VCV000003498.3 - ClinVar

NM_024426.6(WT1):c.1338C>G (p.His446Gln)

Germline

Classification

The aggregate germline classification for this variant, typically for a monogenic or Mendelian disorder as in the ACMG/AMP guidelines, or for response to a drug. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the aggregate classification.

(1)

Stars represent the aggregate review status, or the level of review supporting the aggregate germline classification for this VCV record. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status. The number of submissions which contribute to this review status is shown in parentheses.

Pathogenic

no assertion criteria provided

Somatic

No data submitted for somatic clinical impact

Somatic

No data submitted for oncogenicity

Variant Details

Identifiers

NM_024426.6(WT1):c.1338C>G (p.His446Gln)

Variation ID: 3498 Accession: VCV000003498.3

Type and length

single nucleotide variant, 1 bp

Location

Cytogenetic: 11p13 11: 32392682 (GRCh38) [ NCBI UCSC ] 11: 32414228 (GRCh37) [ NCBI UCSC ]

Timeline in ClinVar

	First in ClinVar Help The date this variant first appeared in ClinVar with each type of classification.	Last submission Help The date of the most recent submission for each type of classification for this variant.	Last evaluated Help The most recent date that a submitter evaluated this variant for each type of classification.
Germline	Oct 21, 2016	Oct 21, 2016	Oct 18, 2016

HGVS

Nucleotide	Protein	Molecular consequence
NM_024426.6:c.1338C>G MANE Select Help Transcripts from the Matched Annotation from the NCBI and EMBL-EBI (MANE) collaboration.	NP_077744.4:p.His446Gln	missense
NM_000378.6:c.1287C>G	NP_000369.4:p.His429Gln	missense
NM_001198551.2:c.687C>G	NP_001185480.1:p.His229Gln	missense
NM_001198552.2:c.636C>G	NP_001185481.1:p.His212Gln	missense
NM_001367854.1:c.150C>G	NP_001354783.1:p.His50Gln	missense
NM_001407044.1:c.1332C>G	NP_001393973.1:p.His444Gln	missense
NM_001407045.1:c.1287C>G	NP_001393974.1:p.His429Gln	missense
NM_001407046.1:c.1338C>G	NP_001393975.1:p.His446Gln	missense
NM_001407047.1:c.1215C>G	NP_001393976.1:p.His405Gln	missense
NM_001407049.1:c.1287C>G	NP_001393978.1:p.His429Gln	missense
NM_001407050.1:c.1164C>G	NP_001393979.1:p.His388Gln	missense
NM_001407051.1:c.576C>G	NP_001393980.1:p.His192Gln	missense
NM_024424.5:c.1338C>G	NP_077742.3:p.His446Gln	missense
NM_024425.2:c.1272C>G	NP_077743.2:p.His424Gln	missense
NR_160306.1:n.1670C>G		non-coding transcript variant
NR_176266.1:n.1619C>G
NC_000011.10:g.32392682G>C
NC_000011.9:g.32414228G>C
NG_009272.1:g.47860C>G
LRG_525:g.47860C>G
LRG_525t1:c.1323C>G	LRG_525p1:p.His441Gln
LRG_525t2:c.687C>G	LRG_525p2:p.His229Gln

... more HGVS ... less HGVS

Protein change

H229Q, H429Q, H212Q, H446Q, H50Q, H444Q, H192Q, H388Q, H405Q

Other names

WT1, HIS373GLN

Canonical SPDI

NC_000011.10:32392681:G:C

Functional consequence Help The effect of the variant on RNA or protein function, based on experimental evidence from submitters.

Global minor allele frequency (GMAF) Help The global minor allele frequency calculated by the 1000 Genomes Project. The minor allele at this location is indicated in parentheses and may be different from the allele represented by this VCV record.

Allele frequency Help The frequency of the allele represented by this VCV record.

Links

ClinGen: CA016292 OMIM: 607102.0015 dbSNP: rs121907907 VarSome

Comment on variant

NCBI staff reviewed the sequence information reported in PubMed 8388765 to determine the location of this allele on current reference sequence.

Genes

Gene	OMIM	ClinGen Gene Dosage Sensitivity Curation		Variation Viewer Help Links to Variation Viewer, a genome browser to view variation data from NCBI databases.	Related variants
Gene	OMIM	HI score Help The haploinsufficiency score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team.	TS score Help The triplosensitivity score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team.		Within gene Help The number of variants in ClinVar that are contained within this gene, with a link to view the list of variants.	All Help The number of variants in ClinVar for this gene, including smaller variants within the gene and larger CNVs that overlap or fully contain the gene.
WT1		Sufficient evidence for dosage pathogenicity	No evidence available	GRCh38 GRCh37	914	1672

Conditions - Germline

Condition Help The condition for this variant-condition (RCV) record in ClinVar.	Classification Help The aggregate germline classification for this variant-condition (RCV) record in ClinVar. The number of submissions that contribute to this aggregate classification is shown in parentheses. (# of submissions)	Review status Help The aggregate review status for this variant-condition (RCV) record in ClinVar. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status.	Last evaluated Help The most recent date that a submitter evaluated this variant for the condition.	Variation/condition record Help The RCV accession number, with most recent version number, for the variant-condition record, with a link to the RCV web page.
Drash syndrome	Pathogenic (1)	no assertion criteria provided	Oct 18, 2016	RCV000003672.5

Submissions - Germline

Classification Help The submitted germline classification for each SCV record. (Last evaluated)	Review status Help Stars represent the review status, or the level of review supporting the submitted (SCV) record. This value is calculated by NCBI based on data from the submitter. Read our rules for calculating the review status. This column also includes a link to the submitter’s assertion criteria if provided, and the collection method. (Assertion criteria)	Condition Help The condition for the classification, provided by the submitter for this submitted (SCV) record. This column also includes the affected status and allele origin of individuals observed with this variant.	Submitter Help The submitting organization for this submitted (SCV) record. This column also includes the SCV accession and version number, the date this SCV first appeared in ClinVar, and the date that this SCV was last updated in ClinVar.	More information Help This column includes more information supporting the classification, including citations, the comment on classification, and detailed evidence provided as observations of the variant by the submitter.
Pathogenic (Oct 18, 2016)	no assertion criteria provided Method: literature only	DENYS-DRASH SYNDROME Affected status: not provided Allele origin: germline	OMIM Accession: SCV000023835.2 First in ClinVar: Apr 04, 2013 Last updated: Oct 21, 2016	Publications: PubMed (1) PubMed: 9090524 Comment on evidence: In a 46,XY patient with hypospadias and nephropathy consistent with Denys-Drash syndrome (194080), Little et al. (1993) identified a C-to-G transversion in the WT1 gene, … (more) In a 46,XY patient with hypospadias and nephropathy consistent with Denys-Drash syndrome (194080), Little et al. (1993) identified a C-to-G transversion in the WT1 gene, resulting in a his373-to-gln (H373Q) substitution in zinc finger-2. (less)

Germline Functional Evidence

There is no functional evidence in ClinVar for this variation. If you have generated functional data for this variation, please consider submitting that data to ClinVar.

Citations for germline classification of this variant

Title	Author	Journal	Year	Link
A clinical overview of WT1 gene mutations.	Little M	Human mutation	1997	PMID: 9090524

Text-mined citations for rs121907907 ...

These citations are identified by LitVar using the rs number, so they may include citations for more than one variant at this location. Please review the LitVar results carefully for your variant of interest.

Record last updated Nov 05, 2022

ClinVar Genomic variation as it relates to human health

NM_024426.6(WT1):c.1338C>G (p.His446Gln)

Variant Details

Genes

Conditions - Germline

Submissions - Germline

Germline Functional Evidence

Citations for germline classification of this variant

Text-mined citations for rs121907907 ...