NM_001172509.2(SATB2):c.158A>G (p.Lys53Arg) AND Chromosome 2q32-q33 deletion syndrome

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Jul 31, 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:: RCV003142743.3

Allele description [Variation Report for NM_001172509.2(SATB2):c.158A>G (p.Lys53Arg)]

NM_001172509.2(SATB2):c.158A>G (p.Lys53Arg)

Gene:

SATB2:SATB homeobox 2 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

2q33.1

Genomic location:

Preferred name:

NM_001172509.2(SATB2):c.158A>G (p.Lys53Arg)

HGVS:

NC_000002.12:g.199455880T>C
NG_016976.2:g.20387A>G
NM_001172509.2:c.158A>GMANE SELECT
NM_001172517.1:c.158A>G
NM_015265.4:c.158A>G
NP_001165980.1:p.Lys53Arg
NP_001165988.1:p.Lys53Arg
NP_056080.1:p.Lys53Arg
NC_000002.11:g.200320603T>C
NM_015265.3:c.158A>G
NR_134967.2:n.818A>G

Protein change:

K53R

Molecular consequence:

NM_001172509.2:c.158A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001172517.1:c.158A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_015265.4:c.158A>G - missense variant - [Sequence Ontology: SO:0001583]
NR_134967.2:n.818A>G - non-coding transcript variant - [Sequence Ontology: SO:0001619]

Condition(s)

Name:: Chromosome 2q32-q33 deletion syndrome (GLASS)
Synonyms:: Glass syndrome; 2q33.1 deletion syndrome
Identifiers:: MONDO: MONDO:0012864; MedGen: C2676739; Orphanet: 251019; OMIM: 612313

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV003820660	Revvity Omics, Revvity	criteria provided, single submitter (ACMG Guidelines, 2015)	Uncertain significance (Jul 31, 2020)	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

SCV003820660

Revvity Omics, Revvity

criteria provided, single submitter

(ACMG Guidelines, 2015)

Uncertain significance
(Jul 31, 2020)

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

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 Revvity Omics, Revvity, SCV003820660.2

#	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: Mar 16, 2024

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