Seroatlas · Human Serome Atlas

WNT3

Proto-oncogene Wnt-3

Also known as: INT4, MGC131950, MGC138321, MGC138323, WNT3_HUMAN

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
P56703
Gene
WNT3
Ensembl
ENSG00000108379
Chromosome
17
Canonical length
355 aa
Protein class
Disease related genes, Human disease related genes, Predicted intracellular proteins, Predicted secreted proteins
Subcellular location
Vesicles
Secretome location
Secreted to extracellular matrix

OverviewNCBI Gene

The WNT gene family consists of structurally related genes which encode secreted signaling proteins. These proteins have been implicated in oncogenesis and in several developmental processes, including regulation of cell fate and patterning during embryogenesis. This gene is a member of the WNT gene family. It encodes a protein which shows 98% amino acid identity to mouse Wnt3 protein, and 84% to human WNT3A protein, another WNT gene product. The mouse studies show the requirement of Wnt3 in primary axis formation in the mouse. Studies of the gene expression suggest that this gene may play a key role in some cases of human breast, rectal, lung, and gastric cancer through activation of the WNT-beta-catenin-TCF signaling pathway. This gene is clustered with WNT15, another family member, in the chromosome 17q21 region. [provided by RefSeq, Jul 2008]

Canonical amino-acid sequenceUniProt

355 residues, UniProt reviewed canonical sequence.

>P56703|WNT3
     1  MEPHLLGLLL GLLLGGTRVL AGYPIWWSLA LGQQYTSLGS QPLLCGSIPG LVPKQLRFCR
    61  NYIEIMPSVA EGVKLGIQEC QHQFRGRRWN CTTIDDSLAI FGPVLDKATR ESAFVHAIAS
   121  AGVAFAVTRS CAEGTSTICG CDSHHKGPPG EGWKWGGCSE DADFGVLVSR EFADARENRP
   181  DARSAMNKHN NEAGRTTILD HMHLKCKCHG LSGSCEVKTC WWAQPDFRAI GDFLKDKYDS
   241  ASEMVVEKHR ESRGWVETLR AKYSLFKPPT ERDLVYYENS PNFCEPNPET GSFGTRDRTC
   301  NVTSHGIDGC DLLCCGRGHN TRTEKRKEKC HCIFHWCCYV SCQECIRIYD VHTCK

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against WNT3 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Secreted
Secreted
Yes
Transmembrane segments
0
Mean surface accessibility (rSASA)
0.31
Highest tissue expression
27 nTPM

Expression across tissuesHPA

Tissue

  • skin: 27 nTPM
  • liver: 12 nTPM
  • testis: 4.3 nTPM
  • hypothalamus: 4 nTPM
  • parathyroid gland: 4 nTPM
  • cerebral cortex: 3.2 nTPM

Single-cell type

  • late spermatids: 59 nCPM
  • bergmann glia: 58 nCPM
  • early spermatids: 22 nCPM
  • podocytes: 15 nCPM
  • basal keratinocytes: 12 nCPM
  • astrocytes: 10 nCPM

Immune cell

  • T-reg: 0.3 nTPM
  • naive B-cell: 0.2 nTPM
  • plasmacytoid DC: 0.2 nTPM
  • memory B-cell: 0.1 nTPM
  • memory CD4 T-cell: 0.1 nTPM
  • basophil: 0 nTPM

Brain region

  • thalamus: 10 nTPM
  • hypothalamus: 4.5 nTPM
  • midbrain: 4.4 nTPM
  • pons: 3.7 nTPM
  • cerebral cortex: 3.4 nTPM
  • medulla oblongata: 3.4 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about WNT3.

Disease | AllUniProt

Conditions WNT3 is implicated in, by any mechanism.

Disease | GeneticClinVar

2 pathogenic / likely-pathogenic of 147 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

  • Tetraamelia syndrome 1
  • Bladder exstrophy-epispadias-cloacal exstrophy complex

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
0.4
gnomAD pLI
0.88
gnomAD missense Z
3.18
DepMap mean gene effect
0.04
DepMap dependency class
none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 5% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

InteractionsUniProt · HPA

Protein binding partners of WNT3 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads WNT3 as an antibody target. Whether an autoantibody or antibody against WNT3 could matter depends on whether native WNT3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

WNT3 is annotated as secreted, so native WNT3 circulates and is directly accessible to antibodies. Secreted and cell-surface proteins are the autoantibody targets most likely to act like drugs, blocking or depleting the native protein.

Annotation status

The present source text does not explicitly label WNT3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/WNT3. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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