Paralogue Annotation for KCNQ1 residue 566

Residue details

Gene: KCNQ1
Reference Sequences: LRG: LRG_287, Ensembl variant: ENST00000155840 / ENSP00000155840
Amino Acid Position: 566
Reference Amino Acid: S - Serine
Protein Domain: C-terminus


Paralogue Variants mapped to KCNQ1 residue 566

ParalogueVariantAssociated DiseaseMapping QualityConsensusPubmed
KCNQ2I592MEpilepsy, rolandic without neonatal seizuresLow3 18625963

To assess whether the paralogue annotation here confidently predicts that variation at this residue is pathogenic, it is important to check the reports in the Pubmed links above to ascertain that the mutations in these paralogues have been proved likely to be disease-causing. It is also important to check that the direction of effect of the variant in the paralogue is compatible with your observed phenotype in KCNQ1.



KCNQ1YDVRDVIEQYSQGHLNLMVRIKELQRRLDQ>S<IGKPSLFIS-----------V---------576
KCNQ2YDVMDVIEQYSAGHLDMLSRIKSLQSRVDQ>I<VGRGPAITD--KDR--T--KG---------607
KCNQ3YDVKDVIEQYSAGHLDMLSRIKYLQTRIDM>I<FTPGPPSTP--KHKKSQKGSAFTFPSQQSP599
KCNQ4YDVKDVIEQYSAGHLDMLGRIKSLQTRVDQ>I<VGRGPGDRKAREKG--D--KG---------603
KCNQ5YDVKDVIEQYSAGHLDMLCRIKSLQTRVDQ>I<LGKGQITSD-KKSR--E--KI---------590
KCNA1------------------------------>-<------------------------------
KCNA10------------------------------>-<------------------------------
KCNA2------------------------------>-<------------------------------
KCNA3------------------------------>-<------------------------------
KCNA4------------------------------>-<------------------------------
KCNA5------------------------------>-<------------------------------
KCNA6------------------------------>-<------------------------------
KCNA7------------------------------>-<------------------------------
KCNB1LPVLGMYHDPLRNRGSAAAAVAGLECA--->-<------------------------------711
KCNB2RPLPVTTADFSLTTPQHISTILLEETP--->-<------------------------------761
KCNC1RK----------DLCKESP---VIAKY--->-<------------------------------576
KCNC2RKG----YEKSRSLNNIAGLAGNALRL--->-<------------------------------614
KCNC3RKATGAPPLPPQDWRKPGPPS-FLPDL--->-<------------------------------747
KCNC4RKG----TFVLRDLPLQHSP---EAAC--->-<------------------------------624
KCND1PQSRSSLNAKPHDSLDLNCDSRDFVAA--->-<------------------------------597
KCND2SNSRSSLNAKMEECVKLNCEQPYVTTA--->-<------------------------------596
KCND3TTSRSSLNLKADDGLRPNCKTSQITTA--->-<------------------------------613
KCNF1------------------------------>-<------------------------------
KCNG1------------------------------>-<------------------------------
KCNG2------------------------------>-<------------------------------
KCNG3------------------------------>-<------------------------------
KCNG4------------------------------>-<------------------------------
KCNS1------------------------------>-<------------------------------
KCNS2------------------------------>-<------------------------------
KCNS3------------------------------>-<------------------------------
KCNV1------------------------------>-<------------------------------
KCNV2------------------------------>-<------------------------------
cons                              > <                              

See full Alignment of Paralogues


Known Variants in KCNQ1

ProteinCDSDisease ClassificationDiseasedbSNP linksEffect Prediction
p.S566Fc.1697C>T Inherited ArrhythmiaLQTSSIFT: deleterious
Polyphen: probably damaging
ReportsInherited ArrhythmiaLQTS Spectrum of mutations in long-QT syndrome genes. KVLQT1, HERG, SCN5A, KCNE1, and KCNE2. Circulation. 2000 102(10):1178-85. 10973849
Inherited ArrhythmiaLQTS Location of mutation in the KCNQ1 and phenotypic presentation of long QT syndrome. J Cardiovasc Electrophysiol. 2003 14(11):1149-53. 14678125
Inherited ArrhythmiaLQTS Spectrum and prevalence of mutations from the first 2,500 consecutive unrelated patients referred for the FAMILION long QT syndrome genetic test. Heart Rhythm. 2009 6(9):1297-303. 19716085
Inherited ArrhythmiaLQTS Genetic testing for long-QT syndrome: distinguishing pathogenic mutations from benign variants. Circulation. 2009 120(18):1752-60. 19841300
Inherited ArrhythmiaLQTS Clinical aspects of type-1 long-QT syndrome by location, coding type, and biophysical function of mutations involving the KCNQ1 gene. Circulation. 2007 115(19):2481-9. 17470695
Inherited ArrhythmiaLQTS Phylogenetic and physicochemical analyses enhance the classification of rare nonsynonymous single nucleotide variants in type 1 and 2 long-QT syndrome. Circ Cardiovasc Genet. 2012 5(5):519-28. doi: 10.1161/CIRCGENETICS.112.963785. 22949429
Inherited ArrhythmiaLQTS RNA splicing. The human splicing code reveals new insights into the genetic determinants of disease. Science. 2015 347(6218):1254806. doi: 10.1126/science.1254806. 25525159
p.S566Pc.1696T>C Inherited ArrhythmiaLQTSSIFT: deleterious
Polyphen: probably damaging
ReportsInherited ArrhythmiaLQTS Spectrum and prevalence of mutations from the first 2,500 consecutive unrelated patients referred for the FAMILION long QT syndrome genetic test. Heart Rhythm. 2009 6(9):1297-303. 19716085
p.S566Yc.1697C>A Inherited ArrhythmiaLQTSSIFT: deleterious
Polyphen: probably damaging
ReportsInherited ArrhythmiaLQTS Compendium of cardiac channel mutations in 541 consecutive unrelated patients referred for long QT syndrome genetic testing. Heart Rhythm. 2005 2(5):507-17. 15840476
Inherited ArrhythmiaLQTS Spectrum and prevalence of mutations from the first 2,500 consecutive unrelated patients referred for the FAMILION long QT syndrome genetic test. Heart Rhythm. 2009 6(9):1297-303. 19716085