NM_022455.5(NSD1):c.1763A>G (p.Asp588Gly) AND Sotos syndrome

Germline classification:: Likely benign (1 submission)
Last evaluated:: Jul 8, 2022
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:: RCV003232385.9

Allele description [Variation Report for NM_022455.5(NSD1):c.1763A>G (p.Asp588Gly)]

NM_022455.5(NSD1):c.1763A>G (p.Asp588Gly)

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.1763A>G (p.Asp588Gly)

HGVS:

NC_000005.10:g.177210162A>G
NG_009821.1:g.82084A>G
NM_001365684.2:c.890A>G
NM_001409301.1:c.1763A>G
NM_001409302.1:c.1763A>G
NM_001409303.1:c.1763A>G
NM_001409304.1:c.1343A>G
NM_001409305.1:c.1010A>G
NM_001409306.1:c.890A>G
NM_001409307.1:c.890A>G
NM_001409308.1:c.890A>G
NM_001409309.1:c.890A>G
NM_022455.5:c.1763A>GMANE SELECT
NM_172349.5:c.890A>G
NP_001352613.1:p.Asp319Gly
NP_001352613.2:p.Asp297Gly
NP_001396230.1:p.Asp588Gly
NP_001396231.1:p.Asp588Gly
NP_001396232.1:p.Asp588Gly
NP_001396233.1:p.Asp448Gly
NP_001396234.1:p.Asp337Gly
NP_001396235.1:p.Asp297Gly
NP_001396236.1:p.Asp297Gly
NP_001396237.1:p.Asp297Gly
NP_001396238.1:p.Asp297Gly
NP_071900.2:p.Asp588Gly
NP_071900.2:p.Asp588Gly
NP_758859.1:p.Asp319Gly
NP_758859.2:p.Asp297Gly
LRG_512t1:c.1763A>G
LRG_512:g.82084A>G
LRG_512p1:p.Asp588Gly
NC_000005.9:g.176637163A>G
NM_001365684.1:c.956A>G
NM_022455.4:c.1763A>G
NM_172349.3:c.956A>G

Protein change:

D297G

Links:

dbSNP: rs1046371505

NCBI 1000 Genomes Browser:

rs1046371505

Molecular consequence:

NM_001365684.2:c.890A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409301.1:c.1763A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409302.1:c.1763A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409303.1:c.1763A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409304.1:c.1343A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409305.1:c.1010A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409306.1:c.890A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409307.1:c.890A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409308.1:c.890A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001409309.1:c.890A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_022455.5:c.1763A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_172349.5:c.890A>G - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: Sotos syndrome (SOTOS)
Synonyms:: Sotos' syndrome; Cerebral gigantism; Distinctive facial appearance, overgrowth in childhood, and learning disabilities or delayed development; See all synonyms [MedGen]
Identifiers:: MONDO: MONDO:0019349; MedGen: C0175695; Orphanet: 821; OMIM: 117550

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV003517306	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Likely benign (Jul 8, 2022)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV003517306

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Likely benign
(Jul 8, 2022)

germline

clinical testing

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

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

Citations

PubMed

Sherloc: a comprehensive refinement of the ACMG-AMP variant classification criteria.

Nykamp K, Anderson M, Powers M, Garcia J, Herrera B, Ho YY, Kobayashi Y, Patil N, Thusberg J, Westbrook M; Invitae Clinical Genomics Group, Topper S.

Genet Med. 2017 Oct;19(10):1105-1117. doi: 10.1038/gim.2017.37. Epub 2017 May 11. Erratum in: Genet Med. 2020 Jan;22(1):240. doi: 10.1038/s41436-019-0624-9.

PubMed [citation]

PMID:: 28492532
PMCID:: PMC5632818

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV003517306.1

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

#	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 24, 2024

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