NM_197968.4(ZMYM2):c.391C>T (p.Gln131Ter) AND Inborn genetic diseases

Germline classification:: Pathogenic (1 submission)
Last evaluated:: Feb 2, 2021
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:: RCV002749088.2

Allele description [Variation Report for NM_197968.4(ZMYM2):c.391C>T (p.Gln131Ter)]

NM_197968.4(ZMYM2):c.391C>T (p.Gln131Ter)

Gene:

ZMYM2:zinc finger MYM-type containing 2 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

13q12.11

Genomic location:

Preferred name:

NM_197968.4(ZMYM2):c.391C>T (p.Gln131Ter)

HGVS:

NC_000013.11:g.19993463C>T
NG_023348.2:g.39794C>T
NG_023348.3:g.134625C>T
NM_001190964.4:c.391C>T
NM_001190965.4:c.391C>T
NM_001353157.2:c.391C>T
NM_001353159.2:c.391C>T
NM_001353161.3:c.457C>T
NM_001353162.3:c.391C>T
NM_001353163.2:c.391C>T
NM_001353164.2:c.391C>T
NM_001353165.2:c.391C>T
NM_003453.6:c.391C>T
NM_197968.4:c.391C>TMANE SELECT
NP_001177893.1:p.Gln131Ter
NP_001177894.1:p.Gln131Ter
NP_001340086.1:p.Gln131Ter
NP_001340088.1:p.Gln131Ter
NP_001340090.1:p.Gln153Ter
NP_001340091.1:p.Gln131Ter
NP_001340092.1:p.Gln131Ter
NP_001340093.1:p.Gln131Ter
NP_001340094.1:p.Gln131Ter
NP_003444.1:p.Gln131Ter
NP_932072.1:p.Gln131Ter
NC_000013.10:g.20567603C>T
NM_003453.3:c.391C>T
NR_148365.2:n.585C>T

Protein change:

Q131*

Molecular consequence:

NR_148365.2:n.585C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NM_001190964.4:c.391C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001190965.4:c.391C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001353157.2:c.391C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001353159.2:c.391C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001353161.3:c.457C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001353162.3:c.391C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001353163.2:c.391C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001353164.2:c.391C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_001353165.2:c.391C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_003453.6:c.391C>T - nonsense - [Sequence Ontology: SO:0001587]
NM_197968.4:c.391C>T - nonsense - [Sequence Ontology: SO:0001587]

Condition(s)

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

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV003739473	Ambry Genetics	criteria provided, single submitter (Ambry Variant Classification Scheme 2023)	Pathogenic (Feb 2, 2021)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV003739473

Ambry Genetics

criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)

Pathogenic
(Feb 2, 2021)

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, SCV003739473.2

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

Description

The c.391C>T (p.Q131*) alteration, located in exon 4 (coding exon 1) of the ZMYM2 gene, consists of a C to T substitution at nucleotide position 391. This changes the amino acid from a glutamine (Q) to a stop codon at amino acid position 131. This alteration is expected to result in loss of function by premature protein truncation or nonsense-mediated mRNA decay. Based on data from the Genome Aggregation Database (gnomAD), the ZMYM2 c.391C>T alteration was not observed, with coverage at this position. Based on the available evidence, this alteration is classified as pathogenic.

#	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: May 1, 2024

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