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NM_014249.4(NR2E3):c.305C>A (p.Ala102Asp) AND not provided

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Oct 30, 2022
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:
RCV001857226.3

Allele description [Variation Report for NM_014249.4(NR2E3):c.305C>A (p.Ala102Asp)]

NM_014249.4(NR2E3):c.305C>A (p.Ala102Asp)

Gene:
NR2E3:nuclear receptor subfamily 2 group E member 3 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
15q23
Genomic location:
Preferred name:
NM_014249.4(NR2E3):c.305C>A (p.Ala102Asp)
HGVS:
  • NC_000015.10:g.71811825C>A
  • NG_009113.2:g.6271C>A
  • NM_014249.4:c.305C>AMANE SELECT
  • NM_016346.4:c.305C>A
  • NP_055064.1:p.Ala102Asp
  • NP_057430.1:p.Ala102Asp
  • NC_000015.9:g.72104165C>A
  • NM_014249.3:c.305C>A
  • NM_016346.3:c.305C>A
Protein change:
A102D
Links:
dbSNP: rs772881093
NCBI 1000 Genomes Browser:
rs772881093
Molecular consequence:
  • NM_014249.4:c.305C>A - missense variant - [Sequence Ontology: SO:0001583]
  • NM_016346.4:c.305C>A - missense variant - [Sequence Ontology: SO:0001583]

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
SCV002178602Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))
Uncertain significance
(Oct 30, 2022)
germlineclinical testing

PubMed (6)
[See all records that cite these PMIDs]

Summary from all submissions

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

Citations

PubMed

Clinical and molecular characterization of enhanced S-cone syndrome in children.

Hull S, Arno G, Sergouniotis PI, Tiffin P, Borman AD, Chandra A, Robson AG, Holder GE, Webster AR, Moore AT.

JAMA Ophthalmol. 2014 Nov;132(11):1341-9. doi: 10.1001/jamaophthalmol.2014.2343.

PubMed [citation]
PMID:
25079116

Macular cystoid spaces in patients with retinal dystrophy.

Lingao MD, Ganesh A, Karthikeyan AS, Al Zuhaibi S, Al-Hosni A, Al Khayat A, Capasso J, Trumler AA, Stroh E, Al Shekaili H, Cater JR, Levin AV.

Ophthalmic Genet. 2016 Dec;37(4):377-383. Epub 2016 Feb 19.

PubMed [citation]
PMID:
26894784
See all PubMed Citations (6)

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV002178602.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (6)

Description

This sequence change replaces alanine, which is neutral and non-polar, with aspartic acid, which is acidic and polar, at codon 102 of the NR2E3 protein (p.Ala102Asp). The frequency data for this variant in the population databases is considered unreliable, as metrics indicate poor data quality at this position in the gnomAD database. This missense change has been observed in individuals with enhanced S-cone syndrome and/or inherited retinal dystrophy (PMID: 25079116, 26894784, 28559085, 32581362, 32679203). ClinVar contains an entry for this variant (Variation ID: 438227). 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 NR2E3 protein function. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance.

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

Last Updated: Sep 29, 2024