ClinVar Genomic variation as it relates to human health
NM_024422.6(DSC2):c.2686_2687dup (p.Ala897fs)
The aggregate germline classification for this variant, typically for a monogenic or Mendelian disorder as in the ACMG/AMP guidelines, or for response to a drug. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the aggregate classification.
Stars represent the aggregate review status, or the level of review supporting the aggregate germline classification for this VCV record. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status. The number of submissions which contribute to this review status is shown in parentheses.
No data submitted for somatic clinical impact
No data submitted for oncogenicity
Variant Details
- Identifiers
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NM_024422.6(DSC2):c.2686_2687dup (p.Ala897fs)
Variation ID: 46186 Accession: VCV000046186.56
- Type and length
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Duplication, 2 bp
- Location
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Cytogenetic: 18q12.1 18: 31068033-31068034 (GRCh38) [ NCBI UCSC ] 18: 28647999-28648000 (GRCh37) [ NCBI UCSC ]
- Timeline in ClinVar
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First in ClinVar Help The date this variant first appeared in ClinVar with each type of classification.
Last submission Help The date of the most recent submission for each type of classification for this variant.
Last evaluated Help The most recent date that a submitter evaluated this variant for each type of classification.
Germline Sep 5, 2013 Oct 20, 2024 Aug 1, 2024 - HGVS
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Nucleotide Protein Molecular
consequenceNM_024422.6:c.2686_2687dup MANE Select Help Transcripts from the Matched Annotation from the NCBI and EMBL-EBI (MANE) collaboration.
NP_077740.1:p.Ala897fs frameshift NM_024422.6:c.2686_2687dupGA MANE Select Help Transcripts from the Matched Annotation from the NCBI and EMBL-EBI (MANE) collaboration.
NM_004949.5:c.*188_*189dup 3 prime UTR NM_024422.3:c.2684_2685insAG NM_024422.3:c.2686_2687dupGA NM_024422.4:c.2686_2687dupGA NC_000018.10:g.31068035_31068036dup NC_000018.9:g.28648001_28648002dup NG_008208.2:g.39391_39392dup LRG_400:g.39391_39392dup - Protein change
- A897fs
- Other names
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p.Ala897LysfsX4
- Canonical SPDI
- NC_000018.10:31068033:TCT:TCTCT
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Functional
consequence HelpThe effect of the variant on RNA or protein function, based on experimental evidence from submitters.
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Global minor allele
frequency (GMAF) HelpThe global minor allele frequency calculated by the 1000 Genomes Project. The minor allele at this location is indicated in parentheses and may be different from the allele represented by this VCV record.
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0.00359 (TCTCT)
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Allele frequency
Help
The frequency of the allele represented by this VCV record.
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- Links
Genes
Gene | OMIM | ClinGen Gene Dosage Sensitivity Curation |
Variation Viewer
Help
Links to Variation Viewer, a genome browser to view variation data from NCBI databases. |
Related variants | ||
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HI score
Help
The haploinsufficiency score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team. |
TS score
Help
The triplosensitivity score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team. |
Within gene
Help
The number of variants in ClinVar that are contained within this gene, with a link to view the list of variants. |
All
Help
The number of variants in ClinVar for this gene, including smaller variants within the gene and larger CNVs that overlap or fully contain the gene. |
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DSC2 | Little evidence for dosage pathogenicity | No evidence available |
GRCh38 GRCh37 |
1578 | 1715 |
Conditions - Germline
Condition
Help
The condition for this variant-condition (RCV) record in ClinVar. |
Classification
Help
The aggregate germline classification for this variant-condition (RCV) record in ClinVar. The number of submissions that contribute to this aggregate classification is shown in parentheses. (# of submissions) |
Review status
Help
The aggregate review status for this variant-condition (RCV) record in ClinVar. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status. |
Last evaluated
Help
The most recent date that a submitter evaluated this variant for the condition. |
Variation/condition record
Help
The RCV accession number, with most recent version number, for the variant-condition record, with a link to the RCV web page. |
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Benign/Likely benign (6) |
criteria provided, multiple submitters, no conflicts
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Jan 31, 2024 | RCV000018343.30 | |
Benign/Likely benign (6) |
criteria provided, multiple submitters, no conflicts
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Jun 24, 2013 | RCV000039429.29 | |
Benign (1) |
no assertion criteria provided
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Nov 8, 2013 | RCV000157178.9 | |
Benign (2) |
criteria provided, multiple submitters, no conflicts
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Mar 9, 2018 | RCV000181132.14 | |
Benign (1) |
criteria provided, single submitter
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Jul 1, 2015 | RCV000202657.9 | |
Benign (1) |
criteria provided, single submitter
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Mar 15, 2013 | RCV000253786.9 | |
Benign (4) |
criteria provided, multiple submitters, no conflicts
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Aug 1, 2024 | RCV000845558.37 | |
Benign (1) |
criteria provided, single submitter
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Jul 7, 2023 | RCV003993761.1 |
Submissions - Germline
Classification
Help
The submitted germline classification for each SCV record. (Last evaluated) |
Review status
Help
Stars represent the review status, or the level of review supporting the submitted (SCV) record. This value is calculated by NCBI based on data from the submitter. Read our rules for calculating the review status. This column also includes a link to the submitter’s assertion criteria if provided, and the collection method. (Assertion criteria) |
Condition
Help
The condition for the classification, provided by the submitter for this submitted (SCV) record. This column also includes the affected status and allele origin of individuals observed with this variant. |
Submitter
Help
The submitting organization for this submitted (SCV) record. This column also includes the SCV accession and version number, the date this SCV first appeared in ClinVar, and the date that this SCV was last updated in ClinVar. |
More information
Help
This column includes more information supporting the classification, including citations, the comment on classification, and detailed evidence provided as observations of the variant by the submitter. |
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Benign
(Jul 01, 2015)
|
criteria provided, single submitter
Method: clinical testing
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Arrhythmogenic right ventricular cardiomyopathy
Affected status: unknown
Allele origin:
unknown
|
Genomic Diagnostic Laboratory, Division of Genomic Diagnostics, Children's Hospital of Philadelphia
Accession: SCV000258195.2
First in ClinVar: Dec 27, 2015 Last updated: Dec 27, 2015 |
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Benign
(Dec 09, 2015)
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criteria provided, single submitter
Method: clinical testing
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Arrhythmogenic right ventricular dysplasia 11
Affected status: yes
Allele origin:
germline
|
Genome Diagnostics Laboratory, University Medical Center Utrecht
Study: VKGL Data-share Consensus
Accession: SCV000743488.1 First in ClinVar: Apr 19, 2018 Last updated: Apr 19, 2018 |
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Benign
(Jan 14, 2013)
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criteria provided, single submitter
Method: clinical testing
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not specified
Affected status: not provided
Allele origin:
germline
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Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine
Accession: SCV000063113.5
First in ClinVar: May 03, 2013 Last updated: Oct 02, 2016 |
Comment:
Ala897fs in exon 16 of DSC2: This variant is not expected to have clinical signi ficance because it has been identified in 1.3% (111/8254) of … (more)
Ala897fs in exon 16 of DSC2: This variant is not expected to have clinical signi ficance because it has been identified in 1.3% (111/8254) of European American c hromosomes from a broad population by the NHLBI Exome Sequencing Project (http:/ /evs.gs.washington.edu/EVS/). This variant leads to a frameshift starting at pos ition 897 and a subsequent truncation that removes the terminal amino acid of th e DSC2 protein. Although it was initially reported in 3 Caucasian individuals wi th ARVC probands while absent from 400 ethnically matched control alleles, it ha s subsequently been detected in several control cohorts at frequencies that argu e against a disease causing role (0.8%-1.5%, see http://arvcdatabase.info). The overall frequency of this variant strongly argues against a primary disease-caus ing role, although we cannot rule out that it may modify disease severity when p resent with other disease-causing variants. (less)
Number of individuals with the variant: 43
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Benign
(Mar 15, 2013)
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criteria provided, single submitter
Method: clinical testing
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Cardiovascular phenotype
Affected status: unknown
Allele origin:
germline
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Ambry Genetics
Accession: SCV000318356.5
First in ClinVar: Oct 02, 2016 Last updated: Oct 02, 2016 |
Comment:
No disease association in appropriately sized case-control study(ies)
Number of individuals with the variant: 1
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Likely benign
(Aug 31, 2021)
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criteria provided, single submitter
Method: clinical testing
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Arrhythmogenic right ventricular dysplasia 11
Affected status: unknown
Allele origin:
unknown
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Fulgent Genetics, Fulgent Genetics
Accession: SCV002794951.1
First in ClinVar: Dec 31, 2022 Last updated: Dec 31, 2022 |
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Benign
(Oct 26, 2023)
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criteria provided, single submitter
Method: clinical testing
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not provided
Affected status: unknown
Allele origin:
germline
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ARUP Laboratories, Molecular Genetics and Genomics, ARUP Laboratories
Accession: SCV002058047.4
First in ClinVar: Jan 15, 2022 Last updated: Feb 20, 2024 |
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Benign
(Jun 24, 2013)
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criteria provided, single submitter
Method: research
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not specified
Affected status: unknown
Allele origin:
unknown
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Biesecker Lab/Clinical Genomics Section, National Institutes of Health
Study: ClinSeq
Accession: SCV000055307.1 First in ClinVar: Mar 24, 2015 Last updated: Mar 24, 2015
Comments (2):
The study set was not selected for affection status in relation to any cancer. Pathogenicity categories were based on literature curation. See Pubmed ID:23861362 for … (more)
The study set was not selected for affection status in relation to any cancer. Pathogenicity categories were based on literature curation. See Pubmed ID:23861362 for details. (less)
Medical sequencing
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Number of individuals with the variant: 23
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Likely benign
(-)
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criteria provided, single submitter
Method: clinical testing
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NOT SPECIFIED
Affected status: unknown
Allele origin:
germline
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PreventionGenetics, part of Exact Sciences
Accession: SCV000314303.1
First in ClinVar: Oct 02, 2016 Last updated: Oct 02, 2016 |
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Benign
(Sep 21, 2015)
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criteria provided, single submitter
Method: clinical testing
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Arrhythmogenic right ventricular dysplasia 11
Affected status: yes
Allele origin:
germline
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Clinical Genetics DNA and cytogenetics Diagnostics Lab, Erasmus MC, Erasmus Medical Center
Study: VKGL Data-share Consensus
Accession: SCV000744754.1 First in ClinVar: Apr 19, 2018 Last updated: Apr 19, 2018 |
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Benign
(May 24, 2017)
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criteria provided, single submitter
Method: clinical testing
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Cardiomyopathy
Affected status: unknown
Allele origin:
germline
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CHEO Genetics Diagnostic Laboratory, Children's Hospital of Eastern Ontario
Study: Canadian Open Genetics Repository
Accession: SCV000901975.1 First in ClinVar: May 06, 2019 Last updated: May 06, 2019 |
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Benign
(Mar 09, 2018)
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criteria provided, single submitter
Method: clinical testing
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Cardiomyopathy
Affected status: unknown
Allele origin:
germline
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Color Diagnostics, LLC DBA Color Health
Accession: SCV000910598.1
First in ClinVar: May 20, 2019 Last updated: May 20, 2019 |
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Benign
(-)
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criteria provided, single submitter
Method: clinical testing
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not provided
Affected status: yes
Allele origin:
germline
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Molecular Diagnostic Laboratory for Inherited Cardiovascular Disease, Montreal Heart Institute
Accession: SCV000987687.1
First in ClinVar: Sep 08, 2019 Last updated: Sep 08, 2019 |
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Benign
(Mar 03, 2015)
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criteria provided, single submitter
Method: clinical testing
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Not Provided
Affected status: yes
Allele origin:
germline
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GeneDx
Accession: SCV001759515.2
First in ClinVar: Jul 24, 2021 Last updated: Jun 10, 2023 |
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Benign
(Jan 31, 2024)
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criteria provided, single submitter
Method: clinical testing
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Arrhythmogenic right ventricular dysplasia 11
Affected status: unknown
Allele origin:
germline
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Labcorp Genetics (formerly Invitae), Labcorp
Accession: SCV000290733.10
First in ClinVar: Jul 01, 2016 Last updated: Feb 14, 2024 |
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Benign
(Jul 07, 2023)
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criteria provided, single submitter
Method: clinical testing
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Familial isolated arrhythmogenic right ventricular dysplasia
(Autosomal dominant inheritance)
Affected status: unknown
Allele origin:
germline
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Molecular Genetics, Royal Melbourne Hospital
Additional submitter:
Shariant Australia, Australian Genomics
Accession: SCV004812737.1
First in ClinVar: Apr 15, 2024 Last updated: Apr 15, 2024 |
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Benign
(Aug 01, 2024)
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criteria provided, single submitter
Method: clinical testing
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not provided
Affected status: yes
Allele origin:
germline
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CeGaT Center for Human Genetics Tuebingen
Accession: SCV002585677.15
First in ClinVar: Oct 22, 2022 Last updated: Oct 20, 2024 |
Comment:
DSC2: BS1, BS2
Number of individuals with the variant: 24
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Benign
(Nov 08, 2013)
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no assertion criteria provided
Method: clinical testing
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Primary familial hypertrophic cardiomyopathy
Affected status: yes
Allele origin:
germline
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Blueprint Genetics
Accession: SCV000206902.1
First in ClinVar: Feb 06, 2015 Last updated: Feb 06, 2015 |
Number of individuals with the variant: 1
|
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Benign
(-)
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no assertion criteria provided
Method: clinical testing
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Arrhythmogenic right ventricular dysplasia 11
Affected status: yes
Allele origin:
germline
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Diagnostic Laboratory, Department of Genetics, University Medical Center Groningen
Study: VKGL Data-share Consensus
Accession: SCV000733770.1 First in ClinVar: Apr 09, 2018 Last updated: Apr 09, 2018 |
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Benign
(-)
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no assertion criteria provided
Method: clinical testing
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not specified
Affected status: yes
Allele origin:
germline
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Joint Genome Diagnostic Labs from Nijmegen and Maastricht, Radboudumc and MUMC+
Additional submitter:
Diagnostic Laboratory, Department of Genetics, University Medical Center Groningen
Study: VKGL Data-share Consensus
Accession: SCV001955337.1 First in ClinVar: Oct 02, 2021 Last updated: Oct 02, 2021 |
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Uncertain significance
(Jul 01, 2010)
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no assertion criteria provided
Method: literature only
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RECLASSIFIED - VARIANT OF UNKNOWN SIGNIFICANCE
Affected status: not provided
Allele origin:
germline
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OMIM
Accession: SCV000038622.3
First in ClinVar: Apr 04, 2013 Last updated: Oct 22, 2022 |
Comment on evidence:
This variant, formerly titled ARRHYTHMOGENIC RIGHT VENTRICULAR DYSPLASIA, FAMILIAL, 11, has been reclassified based on the findings of De Bortoli et al. (2010). In affected … (more)
This variant, formerly titled ARRHYTHMOGENIC RIGHT VENTRICULAR DYSPLASIA, FAMILIAL, 11, has been reclassified based on the findings of De Bortoli et al. (2010). In affected members of 3 unrelated families with ARVD11 (610476), Syrris et al. (2006) identified a heterozygous 2-bp insertion (2687insGA) in exon 17 of the DSC2 gene, resulting in a frameshift and premature termination (Glu896fsTer900; E896fsX900). Haplotype analysis suggested that this was a recurrent mutation rather than a founder mutation. The mutation was not found in 200 ethnically matched controls. De Bortoli et al. (2010) detected the Glu896fsTer900 variation, which they designated Ala897LysfsTer4 (A897KfsX4), in 5 unrelated Italian ARVD probands, 4 of whom carried mutations in other known ARVD genes as well. The A897KfsX4 variant was also found in 6 of 400 control chromosomes (allele frequency, 1.5%). The authors noted that the A897KfsX4 variation affects the last 5 amino acids of the DSC2a isoform and not those of the DSC2b, which shows higher expression in heart than does DSC2a, suggesting that relative deficiency of DSC2a might be compensated for by DSC2b. Transfection studies using the desmosome-forming atrial cardiomyocyte cell line HL-1 showed that the A897KfsX4 mutant DSC2 localized in the cytoplasm whereas wildtype localized in the plasma membrane; however, immunostaining showed the presence of well-assembled desmosomes, with no colocalization between endogenous dsg and mutant DSC2. De Bortoli et al. (2010) suggested that A897KfsX4 should be considered a rare polymorphism. (less)
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Benign
(May 31, 2013)
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no assertion criteria provided
Method: clinical testing
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AllHighlyPenetrant
Affected status: unknown
Allele origin:
germline
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Eurofins Ntd Llc (ga)
Accession: SCV000114145.3
First in ClinVar: Jan 17, 2014 Last updated: Mar 24, 2015 |
Observation 1:
Number of individuals with the variant: 1
Sex: mixed
Method: http://genetics.emory.edu/egl/tests/view.php?testid=4219
Observation 2:
Sex: mixed
Observation 3:
Sex: mixed
Observation 4:
Sex: mixed
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Benign
(-)
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no assertion criteria provided
Method: clinical testing
|
not specified
Affected status: yes
Allele origin:
germline
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Clinical Genetics, Academic Medical Center
Additional submitter:
Diagnostic Laboratory, Department of Genetics, University Medical Center Groningen
Study: VKGL Data-share Consensus
Accession: SCV001925246.1 First in ClinVar: Sep 24, 2021 Last updated: Sep 24, 2021 |
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Germline Functional Evidence
There is no functional evidence in ClinVar for this variation. If you have generated functional data for this variation, please consider submitting that data to ClinVar. |
Citations for germline classification of this variant
HelpTitle | Author | Journal | Year | Link |
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Mechanistic insights into arrhythmogenic right ventricular cardiomyopathy caused by desmocollin-2 mutations. | Gehmlich K | Cardiovascular research | 2011 | PMID: 21062920 |
De novo desmin-mutation N116S is associated with arrhythmogenic right ventricular cardiomyopathy. | Klauke B | Human molecular genetics | 2010 | PMID: 20829228 |
Prevalence of desmosomal protein gene mutations in patients with dilated cardiomyopathy. | Elliott P | Circulation. Cardiovascular genetics | 2010 | PMID: 20716751 |
Desmosomal gene analysis in arrhythmogenic right ventricular dysplasia/cardiomyopathy: spectrum of mutations and clinical impact in practice. | Fressart V | Europace : European pacing, arrhythmias, and cardiac electrophysiology : journal of the working groups on cardiac pacing, arrhythmias, and cardiac cellular electrophysiology of the European Society of Cardiology | 2010 | PMID: 20400443 |
The p.A897KfsX4 frameshift variation in desmocollin-2 is not a causative mutation in arrhythmogenic right ventricular cardiomyopathy. | De Bortoli M | European journal of human genetics : EJHG | 2010 | PMID: 20197793 |
Comprehensive desmosome mutation analysis in north americans with arrhythmogenic right ventricular dysplasia/cardiomyopathy. | den Haan AD | Circulation. Cardiovascular genetics | 2009 | PMID: 20031617 |
Arrhythmogenic right ventricular dysplasia/cardiomyopathy associated with mutations in the desmosomal gene desmocollin-2. | Syrris P | American journal of human genetics | 2006 | PMID: 17033975 |
Identification of amino acid sequence motifs in desmocollin, a desmosomal glycoprotein, that are required for plakoglobin binding and plaque formation. | Troyanovsky SM | Proceedings of the National Academy of Sciences of the United States of America | 1994 | PMID: 7971964 |
Text-mined citations for rs200056085 ...
HelpRecord last updated Nov 25, 2024
This date represents the last time this VCV record was updated. The update may be due to an update to one of the included submitted records (SCVs), or due to an update that ClinVar made to the variant such as adding HGVS expressions or a rs number. So this date may be different from the date of the “most recent submission” reported at the top of this page.