innate immune response.

In a 10-year-old boy with Singleton-Merten syndrome, Riou et al. (2022) identified heterozygosity for the recurrent R822Q mutation (c.2465G-A, NM_022168.4) in the IFIH1 gene. The mutation arose de novo.

Aicardi-Goutieres Syndrome 7

In a 6-year-old boy with bilateral spasticity, developmental delay, and basal ganglia calcification (AGS7; 615846), Buers et al. (2017) identified heterozygosity for the R822Q mutation in the IFIH1 gene. The mutation was not present in parental DNA and was considered to have arisen de novo.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlinenot providednot providednot providednot providednot providednot providednot providednot provided

Last Updated: May 12, 2024