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NM_000352.6(ABCC8):c.221G>A (p.Arg74Gln) AND not provided

Germline classification:
Pathogenic (4 submissions)
Last evaluated:
Jan 20, 2023
Review status:
2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts
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:
RCV000710375.21

Allele description [Variation Report for NM_000352.6(ABCC8):c.221G>A (p.Arg74Gln)]

NM_000352.6(ABCC8):c.221G>A (p.Arg74Gln)

Gene:
ABCC8:ATP binding cassette subfamily C member 8 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
11p15.1
Genomic location:
Preferred name:
NM_000352.6(ABCC8):c.221G>A (p.Arg74Gln)
Other names:
NM_000352.6(ABCC8):c.221G>A; p.Arg74Gln
HGVS:
  • NC_000011.10:g.17474955C>T
  • NG_008867.1:g.6948G>A
  • NM_000352.6:c.221G>AMANE SELECT
  • NM_001287174.3:c.221G>A
  • NM_001351295.2:c.221G>A
  • NM_001351296.2:c.221G>A
  • NM_001351297.2:c.221G>A
  • NP_000343.2:p.Arg74Gln
  • NP_001274103.1:p.Arg74Gln
  • NP_001338224.1:p.Arg74Gln
  • NP_001338225.1:p.Arg74Gln
  • NP_001338226.1:p.Arg74Gln
  • LRG_790t1:c.221G>A
  • LRG_790t2:c.221G>A
  • LRG_790:g.6948G>A
  • LRG_790p1:p.Arg74Gln
  • LRG_790p2:p.Arg74Gln
  • NC_000011.9:g.17496502C>T
  • NM_000352.3:c.221G>A
  • NM_000352.4:c.221G>A
  • NR_147094.2:n.290G>A
Protein change:
R74Q
Links:
dbSNP: rs72559734
NCBI 1000 Genomes Browser:
rs72559734
Molecular consequence:
  • NM_000352.6:c.221G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001287174.3:c.221G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001351295.2:c.221G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001351296.2:c.221G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001351297.2:c.221G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NR_147094.2:n.290G>A - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000840585Athena Diagnostics
criteria provided, single submitter

(Athena Diagnostics Criteria)
Pathogenic
(Jul 15, 2022)
unknownclinical testing

PubMed (9)
[See all records that cite these PMIDs]

SCV001389945Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))
Pathogenic
(Jan 20, 2023)
germlineclinical testing

PubMed (7)
[See all records that cite these PMIDs]

SCV002069196Genetic Services Laboratory, University of Chicago
criteria provided, single submitter

(ACMG Guidelines, 2015)
Pathogenic
(May 21, 2018)
germlineclinical testing

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

SCV002574367GeneDx
criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)
Pathogenic
(Mar 17, 2022)
germlineclinical testing

Citation Link

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyesnot providednot providednot providednot providednot providedclinical testing
not providedgermlineunknownnot providednot providednot providednot providednot providedclinical testing
not providedunknownunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

ABCC8 and KCNJ11 molecular spectrum of 109 patients with diazoxide-unresponsive congenital hyperinsulinism.

Bellanné-Chantelot C, Saint-Martin C, Ribeiro MJ, Vaury C, Verkarre V, Arnoux JB, Valayannopoulos V, Gobrecht S, Sempoux C, Rahier J, Fournet JC, Jaubert F, Aigrain Y, Nihoul-Fékété C, de Lonlay P.

J Med Genet. 2010 Nov;47(11):752-9. doi: 10.1136/jmg.2009.075416. Epub 2010 Aug 3.

PubMed [citation]
PMID:
20685672

Genetic heterogeneity in familial hyperinsulinism.

Nestorowicz A, Glaser B, Wilson BA, Shyng SL, Nichols CG, Stanley CA, Thornton PS, Permutt MA.

Hum Mol Genet. 1998 Jul;7(7):1119-28. Erratum in: Hum Mol Genet 1998 Sep;7(9):1527.

PubMed [citation]
PMID:
9618169
See all PubMed Citations (15)

Details of each submission

From Athena Diagnostics, SCV000840585.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (9)

Description

The frequency of this variant in the general population is consistent with pathogenicity (http://gnomad.broadinstitute.org). This variant has been identified in multiple unrelated individuals with congenital hyperinsulinism. This variant is statistically more frequent in affected individuals than in the general population and/or healthy controls. Computational tools predict that this variant is damaging.

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

From Labcorp Genetics (formerly Invitae), Labcorp, SCV001389945.5

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (7)

Description

For these reasons, this variant has been classified as Pathogenic. This variant disrupts the p.Arg74 amino acid residue in ABCC8. Other variant(s) that disrupt this residue have been determined to be pathogenic (PMID: 14692646, 16429405, 24645945, 25518065). This suggests that this residue is clinically significant, and that variants that disrupt this residue are likely to be disease-causing. Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) performed at Invitae indicates that this missense variant is expected to disrupt ABCC8 protein function. ClinVar contains an entry for this variant (Variation ID: 495834). This missense change has been observed in individual(s) with autosomal recessive familial hyperinsulinism (PMID: 21992908, 23345197). In at least one individual the data is consistent with being in trans (on the opposite chromosome) from a pathogenic variant. This variant is present in population databases (rs72559734, gnomAD 0.003%). This sequence change replaces arginine, which is basic and polar, with glutamine, which is neutral and polar, at codon 74 of the ABCC8 protein (p.Arg74Gln).

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

From Genetic Services Laboratory, University of Chicago, SCV002069196.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providednot providednot providednot providednot providednot providednot provided

From GeneDx, SCV002574367.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testingnot provided

Description

In silico analysis supports that this missense variant has a deleterious effect on protein structure/function; This variant is associated with the following publications: (PMID: 33046911, 30352420, 9618169, 27810688, 23275527, 20685672, 21992908, 23345197)

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

Last Updated: Sep 29, 2024