MYH7 : c.4589G>A

MYH7 gene summary

Variant Details

Variant (CDS)Variant (protein)Variant Type Variant EffectGenomic Location (GRCh37)ExAC Frequency
c.4589G>Ap.R1530Q (Arg > Gln)substitutionmissense chr14:23886132 (reverse strand)0.00000824

Effect in Cardiac Disease

This variant is considered a rare variant, with a population frequency of 0.00000824 (ExAC mean allelic frequency).

HCM

Rare MYH7 Non-Truncating variants are significantly enriched in HCM (details). Missense variants in MYH7 have an overall etiological fraction (EF) of 0.92, but this variant occurs in the region enriched for variants in ExAC (residues 1271-1903) and has an EF of 0.68.

OMGL: Detected in 0 / 3200 HCM patients.

LMM:   Detected in 0 / 2912 HCM patients.

DCM

Rare MYH7 Non-Truncating variants are significantly enriched in DCM (details) and have an etiological fraction (EF) of 0.75.

OMGL: Detected in 0 / 559 DCM patients.

LMM:   Detected in 0 / 756 DCM patients.

The EF is the estimated proportion of rare variants of this class that will be pathogenic in a cardiomyopathy proband, a prior probability based solely on variant frequency data in cases and controls, and should be further refined by additional evidence such as family segregation data, known association with disease, population frequency, protein domain analysis, functional studies and in silico algorithms to assess the significance of a variant.

For more information on the clinical significance of this variant, please see the ClinVar entry.

Detection in Population Databases



Database European African East Asian South Asian American Finnish Other Total
ExAC0.00001499
1 / 66690		0.00000000
0 / 10380		0.00000000
0 / 8654		0.00000000
0 / 16504		0.00000000
0 / 11568		0.00000000
0 / 6614		0.00000000
0 / 908		0.00000824
1 / 121318
ESP 0.00000
0 / 8600		 0.00000
0 / 4400		 0.00000
0 / 13000
1KG
 0.00000
0 / 1006		 0.00000
0 / 1322		 0.00000
0 / 1008		 0.00000
0 / 978		 0.00000
0 / 694		 0.00000
0 / 198		 0.00000
0 / 5008

The Exome Aggregation Consortium (ExAC) is a database of 60,706 unrelated individuals sequenced as part of various disease-specific and population genetic studies. There is partial overlap between ExAC and 1000 Genomes (1KG) (1,851 of the 2,504 samples in 1KG) and the Exome Sequencing Project (ESP) (3,936 of the 6,500 samples in ESP).


Other Variant & Gene Details

Canonical Sequences
Transcript ENST00000355349 LRG_384t1NM_000257.2
Protein ENSP00000347507 LRG_384p1P12883

Missense Variant Predictions
SIFT Grantham Polyphen-DIV Polyphen-VAR Summary
75% of algorithms have predicted that this variant will adversely affect protein function
damaging conservative probably damaging probably damaging
LRT MutationTaster MutationAssessor FATHMM
disease-causing medium impact damaging


References

1. Roddy Walsh, Kate L. Thomson, James S. Ware, Birgit H. Funke, Jessica Woodley, Karen J. McGuire, Francesco Mazzarotto, Edward Blair, Anneke Seller, Jenny C. Taylor, Eric V. Minikel, Exome Aggregation Consortium, Daniel G. MacArthur, Martin Farrall, Stuart A. Cook and Hugh Watkins. Reassessment of Mendelian gene pathogenicity using 7,855 cardiomyopathy cases and 60,706 reference samples. Genet Med. 2016 doi:10.1038/gim.2016.90.

2. Pugh TJ, Kelly MA, Gowrisankar S, Hynes E, Seidman MA, Baxter SM, Bowser M, Harrison B, Aaron D, Mahanta LM, Lakdawala NK, McDermott G, White ET, Rehm HL, Lebo M, Funke BH. The landscape of genetic variation in dilated cardiomyopathy as surveyed by clinical DNA sequencing. Genet Med. 2014 Aug;16(8):601-8.

3. Alfares AA, Kelly MA, McDermott G, Funke BH, Lebo MS, Baxter SB, Shen J, McLaughlin HM, Clark EH, Babb LJ, Cox SW, DePalma SR, Ho CY, Seidman JG, Seidman CE, Rehm HL. Results of clinical genetic testing of 2,912 probands with hypertrophic cardiomyopathy: expanded panels offer limited additional sensitivity. Genet Med. 2015 Nov;17(11):880-8.