NM_000070.3(CAPN3):c.1675T>C (p.Ser559Pro) AND not provided

Germline classification:: Uncertain significance (2 submissions)
Last evaluated:: Mar 27, 2019
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:: RCV000995302.25

Allele description [Variation Report for NM_000070.3(CAPN3):c.1675T>C (p.Ser559Pro)]

NM_000070.3(CAPN3):c.1675T>C (p.Ser559Pro)

Gene:

CAPN3:calpain 3 [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

15q15.1

Genomic location:

Preferred name:

NM_000070.3(CAPN3):c.1675T>C (p.Ser559Pro)

HGVS:

NC_000015.10:g.42402932T>C
NG_008660.1:g.59830T>C
NM_000070.2:c.1675T>C
NM_000070.3:c.1675T>CMANE SELECT
NM_024344.2:c.1675T>C
NM_173087.2:c.1531T>C
NM_173088.2:c.139T>C
NP_000061.1:p.Ser559Pro
NP_077320.1:p.Ser559Pro
NP_775110.1:p.Ser511Pro
NP_775111.1:p.Ser47Pro
LRG_849t1:c.1675T>C
LRG_849:g.59830T>C
LRG_849p1:p.Ser559Pro
NC_000015.9:g.42695130T>C

Protein change:

S47P

Links:

dbSNP: rs1595838688

NCBI 1000 Genomes Browser:

rs1595838688

Molecular consequence:

NM_000070.3:c.1675T>C - missense variant - [Sequence Ontology: SO:0001583]
NM_024344.2:c.1675T>C - missense variant - [Sequence Ontology: SO:0001583]
NM_173087.2:c.1531T>C - missense variant - [Sequence Ontology: SO:0001583]
NM_173088.2:c.139T>C - missense variant - [Sequence Ontology: SO:0001583]

Observations:

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

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proteasome assembly chaperone 3 [Homo sapiens]
proteasome assembly chaperone 3 [Homo sapiens]
gi|14150060|ref|NP_115678.1|

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV001149400	CeGaT Center for Human Genetics Tuebingen	criteria provided, single submitter (CeGaT Center For Human Genetics Tuebingen Variant Classification Criteria Version 2)	Uncertain significance (Jun 1, 2016)	germline	clinical testing	Citation Link,
SCV003828937	Revvity Omics, Revvity	criteria provided, single submitter (ACMG Guidelines, 2015)	Uncertain significance (Mar 27, 2019)	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

SCV001149400

CeGaT Center for Human Genetics Tuebingen

criteria provided, single submitter

(CeGaT Center For Human Genetics Tuebingen Variant Classification Criteria Version 2)

Uncertain significance
(Jun 1, 2016)

germline

clinical testing

Citation Link,

SCV003828937

Revvity Omics, Revvity

criteria provided, single submitter

(ACMG Guidelines, 2015)

Uncertain significance
(Mar 27, 2019)

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	yes	1	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

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 CeGaT Center for Human Genetics Tuebingen, SCV001149400.27

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

From Revvity Omics, Revvity, SCV003828937.2

#	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: Oct 20, 2024

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