NM_022455.5(NSD1):c.3389A>G (p.Glu1130Gly) AND Inborn genetic diseases

Germline classification:: Benign (1 submission)
Last evaluated:: Jan 16, 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:: RCV002453408.9

Allele description [Variation Report for NM_022455.5(NSD1):c.3389A>G (p.Glu1130Gly)]

NM_022455.5(NSD1):c.3389A>G (p.Glu1130Gly)

Gene:

NSD1:nuclear receptor binding SET domain protein 1 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

5q35.3

Genomic location:

Preferred name:

NM_022455.5(NSD1):c.3389A>G (p.Glu1130Gly)

HGVS:

NC_000005.10:g.177211788A>G
NG_009821.1:g.83710A>G
NM_001365684.2:c.2516A>G
NM_001409301.1:c.3389A>G
NM_001409302.1:c.3389A>G
NM_001409303.1:c.3389A>G
NM_001409304.1:c.2969A>G
NM_001409305.1:c.2636A>G
NM_001409306.1:c.2516A>G
NM_001409307.1:c.2516A>G
NM_001409308.1:c.2516A>G
NM_001409309.1:c.2516A>G
NM_022455.5:c.3389A>GMANE SELECT
NM_172349.5:c.2516A>G
NP_001352613.1:p.Glu861Gly
NP_001352613.2:p.Glu839Gly
NP_001396230.1:p.Glu1130Gly
NP_001396231.1:p.Glu1130Gly
NP_001396232.1:p.Glu1130Gly
NP_001396233.1:p.Glu990Gly
NP_001396234.1:p.Glu879Gly
NP_001396235.1:p.Glu839Gly
NP_001396236.1:p.Glu839Gly
NP_001396237.1:p.Glu839Gly
NP_001396238.1:p.Glu839Gly
NP_071900.2:p.Glu1130Gly
NP_071900.2:p.Glu1130Gly
NP_071900.2:p.Glu1130Gly
NP_758859.1:p.Glu861Gly
NP_758859.2:p.Glu839Gly
LRG_512t1:c.3389A>G
LRG_512:g.83710A>G
LRG_512p1:p.Glu1130Gly
NC_000005.9:g.176638789A>G
NM_001365684.1:c.2582A>G
NM_022455.4:c.3389A>G
NM_172349.3:c.2582A>G

Protein change:

E839G

Links:

dbSNP: rs113856002

NCBI 1000 Genomes Browser:

rs113856002

Molecular consequence:

NM_001365684.2:c.2516A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409301.1:c.3389A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409302.1:c.3389A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409303.1:c.3389A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409304.1:c.2969A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409305.1:c.2636A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409306.1:c.2516A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409307.1:c.2516A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409308.1:c.2516A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409309.1:c.2516A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_022455.5:c.3389A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_172349.5:c.2516A>G - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: Inborn genetic diseases
Identifiers:: MeSH: D030342; MedGen: C0950123

Recent activity

Clear Turn Off Turn On

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

Help

Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV002618241	Ambry Genetics	criteria provided, single submitter (Ambry Variant Classification Scheme 2023)	Benign (Jan 16, 2020)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV002618241

Ambry Genetics

criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)

Benign
(Jan 16, 2020)

germline

clinical testing

Citation Link

Help

Summary from all submissions

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

Details of each submission

From Ambry Genetics, SCV002618241.2

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

Description

This alteration is classified as benign based on a combination of the following: seen in unaffected individuals, population frequency, intact protein function, lack of segregation with disease, co-occurrence, RNA analysis, in silico models, amino acid conservation, lack of disease association in case-control studies, and/or the mechanism of disease or impacted region is inconsistent with a known cause of pathogenicity.

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

Last Updated: Nov 10, 2024

ClinVar

Relating variation to medicine