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NM_000527.5(LDLR):c.2242G>A (p.Asp748Asn) AND not provided

Germline classification:
Uncertain significance (2 submissions)
Last evaluated:
May 23, 2023
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:
RCV000162012.4

Allele description [Variation Report for NM_000527.5(LDLR):c.2242G>A (p.Asp748Asn)]

NM_000527.5(LDLR):c.2242G>A (p.Asp748Asn)

Gene:
LDLR:low density lipoprotein receptor [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
19p13.2
Genomic location:
Preferred name:
NM_000527.5(LDLR):c.2242G>A (p.Asp748Asn)
Other names:
NP_000518.1:p.D748N
HGVS:
  • NC_000019.10:g.11123275G>A
  • NG_009060.1:g.38895G>A
  • NM_000527.5:c.2242G>AMANE SELECT
  • NM_001195798.2:c.2242G>A
  • NM_001195799.2:c.2119G>A
  • NM_001195800.2:c.1738G>A
  • NM_001195803.2:c.1708G>A
  • NP_000518.1:p.Asp748Asn
  • NP_000518.1:p.Asp748Asn
  • NP_001182727.1:p.Asp748Asn
  • NP_001182728.1:p.Asp707Asn
  • NP_001182729.1:p.Asp580Asn
  • NP_001182732.1:p.Asp570Asn
  • LRG_274t1:c.2242G>A
  • LRG_274:g.38895G>A
  • LRG_274p1:p.Asp748Asn
  • NC_000019.9:g.11233951G>A
  • NM_000527.4:c.2242G>A
  • c.2242G>A
Protein change:
D570N
Links:
LDLR-LOVD, British Heart Foundation: LDLR_000290; dbSNP: rs150104358
NCBI 1000 Genomes Browser:
rs150104358
Molecular consequence:
  • NM_000527.5:c.2242G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001195798.2:c.2242G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001195799.2:c.2119G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001195800.2:c.1738G>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_001195803.2:c.1708G>A - missense variant - [Sequence Ontology: SO:0001583]
Functional consequence:
unknown functional consequence - Comment(s)

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
SCV000189588Dept. of Genetics and Pharmacogenomics, Merck Research Labs
no classification provided

(in vitro)
not providednot applicablein vitro

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

SCV004219974Quest Diagnostics Nichols Institute San Juan Capistrano
criteria provided, single submitter

(Quest Diagnostics criteria)
Uncertain significance
(May 23, 2023)
unknownclinical testing

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

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providednot applicablenot applicablenot providednot providednot providednot providednot providedin vitro
not providedunknownunknownnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Polygenic Versus Monogenic Causes of Hypercholesterolemia Ascertained Clinically.

Wang J, Dron JS, Ban MR, Robinson JF, McIntyre AD, Alazzam M, Zhao PJ, Dilliott AA, Cao H, Huff MW, Rhainds D, Low-Kam C, Dubé MP, Lettre G, Tardif JC, Hegele RA.

Arterioscler Thromb Vasc Biol. 2016 Dec;36(12):2439-2445. Epub 2016 Oct 20.

PubMed [citation]
PMID:
27765764

Low-density lipoprotein receptor gene familial hypercholesterolemia variant database: update and pathological assessment.

Usifo E, Leigh SE, Whittall RA, Lench N, Taylor A, Yeats C, Orengo CA, Martin AC, Celli J, Humphries SE.

Ann Hum Genet. 2012 Sep;76(5):387-401. doi: 10.1111/j.1469-1809.2012.00724.x.

PubMed [citation]
PMID:
22881376
See all PubMed Citations (7)

Details of each submission

From Dept. of Genetics and Pharmacogenomics, Merck Research Labs, SCV000189588.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedin vitro PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1not applicablenot applicablenot providednot providednot providednot providednot providednot providednot provided

From Quest Diagnostics Nichols Institute San Juan Capistrano, SCV004219974.1

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

Description

In the published literature, this variant has been reported in individuals with suspected to severe hypercholesterolemia (PMIDs: 27765764 (2016), 27044878 (2017), 32044282 (2020)) and individuals with early-onset myocardial infarction (PMIDs: 25647241 (2015) and 25487149 (2015)). An in vitro functional study indicated an inconclusive effect of this variant on LDLR function (PMID: 25647241 (2015)). The frequency of this variant in the general population, 0.00052 (16/30616 chromosomes (Genome Aggregation Database, http://gnomad.broadinstitute.org)), is uninformative in the assessment of its pathogenicity. Analysis of this variant using bioinformatics tools for the prediction of the effect of amino acid changes on protein structure and function yielded predictions that this variant is benign. Based on the available information, we are unable to determine the clinical significance of this variant.

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

Last Updated: Sep 29, 2024