U.S. flag

An official website of the United States government

NM_001197104.2(KMT2A):c.3634+1G>A AND Wiedemann-Steiner syndrome

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Oct 2, 2021
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:
RCV001775371.1

Allele description [Variation Report for NM_001197104.2(KMT2A):c.3634+1G>A]

NM_001197104.2(KMT2A):c.3634+1G>A

Gene:
KMT2A:lysine methyltransferase 2A [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
11q23.3
Genomic location:
Preferred name:
NM_001197104.2(KMT2A):c.3634+1G>A
HGVS:
  • NC_000011.10:g.118480239G>A
  • NG_027813.1:g.48750G>A
  • NM_001197104.2:c.3634+1G>AMANE SELECT
  • NM_001412597.1:c.3733+1G>A
  • NM_005933.4:c.3634+1G>A
  • LRG_613t1:c.3634+1G>A
  • LRG_613:g.48750G>A
  • NC_000011.9:g.118350954G>A
  • NM_001197104.1:c.3634+1G>A
Links:
dbSNP: rs2134293919
NCBI 1000 Genomes Browser:
rs2134293919
Molecular consequence:
  • NM_001197104.2:c.3634+1G>A - splice donor variant - [Sequence Ontology: SO:0001575]
  • NM_001412597.1:c.3733+1G>A - splice donor variant - [Sequence Ontology: SO:0001575]
  • NM_005933.4:c.3634+1G>A - splice donor variant - [Sequence Ontology: SO:0001575]
Observations:
1

Condition(s)

Name:
Wiedemann-Steiner syndrome (WDSTS)
Synonyms:
Growth deficiency and mental retardation with facial dysmorphism
Identifiers:
MONDO: MONDO:0011518; MedGen: C1854630; OMIM: 605130

Recent activity

Clear Turn Off Turn On

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

See more...

Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV0020122023billion
criteria provided, single submitter

(ACMG Guidelines, 2015)		Pathogenic
(Oct 2, 2021) 		germlineclinical testing

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

Help

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyes1not providednot provided1not 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 3billion, SCV002012202.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not provided1not providednot providedclinical testing PubMed (1)

Description

Canonical splice site: predicted to alter splicing and result in a loss or disruption of normal protein function through nonsense-mediated decay (NMD) or protein truncation. Multiple pathogenic variants are reported downstream of the variant (PVS1_VS). It is not observed in the gnomAD v2.1.1 dataset (PM2). The variant was observed as assumed (i.e. paternity and maternity not confirmed) de novoo (3billion dataset, PM6). Therefore, this variant is classified as pathogenic according to the recommendation of ACMG/AMP guideline.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyes1not providednot provided1not providednot providednot provided

Last Updated: Dec 24, 2023