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NM_012476.3(VAX2):c.371G>C (p.Cys124Ser) AND not provided

Germline classification:
Uncertain significance (1 submission)
Last evaluated:
Oct 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:
RCV003456564.1

Allele description [Variation Report for NM_012476.3(VAX2):c.371G>C (p.Cys124Ser)]

NM_012476.3(VAX2):c.371G>C (p.Cys124Ser)

Gene:
VAX2:ventral anterior homeobox 2 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
2p13.3
Genomic location:
Preferred name:
NM_012476.3(VAX2):c.371G>C (p.Cys124Ser)
HGVS:
  • NC_000002.12:g.70921221G>C
  • NG_030009.1:g.25632G>C
  • NM_012476.3:c.371G>CMANE SELECT
  • NP_036608.1:p.Cys124Ser
  • NC_000002.11:g.71148351G>C
  • NM_012476.2:c.371G>C
Protein change:
C124S
Molecular consequence:
  • NM_012476.3:c.371G>C - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV004177106Clinical Genomics Laboratory, Washington University in St. Louis
criteria provided, single submitter

(ACMG Guidelines, 2015)		Uncertain significance
(Oct 23, 2023) 		germlineclinical testing

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

Help

Summary from all submissions

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

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

Details of each submission

From Clinical Genomics Laboratory, Washington University in St. Louis, SCV004177106.1

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

Description

The VAX2 c.371G>C (p.Cys124Ser) variant, to our knowledge, has not been reported in the medical literature and is only observed on 2/250,150 alleles in the general population (gnomAD v.2.1.1), indicating it is not a common variant. This variant changes a nonpolar cysteine to a polar serine, the variant resides within the homeobox region at the end of a helix, and computational predictors indicate that the variant is damaging, evidence that correlates with impact to VAX2 function. Due to limited information, the clinical significance of this variant is uncertain.

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

Last Updated: May 12, 2024