NM_003482.4(KMT2D):c.15889A>T (p.Thr5297Ser) AND not provided

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Oct 13, 2020
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:: RCV001769195.2

Allele description [Variation Report for NM_003482.4(KMT2D):c.15889A>T (p.Thr5297Ser)]

NM_003482.4(KMT2D):c.15889A>T (p.Thr5297Ser)

Gene:

KMT2D:lysine methyltransferase 2D [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

12q13.12

Genomic location:

Preferred name:

NM_003482.4(KMT2D):c.15889A>T (p.Thr5297Ser)

HGVS:

NC_000012.12:g.49024842T>A
NG_027827.1:g.35483A>T
NM_003482.4:c.15889A>TMANE SELECT
NP_003473.3:p.Thr5297Ser
NC_000012.11:g.49418625T>A
NM_003482.3:c.15889A>T

Protein change:

T5297S

Links:

dbSNP: rs2137711517

NCBI 1000 Genomes Browser:

rs2137711517

Molecular consequence:

NM_003482.4:c.15889A>T - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

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Lysosomal-associated membrane protein 1 [Mus musculus]
Lysosomal-associated membrane protein 1 [Mus musculus]
gi|29145014|gb|AAH49097.1|

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV002003326	GeneDx	criteria provided, single submitter (GeneDx Variant Classification Process June 2021)	Uncertain significance (Oct 13, 2020)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV002003326

GeneDx

criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)

Uncertain significance
(Oct 13, 2020)

germline

clinical testing

Citation Link

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Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	yes	not provided	not provided	not provided	not provided	not provided	clinical testing

Details of each submission

From GeneDx, SCV002003326.2

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	not provided

Description

Not observed in large population cohorts (Lek et al., 2016); In silico analysis supports that this missense variant has a deleterious effect on protein structure/function; Has not been previously published as pathogenic or benign to our knowledge

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	yes	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Dec 24, 2023

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