APOLD1

protein-coding

apolipoprotein L domain containing 1, the group of MicroRNA protein coding host genes

Gene summary

APOLD1 is an endothelial cell early response protein that may play a role in regulation of endothelial cell signaling and vascular function (Regard et al., 2004 [PubMed 15102925]).[supplied by OMIM, Dec 2008]

MANE transcript

NM_030817.3

Inheritance

AD

ClinVar variants

U:58

Top phenotype

Bleeding disorder, vascular-type

gnomAD constraint

pLI —, LoF o/e 0.96

Max pathogenic AF

—

Genomic locus

chr12:12,725,917-12,829,975

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~104.1 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

inherited blood coagulation disorderLIMITED

Inheritance Pattern: AD

Disease ID:MONDO:0021181

Submitter: ClinGen

The APOLD1 gene encodes an endothelial cell early response protein induced after ischemia and expected to regulate endothelial cell signaling and vascular function One variant, c.145_146delinsTA (p.Arg49Ter) in APOLD1 was reported in 4 members of a family with an unclassified bleeding disorder (Stritt et al., PMID:35638551). This variant results from a combination in cis of the common c.146G>A; p.R49Q (rs4763876) and the rare missense c.145C>T; p.R49W (rs757476941) nucleotide substitution in APOLD1. The mechanism of disorder is not completely clear, however, it has been proposed that loss of APOLD1 results in dysmorphic endothelial cells with reduced cell-cell junctions and increased permeability, potentially leading to a bleeding disorder. Evidence supporting this gene-disease relationship includes genetic evidences (case-level data) and experimental evidences (expression; functional alteration in non-patient cells, non-human model organisms). Summary of Case Level Data: 1.5 POINTS Variants in this gene have been reported in 4 probands in 1 publication (PMID: 35638551). Affected patients show an unusual type of spontaneous and trauma-related bleeding defect as they have normal coagulation and platelet function test parameters and do not respond to classical treatment with tranexamic acid or platelet transfusion. The use of vasodilators or aspirin worsened their bleeding tendency, and they developed microcirculatory symptoms, such as livedo reticularis after the administration of desmopressin and Raynaud syndrome. Summary of Experimental Data: 3.5 POINTS Regard B et al. showed that APOLD1 is rapidly induced in endothelial cells of cerebral vessels by seizures. APOLD1 mRNA is expressed in capillaries and in the cells lining the inner surface of veins and arteries, suggesting expression by endothelial cells (PMID 15102925). Stritt et al. showed that APOLD1 localizes to cell-cell junctions and Weibel-Palade bodies in endothelial cells and in platelet alpha granules (PMID 35638551). The same authors showed that APOLD1 silencing causes increase in cell size, altered shape, endothelial cell junction dismantling (reduction in the tight junction protein CLDN5 and PECAM1), markedly enhanced fibronectin fibrillogenesis and actin stress fiber formation, reminiscent of endothelial cell activation, and increased endothelial permeability to FITC-dextran. Fan et al demonstrated that Apold1 KO mice show impaired angiogenesis in the ischemic stroke border zone (PMID:36933174). In summary, we obtained limited association of APOLD1 with unclassified bleeding disorder. This classification was approved by the ClinGen Hemostasis Thrombosis Working Group on DATE (SOP Version 10).

bleeding disorder, vascular-typeMODERATE

Inheritance Pattern: AD

Disease ID:MONDO:0958229

Submitter: PanelApp Australia

Clinical Genomic Database (CGD)

Bleeding disorder, vascular-typeAD

Manifestation: Hematologic

Intervention: Hematologic

Rationale: The condition can involve increased risk of bleeding, and awareness may allow preventive measures (such as related to surgical situations) and early management of bleeding episodes

Refs: 35638551Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to APOLD1 variants in ClinVar

2 Conditions Cataloged
not specifiedTotal: 57
Bleeding disorder, vascular-typeTotal: 1

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_030817.3. 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
0
missense
58
clinvar
58
nonsense
0
start loss
0
frameshift
0
splice donor/acceptor (+/-2bp)
0
Total00580058
Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 8 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_030817.3RefSeqNP_110444.32MANE Select
ENST00000356591.5EnsemblENSP00000348998.42MANE Select
NM_001130415.2RefSeqNP_001123887.12Standard
ENST00000326765.10EnsemblENSP00000324277.62Standard

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Biological Process

  • angiogenesis
  • response to hypoxia
  • lipid transport
  • cell differentiation
  • endothelial cell activation

Molecular Function

  • lipid binding

Cellular Component

  • extracellular region
  • nucleoplasm
  • cytosol
  • plasma membrane
  • integral component of membrane

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000326765
Coding exons
2
Length
104059
Individuals with no LoFs
125728
Homozygous LoFs
0
Heterozygous LoFs
18
Defined
125746
p
0.0000716
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense0.4491201350.8910.000007171694
Missense (PolyPhen)4752.5270.89477699
Synonymous1.185162.90.8110.00000340631
Loss of Function0.10366.280.9562.70e-773

Population LoF Frequency

PopulationCAFp-valueStatus
African0.0000620.000062rare
Latino/Admixed American00.0absent
Ashkenazi Jewish00.0absent
East Asian00.0absent
Finnish0.0000470.000046rare
European (Non-Finnish)0.0000990.000097rare
South Asian0.000170.00016rare
Other00.0absent

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: May be involved in angiogenesis. May play a role in activity-dependent changes of brain vasculature. May affect blood- brain permeability. {ECO:0000269|PubMed:15102925}.;

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
S
Essential (gene trap)
H
Indispensability pred.
N
Indispensability score
0.410

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
For research and educational, non-commercial use only. Not for clinical or diagnostic use. GeneBe does not provide medical advice. Data use for AI modeling is prohibited: if used, the cost is $0.001 per byte of downloaded uncompressed data.