ANKRD1

protein-coding

ankyrin repeat domain 1, the group of Ankyrin repeat domain containing

Gene summary

The protein encoded by this gene is localized to the nucleus of endothelial cells and is induced by IL-1 and TNF-alpha stimulation. Studies in rat cardiomyocytes suggest that this gene functions as a transcription factor. Interactions between this protein and the sarcomeric proteins myopalladin and titin suggest that it may also be involved in the myofibrillar stretch-sensor system. [provided by RefSeq, Jul 2008]

MANE transcript

NM_014391.3

Inheritance

AD

ClinVar variants

P:1U:284B:106

Top phenotype

familial isolated dilated cardiomyopathy

gnomAD constraint

pLI —, LoF o/e 0.88

Max pathogenic AF

—

Genomic locus

chr10:90,912,096-90,921,087

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~9.0 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

hypertrophic cardiomyopathyNO_KNOWN

Inheritance Pattern: AD

Disease ID:MONDO:0005045

Submitter: ClinGen

*ANKRD1* was first reported in relation to hypertrophic cardiomyopathy (HCM) in humans in 2009, where 2 unique missense variants were reported in probands with no family history of cardiomyopathy (Arimura T, et al., 2009, PMID: 19608031). *ANKRD1* has been associated with autosomal dominant HCM in 2 probands from 1 publication. Additional missense variants have been reported in humans, but either the frequency of the variants were too high, there were homozygotes present in gnomAD, the phenotypes more closely resembled DCM, or the probands had a variant in another HCM gene (Arimura T, et al., 2009, PMID: 1960803; Ng D, et al., 2013, PMID: 23861362; Cecconi M, et al., 2016, PMID: 27600940). This gene-disease relationship is supported by expression data, a cell culture model, and an animal model. High tissue specificity in the heart has been observed for this gene (Uhlén M, et al., 2015, PMID: 25613900). Expression studies in mature rat cardiomyocytes and the examination of contraction parameters using engineered heart tissues support the gene-disease association (Crocini C, et al., 2013, PMID: 23572067). Overexpression of ANKRD1 in mice with transverse aortic constriction was shown to exacerbate pathological cardiac remodeling through activation of the calcineurin/nuclear factor of activated T-cells pathway, a signaling pathway known to have an important role in cardiac hypertrophy (Chen C, et al., 2014, PMID: 25089522). This classification was originally approved by the ClinGen Hypertrophic Cardiomyopathy Gene Curation Expert Panel on September 19th, 2017, with a classification of limited. It was reevaluated by the ClinGen Hereditary Cardiovascular Disease Gene Curation Expert Panel on February 8th, 2023. As a result of this reevaluation, the classification was changed from limited to disputed.

familial dilated cardiomyopathyLIMITED

Inheritance Pattern: AD

Disease ID:MONDO:0016333

Submitter: G2P

familial isolated dilated cardiomyopathySUPPORTIVE

Inheritance Pattern: AD

Disease ID:MONDO:0015470

Submitter: Orphanet

familial dilated cardiomyopathyLIMITED

Inheritance Pattern: AD

Disease ID:MONDO:0016333

Submitter: PanelApp Australia

familial hypertrophic cardiomyopathyNO_KNOWN

Inheritance Pattern: AD

Disease ID:MONDO:0024573

Submitter: G2P

congenital heart diseaseLIMITED

Inheritance Pattern: AD

Disease ID:MONDO:0005453

Submitter: ClinGen

*ANKRD1* was first reported in relation to autosomal dominant congenital heart disease in 2022 (Yang et al., PMID: 30659708). One missense variant has been reported and is included in this curation (PMID: 30659708). This gene-disease relationship is also supported by evidence of *ANKRD1* expression in the human heart, protein interaction with NKX2.5, and a mouse model (overexpression of *ANKRD1*) that shows *ANKRD1* transgenic mice present with a sinus venosus defect. In summary, there is limited evidence supporting the relationship between ANKRD1 and autosomal dominant congenital heart disease. Although more evidence is needed to support a causal role, no convincing evidence has emerged that contradicts the gene-disease relationship. This classification was approved by the ClinGen Congenital Heart Disease GCEP on the meeting date August 12th, 2024 (SOP Version 10)

familial hypertrophic cardiomyopathyLIMITED

Inheritance Pattern: AD

Disease ID:MONDO:0024573

Submitter: PanelApp Australia

dilated cardiomyopathyLIMITED

Inheritance Pattern: AD

Disease ID:MONDO:0005021

Submitter: ClinGen

ANKRD1 was originally evaluated for DXM by the ClinGen DCM GCEP on 08/12/2020. Evidence of the association of this gene with DCM was evaluated using SOP v10 on 02/07/2025. As a result, the classification did not change. A summary of the information contributing to the classification of this gene at the time of re-evaluation is summarized herein. ANKRD1 was first reported in relation to autosomal dominant DCM in 2009 (Duboscq-Bidot L et al, 2009, PMID: 19525294). Human genetic evidence supporting this gene-disease relationship includes case level data and segregation data. At least 16 unique variants (missense (n=13) and nonsense (n=3)) have been reported in humans, representing at least 23 probands from 7 publications (Duboscq-Bidot L et al, 2009, PMID: 19525294; Moulik et al, 2009, PMID: 19608030, Dalin et al, 2017, PMID: 27886618, Haas et al, 2015, PMID: 25163546, Marschall C et al, 2019, PMID: 31737537, Zhang XL et al, 2020, PMID: 32041989, van Lint et. al 2019, PMID: 30847666). Variants in this gene segregated with disease in 4 additional family members (Duboscq-Bidot L et al, 2009, PMID: 19525294). In addition, this gene-disease association is supported by evidence from expression studies (Duboscq-Bidot L et al, 2009, PMID: 19525294; Moulik et al, 2009, PMID: 19608030), in vitro functional assays (Moulik et al, 2009, PMID: 19608030), and non-human models (Zheng et al, 2021, PMID: 33734499). In summary, there is limited evidence to support this gene-disease relationship. More evidence is needed to support the relationship of ANKRD1 with autosomal dominant DCM. This classification was approved by the ClinGen Dilated Cardiomyopathy Working Group on 02/07/2025 (SOP Version 10).

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to ANKRD1 variants in ClinVar

15 Conditions Cataloged
ANKRD1-related dilated cardiomyopathyTotal: 385
Cardiovascular phenotypeTotal: 255
not providedTotal: 113
not specifiedTotal: 67
ANKRD1-related disorderTotal: 55
Primary dilated cardiomyopathyTotal: 22
CardiomyopathyTotal: 19
Congenital total pulmonary venous return anomalyTotal: 9

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_014391.3. Only rare variants are included.

We include only reliable ClinVar variants with their consequences to MANE Select, MANE Plus Clinical transcripts, or transcripts with TSL equal to 1. Click a count to filter the variants table below.

Slight differences between displayed counts and ClinVar may occur due to a different transcript/consequence chosen by our variant effect predictor, or because we classify Benign/Likely benign as Likely benign and Pathogenic/Likely pathogenic as Likely pathogenic.

EffectPLPVUSLBBSum
synonymous
4
clinvar
78
clinvar
1
clinvar
83
missense
1
clinvar
231
clinvar
26
clinvar
1
clinvar
259
nonsense
20
clinvar
20
start loss
3
clinvar
3
frameshift
16
clinvar
16
splice donor/acceptor (+/-2bp)
10
clinvar
10
Total012841042391

Highest pathogenic variant AF is 0.0000049571395

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 16 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_014391.3RefSeqNP_055206.29MANE Select
ENST00000371697.4EnsemblENSP00000360762.39MANE Select
ENST00000869698.1EnsemblENSP00000539757.18Standard
ENST00000869698.2EnsemblENSP00000539757.18Standard

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • Regulation of lipid metabolism by Peroxisome proliferator-activated receptor alpha (PPARalpha)
  • Glucocorticoid Receptor Pathway
  • Nuclear Receptors Meta-Pathway
  • Hypertrophy Model

Biological Process

  • negative regulation of transcription by RNA polymerase II
  • regulation of transcription by RNA polymerase II
  • skeletal muscle tissue development
  • positive regulation of neuron projection development
  • regulation of lipid metabolic process

Molecular Function

  • RNA polymerase II transcription factor binding
  • p53 binding
  • DNA binding
  • transcription coactivator activity
  • transcription corepressor activity

Cellular Component

  • fibrillar center
  • nucleus
  • nucleoplasm
  • transcription factor complex
  • cytoplasm

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000371697
Coding exons
9
Length
9181
Individuals with no LoFs
125657
Homozygous LoFs
0
Heterozygous LoFs
89
Defined
125746
p
0.000354
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense0.1931661730.9590.00001012085
Missense (PolyPhen)5655.9721.0005674
Synonymous0.3396366.50.9470.00000448588
Loss of Function0.4741618.20.8800.00000107228

Population LoF Frequency

PopulationCAFp-valueStatus
African0.000620.00062rare
Latino/Admixed American0.000670.00067rare
Ashkenazi Jewish00.0absent
East Asian0.000390.00038rare
Finnish0.0000920.000092rare
European (Non-Finnish)0.000360.00035rare
South Asian0.000160.00016rare
Other0.000330.00033rare

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: May play an important role in endothelial cell activation. May act as a nuclear transcription factor that negatively regulates the expression of cardiac genes. Induction seems to be correlated with apoptotic cell death in hepatoma cells. {ECO:0000269|PubMed:15805281, ECO:0000269|PubMed:7730328}.;
Disease
DISEASE: Total anomalous pulmonary venous return (TAPVR) [MIM:106700]: Rare congenital heart disease (CHD) in which the pulmonary veins fail to connect to the left atrium during cardiac development, draining instead into either the right atrium or one of its venous tributaries. This disease accounts for 1.5% of all CHDs and has a prevalence of approximately 1 out of 15'000 live births. {ECO:0000269|PubMed:18273862}. Note=The disease may be caused by mutations affecting the gene represented in this entry.;

Recessive Scores

pRec
0.157

Intolerance Scores

LoFtool
0.821
RVIS EVS
0.17
RVIS percentile EVS
65.76

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
N
Essential (gene trap)
N
Indispensability pred.
E
Indispensability score
0.996

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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