ClinVar Genomic variation as it relates to human health
NM_000891.3(KCNJ2):c.652C>T (p.Arg218Trp)
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_000891.3(KCNJ2):c.652C>T (p.Arg218Trp)
Variation ID: 8919 Accession: VCV000008919.27
- Type and length
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single nucleotide variant, 1 bp
- Location
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Cytogenetic: 17q24.3 17: 70175691 (GRCh38) [ NCBI UCSC ] 17: 68171832 (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 Apr 4, 2013 May 7, 2024 Jul 12, 2023 - HGVS
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Nucleotide Protein Molecular
consequenceNM_000891.3:c.652C>T MANE Select Help Transcripts from the Matched Annotation from the NCBI and EMBL-EBI (MANE) collaboration.
NP_000882.1:p.Arg218Trp missense NC_000017.11:g.70175691C>T NC_000017.10:g.68171832C>T NG_008798.1:g.11157C>T LRG_328:g.11157C>T LRG_328t1:c.652C>T P63252:p.Arg218Trp - Protein change
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- Other names
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R218W
p.R218W:CGG>TGG
- Canonical SPDI
- NC_000017.11:70175690:C:T
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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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Decreased function
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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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Allele frequency
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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
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Links to Variation Viewer, a genome browser to view variation data from NCBI databases. |
Related variants | ||
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HI score
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The haploinsufficiency score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team. |
TS score
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The triplosensitivity score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team. |
Within gene
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The number of variants in ClinVar that are contained within this gene, with a link to view the list of variants. |
All
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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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KCNJ2 | - | - |
GRCh38 GRCh37 |
585 | 609 |
Conditions - Germline
Condition
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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
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The most recent date that a submitter evaluated this variant for the condition. |
Variation/condition record
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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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Pathogenic/Likely pathogenic (5) |
criteria provided, multiple submitters, no conflicts
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Oct 5, 2022 | RCV000009474.19 | |
Pathogenic (6) |
criteria provided, multiple submitters, no conflicts
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May 4, 2023 | RCV000170982.25 | |
not provided (1) |
no classification provided
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- | RCV000058326.11 | |
Pathogenic (1) |
criteria provided, single submitter
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Jul 12, 2023 | RCV000684775.16 | |
Pathogenic (1) |
criteria provided, single submitter
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Jul 19, 2022 | RCV004018605.1 |
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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Pathogenic
(Jan 18, 2018)
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criteria provided, single submitter
Method: clinical testing
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Andersen Tawil syndrome
Affected status: yes
Allele origin:
germline
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Laboratory of Medical Genetics, National & Kapodistrian University of Athens
Accession: SCV000928340.1
First in ClinVar: Jul 30, 2019 Last updated: Jul 30, 2019 |
Comment:
PM2, PM5, PP2, PP3, PP4, PP5
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Pathogenic
(May 04, 2023)
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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: SCV000223545.13
First in ClinVar: May 23, 2015 Last updated: Jul 29, 2023 |
Comment:
Not observed at significant frequency in large population cohorts (gnomAD); In silico analysis supports that this missense variant has a deleterious effect on protein structure/function; … (more)
Not observed at significant frequency in large population cohorts (gnomAD); In silico analysis supports that this missense variant has a deleterious effect on protein structure/function; Functional studies demonstrate a damaging effect: the variant causes a loss of function and a dominant negative effect on channel function when expressed with the wild-type protein (Plaster et al., 2001; Lange et al. 2003; Caballero et al., 2010); Also known as Kir2.1; This variant is associated with the following publications: (PMID: 12163457, 17568571, 17211524, 23631430, 20647529, 11371347, 25415519, 23867365, 15269659, 17119796, 18554214, 28501311, 12796536, 17221872, 22589293, 29093808, 15852530, 16217063, 17399642, 22581653, 28024840, 31068157, 31567646, 34008892, 35460302, 33057326, 20713726, 12909315) (less)
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Pathogenic
(Apr 28, 2022)
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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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Revvity Omics, Revvity
Accession: SCV003820874.2
First in ClinVar: Mar 04, 2023 Last updated: Feb 04, 2024 |
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Pathogenic
(Jul 12, 2023)
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criteria provided, single submitter
Method: clinical testing
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Short QT syndrome type 3
Andersen Tawil syndrome
Explanation for multiple conditions: Uncertain.
The variant was classified for several related diseases, possibly a spectrum of disease; the variant may be associated with one or more the diseases.
Affected status: unknown
Allele origin:
germline
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Labcorp Genetics (formerly Invitae), Labcorp
Accession: SCV000285639.10
First in ClinVar: Oct 05, 2015 Last updated: Feb 28, 2024 |
Comment:
ClinVar contains an entry for this variant (Variation ID: 8919). Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, … (more)
ClinVar contains an entry for this variant (Variation ID: 8919). 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 expected to disrupt KCNJ2 protein function. Experimental studies have shown that this missense change affects KCNJ2 function (PMID: 12909315, 17119796, 17568571). For these reasons, this variant has been classified as Pathogenic. This missense change has been observed in individual(s) with Andersen-Tawil syndrome (PMID: 12796536, 17119796, 17221872, 22589293). In at least one individual the variant was observed to be de novo. It has also been observed to segregate with disease in related individuals. This variant is not present in population databases (gnomAD no frequency). This sequence change replaces arginine, which is basic and polar, with tryptophan, which is neutral and slightly polar, at codon 218 of the KCNJ2 protein (p.Arg218Trp). (less)
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Pathogenic
(Jul 19, 2022)
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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: SCV003745282.2
First in ClinVar: Feb 07, 2023 Last updated: May 01, 2024 |
Comment:
The c.652C>T (p.R218W) alteration is located in exon 2 (coding exon 1) of the KCNJ2 gene. This alteration results from a C to T substitution … (more)
The c.652C>T (p.R218W) alteration is located in exon 2 (coding exon 1) of the KCNJ2 gene. This alteration results from a C to T substitution at nucleotide position 652, causing the arginine (R) at amino acid position 218 to be replaced by a tryptophan (W). This variant was not reported in population-based cohorts in the Genome Aggregation Database (gnomAD). This alteration has been reported in multiple unrelated patients with Andersen-Tawil syndrome (Plaster, 2001; Donaldson, 2003; Davies, 2005; Tengan, 2006; Haruna, 2007; Kimura, 2012; Lefter, 2014). In addition, an alteration affecting the same amino acid, p.R218Q was reported as disease-causing (Plaster, 2001; Kimura, 2012; Ambry internal data). This amino acid position is highly conserved in available vertebrate species. Experimental studies have shown that this missense change alters KCNJ2 channel assembly and has a dominant negative effect on channel function (Lange, 2003; Decher, 2007). This alteration is predicted to be deleterious by in silico analysis. Based on the available evidence, this alteration is classified as pathogenic. (less)
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Pathogenic
(May 10, 2018)
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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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Athena Diagnostics
Accession: SCV000842589.1
First in ClinVar: Oct 09, 2016 Last updated: Oct 09, 2016 |
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Pathogenic
(Oct 23, 2020)
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criteria provided, single submitter
Method: clinical testing
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not provided
(Autosomal dominant inheritance)
Affected status: yes
Allele origin:
germline
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Institute of Medical Genetics and Applied Genomics, University Hospital Tübingen
Accession: SCV001447312.1
First in ClinVar: Nov 28, 2020 Last updated: Nov 28, 2020 |
Clinical Features:
Atrial arrhythmia (present) , Gait disturbance (present) , Elevated circulating creatine kinase concentration (present)
Sex: male
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Pathogenic
(Jan 06, 2020)
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criteria provided, single submitter
Method: case-control
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Andersen Tawil syndrome
(Autosomal dominant inheritance)
Affected status: yes
Allele origin:
inherited
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Genetics Laboratory, Department of Biology, Semnan University
Accession: SCV002569118.1
First in ClinVar: Sep 10, 2022 Last updated: Sep 10, 2022 |
Comment:
The identified mutation leads to the substitution of Arginine 218 with Tryptophan (R218W) in the KCNJ2 protein. Hence, this substitution alters the amino acid sequence … (more)
The identified mutation leads to the substitution of Arginine 218 with Tryptophan (R218W) in the KCNJ2 protein. Hence, this substitution alters the amino acid sequence and leads to a missense mutation at position 218 with possible increased function in the mutated protein. (less)
Clinical Features:
Atrial fibrillation (present)
Age: 20-29 years
Sex: female
Ethnicity/Population group: Semnan
Geographic origin: Iran
Method: Genomic DNA was extracted from blood sample of patient and her affected father and healthy brother using QIAamp DNA Blood Mini Kit (Germany) according to the manufacturer's instructions. To investigate the genetic cause of the abnormal manifestations reported in the affected patient, Whole-exome sequencing (WES) was used to enrich all exons of the protein-coding genes and a few other important genomic regions. The WES was performed for about 100 million reads, using the Illumina Hiseq2000 sequencer platform and Agilent SureSelect Human All Exon V7 kit (Agilent, Santa Clara, USA). Data filtering was first performed based on frequency and then according to intronic, upstream, downstream, 3'-UTR, 5'-UTR, intergenic and other non-coding variants. At final step, synonymous mutations were also filtered. In general, test platform examined more than 95% of the targeted regions with sensitivity of > 99%. The results of WES were analyzed by bioinformatics tools BWA aligner, GATK, and Annovar and public databases ClinVar, gnomAD, Kaviar, and GME. In addition, ACMG (American College of Medical Genetics) guidelines and local population database (BayanGene) with more than 4000 unrelated individuals were utilized. As control, 250 healthy individuals with the same ethnicity as the studied patient were also screened for the mutation found. Online bioinformatics tools MutationTaster, SIFT, Polyphen 2 and CADD_phred software were used to predict the likely pathogenic effects of the mutation. To investigate the effect of identified mutation on the KCNJ2 protein in terms of possible structural and functional changes compared to wild-type protein, SMART tool was used. In order to confirm the new mutation found, PCR and Sanger sequencing was performed. Subsequently, Chromas software was applied to analyze the results of Sanger sequencing.
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Likely pathogenic
(Oct 05, 2022)
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criteria provided, single submitter
Method: research
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Andersen Tawil syndrome
Affected status: yes
Allele origin:
germline
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Center of Excellence for Medical Genomics, Chulalongkorn University
Accession: SCV002583253.1
First in ClinVar: Oct 15, 2022 Last updated: Oct 15, 2022 |
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Pathogenic
(-)
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no assertion criteria provided
Method: clinical testing
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not provided
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: SCV001917732.1 First in ClinVar: Sep 26, 2021 Last updated: Sep 26, 2021 |
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Pathogenic
(May 18, 2001)
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no assertion criteria provided
Method: literature only
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ANDERSEN CARDIODYSRHYTHMIC PERIODIC PARALYSIS
Affected status: not provided
Allele origin:
germline
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OMIM
Accession: SCV000029692.3
First in ClinVar: Apr 04, 2013 Last updated: May 07, 2024 |
Comment on evidence:
In the affected individuals of 4 different pedigrees (K2679, K6515, K2681, and K2401) with Andersen syndrome (170390), Plaster et al. (2001) identified a heterozygous (dominant) … (more)
In the affected individuals of 4 different pedigrees (K2679, K6515, K2681, and K2401) with Andersen syndrome (170390), Plaster et al. (2001) identified a heterozygous (dominant) mutation in the KCNJ2 gene. The C-to-T transition at nucleotide 880 resulted in an arg218-to-trp (R218W) substitution within the C-terminal interaction domain of the KCNJ2 protein. The mutation occurred de novo in 3 pedigrees, and it was not found in 100 unaffected and unrelated individuals. Expression of this mutation in Xenopus oocytes revealed loss of function and a dominant-negative effect in KCNJ2 current as assayed by voltage-clamp. (less)
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Pathogenic
(-)
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no assertion criteria provided
Method: clinical testing
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not provided
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: SCV001951246.1 First in ClinVar: Oct 02, 2021 Last updated: Oct 02, 2021 |
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not provided
(-)
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no classification provided
Method: literature only
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Congenital long QT syndrome
Affected status: unknown
Allele origin:
germline
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Cardiovascular Biomedical Research Unit, Royal Brompton & Harefield NHS Foundation Trust
Accession: SCV000089846.3
First in ClinVar: Oct 22, 2013 Last updated: Oct 09, 2016 |
Comment:
This variant has been reported in the following publications (PMID:11371347;PMID:12163457;PMID:12796536;PMID:15852530;PMID:16217063;PMID:17074642;PMID:17119796;PMID:17221872;PMID:17399642;PMID:18554214;PMID:20647529).
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not provided
(-)
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no classification provided
Method: literature only
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Andersen Tawil syndrome
Affected status: unknown
Allele origin:
germline
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GeneReviews
Accession: SCV000243876.3
First in ClinVar: Oct 05, 2015 Last updated: Oct 22, 2022 |
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Germline Functional Evidence
Functional
Help
The functional consequence of the variant, based on experimental evidence and provided by the submitter. consequence |
Method
Help
A brief description of the method used to determine the functional consequence of the variant. A citation for the method is included, when provided by the submitter. |
Result
Help
A brief description of the result of this method for 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 functional evidence for the germline classification, including citations, the comment on classification, and detailed evidence provided as observations of the variant by the submitter. |
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Decreased function
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Genetics Laboratory, Department of Biology, Semnan University
Accession: SCV002569118.1
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Citations for germline classification of this variant
HelpTitle | Author | Journal | Year | Link |
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Andersen-Tawil Syndrome. | Adam MP | - | 2018 | PMID: 20301441 |
The Case | An unusual case of recurrent hypokalemic periodic paralysis. | Jung JH | Kidney international | 2017 | PMID: 28501311 |
Intrafamilial phenotypic variability in Andersen-Tawil syndrome: A diagnostic challenge in a potentially treatable condition. | Ardissone A | Neuromuscular disorders : NMD | 2017 | PMID: 28024840 |
Recurrent syncope in the Andersen Tawil syndrome - Cardiac or neurological? | Fryer MD | Indian pacing and electrophysiology journal | 2015 | PMID: 26937109 |
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 | Genetics in medicine : official journal of the American College of Medical Genetics | 2015 | PMID: 25741868 |
Andersen-Tawil syndrome with early fixed myopathy. | Lefter S | Journal of clinical neuromuscular disease | 2014 | PMID: 25415519 |
Combined inhibition of Na⁺ and Ca²⁺ channels: a novel paradigm for the treatment of incessant ventricular arrhythmias in Andersen-Tawil syndrome. | Janson CM | Heart rhythm | 2014 | PMID: 24211314 |
Results of genetic testing in 855 consecutive unrelated patients referred for long QT syndrome in a clinical laboratory. | Lieve KV | Genetic testing and molecular biomarkers | 2013 | PMID: 23631430 |
Phenotype variability in patients carrying KCNJ2 mutations. | Kimura H | Circulation. Cardiovascular genetics | 2012 | PMID: 22589293 |
Muscle weakness, palpitations and a small chin: the Andersen-Tawil syndrome. | Rajakulendran S | Practical neurology | 2010 | PMID: 20647529 |
Andersen-Tawil syndrome: management challenges during pregnancy, labor, and delivery. | Subbiah RN | Journal of cardiovascular electrophysiology | 2008 | PMID: 18554214 |
Impaired interaction between the slide helix and the C-terminus of Kir2.1: a novel mechanism of Andersen syndrome. | Decher N | Cardiovascular research | 2007 | PMID: 17568571 |
Flecainide for recurrent malignant ventricular arrhythmias in two siblings with Andersen-Tawil syndrome. | Bökenkamp R | Heart rhythm | 2007 | PMID: 17399642 |
Genotype-phenotype correlations of KCNJ2 mutations in Japanese patients with Andersen-Tawil syndrome. | Haruna Y | Human mutation | 2007 | PMID: 17221872 |
Andersen syndrome: an association of periodic paralysis, cardiac arrhythmia and dysmorphic abnormalities. | Tengan CH | Arquivos de neuro-psiquiatria | 2006 | PMID: 17119796 |
Andersen-Tawil syndrome: an ever-expanding phenotype? | Tristani-Firouzi M | Heart rhythm | 2006 | PMID: 17074643 |
A family with Andersen-Tawil syndrome and dilated cardiomyopathy. | Schoonderwoerd BA | Heart rhythm | 2006 | PMID: 17074642 |
Andersen-Tawil syndrome: new potassium channel mutations and possible phenotypic variation. | Davies NP | Neurology | 2005 | PMID: 16217063 |
KCNJ2 mutation in intractable ventricular arrhythmia with Andersen's syndrome. | Takahashi T | Pediatrics international : official journal of the Japan Pediatric Society | 2005 | PMID: 15852530 |
Andersen mutations of KCNJ2 suppress the native inward rectifier current IK1 in a dominant-negative fashion. | Lange PS | Cardiovascular research | 2003 | PMID: 12909315 |
PIP2 binding residues of Kir2.1 are common targets of mutations causing Andersen syndrome. | Donaldson MR | Neurology | 2003 | PMID: 12796536 |
Functional and clinical characterization of KCNJ2 mutations associated with LQT7 (Andersen syndrome). | Tristani-Firouzi M | The Journal of clinical investigation | 2002 | PMID: 12163457 |
Mutations in Kir2.1 cause the developmental and episodic electrical phenotypes of Andersen's syndrome. | Plaster NM | Cell | 2001 | PMID: 11371347 |
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Text-mined citations for rs104894578 ...
HelpRecord last updated Nov 10, 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.