chr11:2777990:C>T Detail (hg38) (KCNQ1)

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Summary
Information
Links
Disease area statistics
MGeND
ClinVar
CIViC
DisGeNET
Annotation
Genome browser

Information

Genome

Assembly	Position
hg19	chr11:2,799,220-2,799,220 View the variant detail on this assembly version.
hg38	chr11:2,777,990-2,777,990

HGVS

KCNQ1

Type	Transcript	Protein
RefSeq	NM_000218.2:c.1747C>T	NP_000209.2:p.Arg583Cys
	NM_181798.1:c.1366C>T	NP_861463.1:p.Arg456Cys
Ensemble	ENST00000155840.12:c.1747C>T	ENST00000155840.12:p.Arg583Cys
	ENST00000335475.6:c.1366C>T	ENST00000335475.6:p.Arg456Cys
	ENST00000496887.7:c.1390C>T	ENST00000496887.7:p.Arg464Cys
	ENST00000526095.2:c.151C>T	ENST00000526095.2:p.Arg51Cys
	ENST00000646564.2:c.1207C>T	ENST00000646564.2:p.Arg403Cys
	ENST00000713725.1:c.1606C>T	ENST00000713725.1:p.Arg536Cys

Summary

MGeND

Clinical significance
Variant entry
GWAS entry
Disease area statistics	Show details

Frequency

JP	HGVD:[No Data.]
	ToMMo:[No Data.]
	NCBN:[No Data.]
	NCBN(Hondo):[No Data.]
	NCBN(Ryukyu):[No Data.]
East asia	ExAC:<0.001

Prediction

ClinVar

Clinical Significance	Conflicting classifications of pathogenicity
Review star
Show details

Links

KCNQ1

Type	Database	ID	Link
Gene	MIM	607542	OMIM
	HGNC	6294	HGNC
	Ensembl	ENSG00000053918	Ensembl
	NCBI		NCBI
	Gene Cards		Gene Cards
	OncoKB		OncoKB

Type	Database	ID	Link
Variant	TogoVar
	COSMIC
	MONDO

Disease area statistics

[No Data.]

MGeND

[No Data.]

ClinVar

Clinical significance	Last evaluated	Review status	Condition	Origin	Links
Pathogenic	2002-04-23	no assertion criteria provided	long QT syndrome 1	germline	Detail
risk factor	2002-04-23	no assertion criteria provided	Acquired susceptibility to long QT syndrome 1	germline	Detail
not provided		no assertion provided	Congenital long QT syndrome	germline	Detail
Likely pathogenic	2023-12-01	criteria provided, multiple submitters, no conflicts	not provided	germline	Detail
Likely pathogenic	2018-10-31	criteria provided, single submitter	Jervell and Lange-Nielsen syndrome 1,Beckwith-Wiedemann syndrome,long QT syndrome 1,Atrial fibrillation, familial, 3,Short QT syndrome type 2	unknown	Detail
Likely pathogenic	2018-10-31	criteria provided, single submitter	Jervell and Lange-Nielsen syndrome 1,Beckwith-Wiedemann syndrome,long QT syndrome 1,Atrial fibrillation, familial, 3,Short QT syndrome type 2	unknown	Detail
Likely pathogenic	2018-10-31	criteria provided, single submitter	Jervell and Lange-Nielsen syndrome 1,Beckwith-Wiedemann syndrome,long QT syndrome 1,Atrial fibrillation, familial, 3,Short QT syndrome type 2	unknown	Detail
Likely pathogenic	2018-10-31	criteria provided, single submitter	Jervell and Lange-Nielsen syndrome 1,Beckwith-Wiedemann syndrome,long QT syndrome 1,Atrial fibrillation, familial, 3,Short QT syndrome type 2	unknown	Detail
Likely pathogenic	2018-10-31	criteria provided, single submitter	Jervell and Lange-Nielsen syndrome 1,Beckwith-Wiedemann syndrome,long QT syndrome 1,Atrial fibrillation, familial, 3,Short QT syndrome type 2	unknown	Detail
not provided		no assertion provided	KCNQ1-related disorder	unknown	Detail
Likely pathogenic	2023-10-07	criteria provided, single submitter	long QT syndrome	germline	Detail
Uncertain significance	2023-02-27	criteria provided, single submitter	Cardiac arrhythmia	germline	Detail
Uncertain significance	2022-07-12	criteria provided, single submitter		germline	Detail

CIViC

[No Data.]

DisGeNET

Score	Disease name	Description	Source	Links
0.120	LONG QT SYNDROME 1, ACQUIRED, SUSCEPTIBILITY TO	NA	CLINVAR	Detail
0.133	Congenital long QT syndrome	NA	CLINVAR	Detail
0.573	Romano-Ward Syndrome	NA	CLINVAR	Detail

Annotation

Annotations

Descrption	Source	Links
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND Long QT syndrome 1	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND Acquired susceptibility to long QT syndrome 1	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND Congenital long QT syndrome	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND not provided	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND multiple conditions	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND multiple conditions	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND multiple conditions	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND multiple conditions	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND multiple conditions	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND KCNQ1-related disorder	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND Long QT syndrome	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND Cardiac arrhythmia	ClinVar	Detail
NM_000218.3(KCNQ1):c.1747C>T (p.Arg583Cys) AND Cardiovascular phenotype	ClinVar	Detail
NA	DisGeNET	Detail
NA	DisGeNET	Detail
NA	DisGeNET	Detail

Overlapped Transcript Coordinates

Gene	Transcript ID	Exon Number	Chromosome	Start	Stop	Type	Amino Mutation	Transcript Position	Links

Overlapped Transcript

Gene	Transcript ID	Chromosome	Start	Stop	Links

Gene: -
dbSNP: rs17221854 dbSNP
Genome: hg38
Position: chr11:2,777,990-2,777,990
Variant Type: snv
Reference Allele: C
Alternative Allele: T
East Asian Chromosome Counts (ExAC): 8636
East Asian Allele Counts (ExAC): 0
East Asian Heterozygous Counts (ExAC): 0
East Asian Homozygous Counts (ExAC): 0
East Asian Allele Frequency (ExAC): 0.0
Chromosome Counts in All Race (ExAC): 120688
Allele Counts in All Race (ExAC): 2
Heterozygous Counts in All Race (ExAC): 2
Homozygous Counts in All Race (ExAC): 0
Allele Frequency in All Race (ExAC): 1.6571655839851517E-5

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