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NM_000784.4(CYP27A1):c.1175A>C (p.Glu392Ala) AND Cholestanol storage disease

Germline classification:
Uncertain significance (2 submissions)
Last evaluated:
Jul 6, 2022
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:
RCV000665470.6

Allele description [Variation Report for NM_000784.4(CYP27A1):c.1175A>C (p.Glu392Ala)]

NM_000784.4(CYP27A1):c.1175A>C (p.Glu392Ala)

Gene:
CYP27A1:cytochrome P450 family 27 subfamily A member 1 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
2q35
Genomic location:
Preferred name:
NM_000784.4(CYP27A1):c.1175A>C (p.Glu392Ala)
HGVS:
  • NC_000002.12:g.218814178A>C
  • NG_007959.1:g.37430A>C
  • NM_000784.4:c.1175A>CMANE SELECT
  • NP_000775.1:p.Glu392Ala
  • NC_000002.11:g.219678901A>C
  • NM_000784.3:c.1175A>C
Protein change:
E392A
Links:
dbSNP: rs1245201394
NCBI 1000 Genomes Browser:
rs1245201394
Molecular consequence:
  • NM_000784.4:c.1175A>C - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:
Cholestanol storage disease (CTX)
Synonyms:
Cerebral cholesterinosis; CTX: Cerebrotendinous xanthomatosis; Cerebrotendinous Xanthomatosis
Identifiers:
MONDO: MONDO:0008948; MedGen: C0238052; Orphanet: 909; OMIM: 213700

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV000789600Counsyl
criteria provided, single submitter

(Counsyl Autosomal Recessive and X-Linked Classification Criteria (2018))
Uncertain significance
(Feb 7, 2017)
unknownclinical testing

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

Citation Link,

SCV002165306Labcorp Genetics (formerly Invitae), Labcorp
criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))
Uncertain significance
(Jul 6, 2022)
germlineclinical testing

PubMed (3)
[See all records that cite these PMIDs]

Summary from all submissions

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

Citations

PubMed

Oromandibular dystonia as a complication of cerebrotendinous xanthomatosis.

Alcalay R, Wu S, Patel S, Frucht S.

Mov Disord. 2009 Jul 15;24(9):1397-9. doi: 10.1002/mds.22585. No abstract available.

PubMed [citation]
PMID:
19373932

[Analysis of a cerebrotendinous xanthomatosis case with mental retardation as the initial symptom].

Zhang L, Zhang L, Nian N, Yu X, Shi Y, Yan Y, Sun D, Cheng N, Wang X, Yang R.

Zhonghua Yi Xue Yi Chuan Xue Za Zhi. 2016 Aug;33(4):476-80. doi: 10.3760/cma.j.issn.1003-9406.2016.04.010. Chinese.

PubMed [citation]
PMID:
27455001
See all PubMed Citations (3)

Details of each submission

From Counsyl, SCV000789600.1

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

From Labcorp Genetics (formerly Invitae), Labcorp, SCV002165306.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (3)

Description

This sequence change replaces glutamic acid, which is acidic and polar, with alanine, which is neutral and non-polar, at codon 392 of the CYP27A1 protein (p.Glu392Ala). This variant is present in population databases (no rsID available, gnomAD 0.0009%). This missense change has been observed in individual(s) with cerebrotendinous xanthomatosis (PMID: 19373932). This variant is also known as E359A. ClinVar contains an entry for this variant (Variation ID: 500465). 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 CYP27A1 protein function. This variant disrupts the p.Glu392 amino acid residue in CYP27A1. Other variant(s) that disrupt this residue have been observed in individuals with CYP27A1-related conditions (PMID: 27455001), which suggests that this may be a clinically significant amino acid residue. 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