NM_015100.4(POGZ):c.2789C>G (p.Pro930Arg) AND Intellectual disability-microcephaly-strabismus-behavioral abnormalities syndrome

Germline classification:: Likely benign (2 submissions)
Last evaluated:: Apr 11, 2023
Review status:: 2 stars out of maximum of 4 stars
criteria provided, multiple submitters, no conflicts

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:: RCV000986410.9

Allele description [Variation Report for NM_015100.4(POGZ):c.2789C>G (p.Pro930Arg)]

NM_015100.4(POGZ):c.2789C>G (p.Pro930Arg)

Gene:

POGZ:pogo transposable element derived with ZNF domain [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

1q21.3

Genomic location:

Preferred name:

NM_015100.4(POGZ):c.2789C>G (p.Pro930Arg)

HGVS:

NC_000001.11:g.151406246G>C
NG_046601.1:g.58220C>G
NM_001194937.2:c.2762C>G
NM_001194938.2:c.2603C>G
NM_015100.4:c.2789C>GMANE SELECT
NM_145796.4:c.2504C>G
NM_207171.2:c.2630C>G
NP_001181866.1:p.Pro921Arg
NP_001181867.1:p.Pro868Arg
NP_055915.2:p.Pro930Arg
NP_665739.3:p.Pro835Arg
NP_997054.1:p.Pro877Arg
NC_000001.10:g.151378722G>C
NM_015100.3:c.2789C>G

Protein change:

P835R

Links:

dbSNP: rs145570114

NCBI 1000 Genomes Browser:

rs145570114

Molecular consequence:

NM_001194937.2:c.2762C>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001194938.2:c.2603C>G - missense variant - [Sequence Ontology: SO:0001583]
NM_015100.4:c.2789C>G - missense variant - [Sequence Ontology: SO:0001583]
NM_145796.4:c.2504C>G - missense variant - [Sequence Ontology: SO:0001583]
NM_207171.2:c.2630C>G - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: Intellectual disability-microcephaly-strabismus-behavioral abnormalities syndrome
Identifiers:: MONDO: MONDO:0014606; MedGen: C4225351; OMIM: 616364

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV001135407	Mendelics	criteria provided, single submitter (Mendelics Assertion Criteria 2017)	Likely benign (May 28, 2019)	unknown	clinical testing	Citation Link,
SCV004049798	Genome-Nilou Lab	criteria provided, single submitter (ACMG Guidelines, 2015)	Likely benign (Apr 11, 2023)	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

SCV001135407

Mendelics

criteria provided, single submitter

(Mendelics Assertion Criteria 2017)

Likely benign
(May 28, 2019)

unknown

clinical testing

Citation Link,

SCV004049798

Genome-Nilou Lab

criteria provided, single submitter

(ACMG Guidelines, 2015)

Likely benign
(Apr 11, 2023)

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	unknown	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing
not provided	germline	no	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 Mendelics, SCV001135407.1

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

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

From Genome-Nilou Lab, SCV004049798.1

#	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	no	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Nov 10, 2024

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