NM_002734.5(PRKAR1A):c.733A>G (p.Met245Val) AND Carney complex, type 1

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: May 20, 2023
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:: RCV000816902.7

Allele description [Variation Report for NM_002734.5(PRKAR1A):c.733A>G (p.Met245Val)]

NM_002734.5(PRKAR1A):c.733A>G (p.Met245Val)

Gene:

PRKAR1A:protein kinase cAMP-dependent type I regulatory subunit alpha [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

17q24.2

Genomic location:

Preferred name:

NM_002734.5(PRKAR1A):c.733A>G (p.Met245Val)

HGVS:

NC_000017.11:g.68527864A>G
NG_007093.3:g.119242A>G
NM_001276289.2:c.733A>G
NM_001276290.1:c.733A>G
NM_001278433.2:c.733A>G
NM_001369389.1:c.733A>G
NM_001369390.1:c.733A>G
NM_002734.3:c.733A>G
NM_002734.5:c.733A>GMANE SELECT
NM_212471.3:c.733A>G
NM_212472.2:c.733A>G
NP_001263218.1:p.Met245Val
NP_001263219.1:p.Met245Val
NP_001265362.1:p.Met245Val
NP_001356318.1:p.Met245Val
NP_001356319.1:p.Met245Val
NP_002725.1:p.Met245Val
NP_002725.1:p.Met245Val
NP_997636.1:p.Met245Val
NP_997637.1:p.Met245Val
LRG_514t1:c.733A>G
LRG_514t2:c.733A>G
LRG_514:g.119242A>G
LRG_514p1:p.Met245Val
LRG_514p2:p.Met245Val
NC_000017.10:g.66524005A>G
NM_002734.4:c.733A>G

Protein change:

M245V

Links:

dbSNP: rs773430995

NCBI 1000 Genomes Browser:

rs773430995

Molecular consequence:

NM_001276289.2:c.733A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001276290.1:c.733A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001278433.2:c.733A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001369389.1:c.733A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_001369390.1:c.733A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_002734.5:c.733A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_212471.3:c.733A>G - missense variant - [Sequence Ontology: SO:0001583]
NM_212472.2:c.733A>G - missense variant - [Sequence Ontology: SO:0001583]

Condition(s)

Name:: Carney complex, type 1 (CNC1)
Synonyms:: CARNEY MYXOMA-ENDOCRINE COMPLEX
Identifiers:: MONDO: MONDO:0008057; MedGen: C2607929; Orphanet: 1359; OMIM: 160980

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CHST12 [Rana temporaria]
CHST12 [Rana temporaria]
Gene ID:120943400

Gene
CSPG4 [Pelodiscus sinensis]
CSPG4 [Pelodiscus sinensis]
Gene ID:102456884

Gene

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000957431	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (May 20, 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

SCV000957431

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(May 20, 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	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, SCV000957431.4

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

Description

In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance. Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) performed at Invitae indicates that this missense variant is not expected to disrupt PRKAR1A protein function. ClinVar contains an entry for this variant (Variation ID: 659837). This variant has not been reported in the literature in individuals affected with PRKAR1A-related conditions. This variant is present in population databases (rs773430995, gnomAD 0.0009%). This sequence change replaces methionine, which is neutral and non-polar, with valine, which is neutral and non-polar, at codon 245 of the PRKAR1A protein (p.Met245Val).

#	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: Sep 29, 2024

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