FZD5

protein-coding

frizzled class receptor 5, the group of G protein-coupled receptors, Class F frizzled

Gene summary

Members of the 'frizzled' gene family encode 7-transmembrane domain proteins that are receptors for Wnt signaling proteins. The FZD5 protein is believed to be the receptor for the Wnt5A ligand. [provided by RefSeq, Jul 2008]

Previous symbols:
  • C2orf31

MANE transcript

NM_003468.4

Inheritance

AD

ClinVar variants

P:8U:110B:27

Top phenotype

Microphthalmia/coloboma 11

gnomAD constraint

pLI —, LoF o/e 0.06

Max pathogenic AF

—

Genomic locus

chr2:207,762,598-207,769,906

External References & Databases

Transcript & Mutation Effects

hg38 • Region Span ~7.3 kb
Loading mutation effect viewer...

GenCC Phenotypes & Disease Associations

Curated gene-disease validity assertions and inheritance patterns

microphthalmia/coloboma 11STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0958239

Submitter: PanelApp Australia

microphthalmia/coloboma 11STRONG

Inheritance Pattern: AD

Disease ID:MONDO:0958239

Submitter: G2P

Clinical Genomic Database (CGD)

Microphthalmia/coloboma 11AD

Manifestation: Ophthalmologic

Intervention: General

Rationale: Genetic knowledge may be beneficial related to issues such as selection of optimal supportive care, informed medical decision-making, prognostic considerations, and avoidance of unnecessary testing

Refs: 26908622; 32737437; 33633439; 36695497Source: CGD (NHGRI)

ClinVar Associated Diseases & Phenotypes

Reported disease conditions connected to FZD5 variants in ClinVar

8 Conditions Cataloged
Inborn genetic diseasesTotal: 72
not providedTotal: 61
Microphthalmia/coloboma 11Total: 10
FZD5-related disorderTotal: 9
not specifiedTotal: 7
Congenital ocular colobomaTotal: 4
Bladder exstrophy-epispadias-cloacal exstrophy complexTotal: 1
Autosomal dominant FZD5-related disordersTotal: 1

ClinVar Variants & Pathogenicity by Type

Statistics based on transcript NM_003468.4. 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
1
clinvar
12
clinvar
8
clinvar
21
missense
1
clinvar
1
clinvar
94
clinvar
6
clinvar
1
clinvar
103
nonsense
1
clinvar
7
clinvar
8
start loss
0
frameshift
3
clinvar
2
clinvar
8
clinvar
13
splice donor/acceptor (+/-2bp)
0
Total44110189145

Highest pathogenic variant AF is 0.000018018556

Loading ClinVar variants...

Transcript Catalog

Annotated transcript isoforms across RefSeq and Ensembl databases

Showing 4 of 8 transcripts
Transcript IDSourceProtein IDCoding ExonsMANE Status
NM_003468.4RefSeqNP_003459.21MANE Select
ENST00000295417.4EnsemblENSP00000354607.31MANE Select
ENST00000908573.1EnsemblENSP00000578632.11Standard
ENST00000937374.1EnsemblENSP00000607433.11Standard

Model Organisms & Knockout Phenotypes

Observed phenotypic effects in mouse and zebrafish models

Gene / ModelOrganismObserved Phenotype
fzd5Danio rerio

Structure: optic fissure

Quality: closure incomplete

abnormal

Gene Ontology (GO) Annotations & Pathways

Biological processes, molecular functions, cellular components and pathways

Pathways ConsensusPathDB

  • Gastric cancer - Homo sapiens (human)
  • mTOR signaling pathway - Homo sapiens (human)
  • Cushing,s syndrome - Homo sapiens (human)
  • Breast cancer - Homo sapiens (human)
  • HTLV-I infection - Homo sapiens (human)

Biological Process

  • embryonic axis specification
  • angiogenesis
  • positive regulation of T cell cytokine production
  • G protein-coupled receptor signaling pathway
  • Wnt signaling pathway, calcium modulating pathway

Molecular Function

  • amyloid-beta binding
  • G protein-coupled receptor activity
  • protein binding
  • lipid binding
  • Wnt-protein binding

Cellular Component

  • Golgi membrane
  • plasma membrane
  • integral component of plasma membrane
  • bicellular tight junction
  • cell surface

gnomAD Constraint

Source: gnomAD

Gene type
protein_coding
Transcript type
protein_coding
Transcript
ENST00000295417
Coding exons
1
Length
6978
Individuals with no LoFs
125500
Homozygous LoFs
0
Heterozygous LoFs
5
Defined
125505
p
0.0000199
Z-ScoreObservedExpectedObserved/ExpectedMutation RateTotal Possible
Missense3.002223880.5720.00002403684
Missense (PolyPhen)55177.840.309271720
Synonymous1.781611920.8370.00001371255
Loss of Function3.56116.70.05977.23e-7167

Population LoF Frequency

PopulationCAFp-valueStatus
African00.0absent
Latino/Admixed American00.0absent
Ashkenazi Jewish00.0absent
East Asian00.0absent
Finnish00.0absent
European (Non-Finnish)0.0000360.000035rare
South Asian0.0000330.000033rare
Other00.0absent

dbNSFP Gene Annotations

Source: dbNSFP

Function
FUNCTION: Receptor for Wnt proteins (PubMed:9054360, PubMed:10097073, PubMed:20530549). Can activate WNT2, WNT10B, WNT5A, but not WNT2B or WNT4 (in vitro); the in vivo situation may be different since not all of these are known to be coexpressed (By similarity). In neurons, activation of WNT7A promotes formation of synapses (PubMed:20530549). Functions in the canonical Wnt/beta-catenin signaling pathway. The canonical Wnt/beta-catenin signaling pathway leads to the activation of disheveled proteins, inhibition of GSK-3 kinase, nuclear accumulation of beta-catenin and activation of Wnt target genes (By similarity). A second signaling pathway involving PKC and calcium fluxes has been seen for some family members, but it is not yet clear if it represents a distinct pathway or if it can be integrated in the canonical pathway, as PKC seems to be required for Wnt-mediated inactivation of GSK-3 kinase. Both pathways seem to involve interactions with G-proteins. May be involved in transduction and intercellular transmission of polarity information during tissue morphogenesis and/or in differentiated tissues (Probable). Plays a role in yolk sac angiogenesis and in placental vascularization (By similarity). {ECO:0000250|UniProtKB:Q9EQD0, ECO:0000269|PubMed:10097073, ECO:0000269|PubMed:20530549, ECO:0000269|PubMed:9054360, ECO:0000305}.;

Recessive Scores

pRec
0.201

Intolerance Scores

LoFtool
0.0694
RVIS EVS
-0.21
RVIS percentile EVS
38.58

Essentials

Essential (CRISPR)
N
Essential (CRISPR2)
N
Essential (gene trap)
N
Indispensability pred.
E
Indispensability score
0.994

Gene Damage Prediction

AllRecessiveDominant
MendelianMediumMediumMedium
Primary ImmunodeficiencyMediumMediumMedium
CancerMediumMediumMedium
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