NM_000095.3(COMP):c.1114GAC[2] (p.Asp374del) AND not provided

Germline classification:: Pathogenic (1 submission)
Last evaluated:: Nov 18, 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:: RCV001901762.4

Allele description [Variation Report for NM_000095.3(COMP):c.1114GAC[2] (p.Asp374del)]

NM_000095.3(COMP):c.1114GAC[2] (p.Asp374del)

Gene:

COMP:cartilage oligomeric matrix protein [Gene - OMIM - HGNC]

Variant type:

Microsatellite

Cytogenetic location:

19p13.11

Genomic location:

Preferred name:

NM_000095.3(COMP):c.1114GAC[2] (p.Asp374del)

HGVS:

NC_000019.10:g.18787505TCG[2]
NG_007070.1:g.8794GAC[2]
NM_000095.3:c.1114GAC[2]MANE SELECT
NP_000086.2:p.Asp374del
NC_000019.9:g.18898313_18898315del
NC_000019.9:g.18898314TCG[2]
NM_000095.3:c.1120_1122delMANE SELECT

Protein change:

D374del

Links:

OMIM: 600310.0018; dbSNP: rs1198060288

NCBI 1000 Genomes Browser:

rs1198060288

Molecular consequence:

NM_000095.3:c.1114GAC[2] - inframe_deletion - [Sequence Ontology: SO:0001822]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

Recent activity

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Pongo abelii TRNP1 upstream 1 regulatory element genomic sequence
Pongo abelii TRNP1 upstream 1 regulatory element genomic sequence
gi|2034478256|gb|MW373687.1|

Nucleotide
GNB1 G protein subunit beta 1 [Homo sapiens]
GNB1 G protein subunit beta 1 [Homo sapiens]
Gene ID:2782

Gene
Gene Links for GEO Profiles (Select 132628993) (1)
Gene
Profile neighbors for GEO Profiles (Select 132644003) (6)
GEO Profiles
Homo sapiens chromosome 6, GRCh38.p14 Primary Assembly
Homo sapiens chromosome 6, GRCh38.p14 Primary Assembly
gi|568815592|gnl|ASM:GCF_000001305| |NC_000006.12||gpp|GPC_000001298.1||gnl|NCBI_GENOMES|6

Nucleotide

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV002176254	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Pathogenic (Nov 18, 2021)	germline	clinical testing	PubMed (4) [See all records that cite these PMIDs] 7670472, 21965141, 24595329, 28492532

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV002176254

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Pathogenic
(Nov 18, 2021)

germline

clinical testing

PubMed (4)
[See all records that cite these PMIDs]

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

Pseudoachondroplasia and multiple epiphyseal dysplasia due to mutations in the cartilage oligomeric matrix protein gene.

Briggs MD, Hoffman SM, King LM, Olsen AS, Mohrenweiser H, Leroy JG, Mortier GR, Rimoin DL, Lachman RS, Gaines ES, et al.

Nat Genet. 1995 Jul;10(3):330-6.

PubMed [citation]

PMID:: 7670472

Revisit of multiple epiphyseal dysplasia: ethnic difference in genotypes and comparison of radiographic features linked to the COMP and MATN3 genes.

Kim OH, Park H, Seong MW, Cho TJ, Nishimura G, Superti-Furga A, Unger S, Ikegawa S, Choi IH, Song HR, Kim HW, Yoo WJ, Shim JS, Chung CY, Oh CW, Jeong C, Song KS, Seo SG, Cho SI, Yeo IK, Kim SY, Park S, et al.

Am J Med Genet A. 2011 Nov;155A(11):2669-80. doi: 10.1002/ajmg.a.34246. Epub 2011 Sep 30.

PubMed [citation]

PMID:: 21965141

See all PubMed Citations (4)

Details of each submission

From Labcorp Genetics (formerly Invitae), Labcorp, SCV002176254.3

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	PubMed (4)

Description

For these reasons, this variant has been classified as Pathogenic. This variant has been observed in individual(s) with multiple epiphyseal dysplasia and/or pseudoachondroplasia (PMID: 7670472, 21965141, 24595329). In at least one individual the variant was observed to be de novo. This variant is not present in population databases (gnomAD no frequency). This variant, c.1120_1122del, results in the deletion of 1 amino acid(s) of the COMP protein (p.Asp374del), but otherwise preserves the integrity of the reading frame.

#	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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