NM_000535.7(PMS2):c.1488C>T (p.His496=) AND not provided

Germline classification:: Benign (2 submissions)
Last evaluated:: May 22, 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:: RCV001682757.19

Allele description [Variation Report for NM_000535.7(PMS2):c.1488C>T (p.His496=)]

NM_000535.7(PMS2):c.1488C>T (p.His496=)

Gene:

PMS2:PMS1 homolog 2, mismatch repair system component [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

7p22.1

Genomic location:

Preferred name:

NM_000535.7(PMS2):c.1488C>T (p.His496=)

HGVS:

NC_000007.14:g.5987277G>A
NG_008466.1:g.26830C>T
NM_000535.7:c.1488C>TMANE SELECT
NM_001322003.2:c.1083C>T
NM_001322004.2:c.1083C>T
NM_001322005.2:c.1083C>T
NM_001322006.2:c.1332C>T
NM_001322007.2:c.1170C>T
NM_001322008.2:c.1170C>T
NM_001322009.2:c.1083C>T
NM_001322010.2:c.927C>T
NM_001322011.2:c.555C>T
NM_001322012.2:c.555C>T
NM_001322013.2:c.915C>T
NM_001322014.2:c.1488C>T
NM_001322015.2:c.1179C>T
NP_000526.2:p.His496=
NP_001308932.1:p.His361=
NP_001308933.1:p.His361=
NP_001308934.1:p.His361=
NP_001308935.1:p.His444=
NP_001308936.1:p.His390=
NP_001308937.1:p.His390=
NP_001308938.1:p.His361=
NP_001308939.1:p.His309=
NP_001308940.1:p.His185=
NP_001308941.1:p.His185=
NP_001308942.1:p.His305=
NP_001308943.1:p.His496=
NP_001308944.1:p.His393=
LRG_161t1:c.1488C>T
LRG_161:g.26830C>T
NC_000007.13:g.6026908G>A
NM_000535.5:c.1488C>T
NM_000535.6:c.1488C>T
NR_136154.1:n.1575C>T
p.H496H
p.His496His

Links:

dbSNP: rs1805320

NCBI 1000 Genomes Browser:

rs1805320

Molecular consequence:

NR_136154.1:n.1575C>T - non-coding transcript variant - [Sequence Ontology: SO:0001619]
NM_000535.7:c.1488C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322003.2:c.1083C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322004.2:c.1083C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322005.2:c.1083C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322006.2:c.1332C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322007.2:c.1170C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322008.2:c.1170C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322009.2:c.1083C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322010.2:c.927C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322011.2:c.555C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322012.2:c.555C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322013.2:c.915C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322014.2:c.1488C>T - synonymous variant - [Sequence Ontology: SO:0001819]
NM_001322015.2:c.1179C>T - synonymous variant - [Sequence Ontology: SO:0001819]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000884398	ARUP Laboratories, Molecular Genetics and Genomics, ARUP Laboratories	criteria provided, single submitter (ARUP Molecular Germline Variant Investigation Process 2024)	Benign (May 22, 2023)	germline	clinical testing	Citation Link,
SCV001901682	GeneDx	criteria provided, single submitter (GeneDx Variant Classification Process June 2021)	Benign (Mar 3, 2015)	germline	clinical testing	Citation Link

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV000884398

ARUP Laboratories, Molecular Genetics and Genomics, ARUP Laboratories

criteria provided, single submitter

(ARUP Molecular Germline Variant Investigation Process 2024)

Benign
(May 22, 2023)

germline

clinical testing

Citation Link,

SCV001901682

GeneDx

criteria provided, single submitter

(GeneDx Variant Classification Process June 2021)

Benign
(Mar 3, 2015)

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	yes	not provided	not provided	not provided	not provided	not provided	clinical testing
not provided	germline	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing

Details of each submission

From ARUP Laboratories, Molecular Genetics and Genomics, ARUP Laboratories, SCV000884398.9

#	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	germline	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

From GeneDx, SCV001901682.1

#	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	germline	yes	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Nov 24, 2024

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