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WNT5A Wnt family member 5A [ Homo sapiens (human) ]

Gene ID: 7474, updated on 16-Feb-2020

Summary

Official Symbol
WNT5Aprovided by HGNC
Official Full Name
Wnt family member 5Aprovided by HGNC
Primary source
HGNC:HGNC:12784
See related
Ensembl:ENSG00000114251 MIM:164975
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
hWNT5A
Summary
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 encodes a member of the WNT family that signals through both the canonical and non-canonical WNT pathways. This protein is a ligand for the seven transmembrane receptor frizzled-5 and the tyrosine kinase orphan receptor 2. This protein plays an essential role in regulating developmental pathways during embryogenesis. This protein may also play a role in oncogenesis. Mutations in this gene are the cause of autosomal dominant Robinow syndrome. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Jan 2012]
Expression
Broad expression in urinary bladder (RPKM 9.1), endometrium (RPKM 7.3) and 19 other tissues See more
Orthologs

Genomic context

See WNT5A in Genome Data Viewer
Location:
3p14.3
Exon count:
15
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (55465715..55505261, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (55499743..55521670, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105377097 Neighboring gene long intergenic non-protein coding RNA 2030 Neighboring gene VISTA enhancer hs1472 Neighboring gene uncharacterized LOC105377100 Neighboring gene ELKS/RAB6-interacting/CAST family member 2 Neighboring gene ERC2 intronic transcript 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120 upregulates the expression of WNT5a in human neural stem cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA-binding transcription factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
chemoattractant activity involved in axon guidance IEA
Inferred from Electronic Annotation
more info
 
cytokine activity IEA
Inferred from Electronic Annotation
more info
 
frizzled binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
frizzled binding IPI
Inferred from Physical Interaction
more info
PubMed 
frizzled binding TAS
Traceable Author Statement
more info
PubMed 
phospholipid binding TAS
Traceable Author Statement
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein domain specific binding IEA
Inferred from Electronic Annotation
more info
 
receptor ligand activity IC
Inferred by Curator
more info
PubMed 
receptor tyrosine kinase-like orphan receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription regulatory region DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
Wnt signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Wnt signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
Wnt signaling pathway TAS
Traceable Author Statement
more info
 
Wnt signaling pathway involved in midbrain dopaminergic neuron differentiation NAS
Non-traceable Author Statement
more info
PubMed 
Wnt signaling pathway, calcium modulating pathway IDA
Inferred from Direct Assay
more info
 
Wnt signaling pathway, calcium modulating pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
Wnt signaling pathway, calcium modulating pathway NAS
Non-traceable Author Statement
more info
PubMed 
Wnt signaling pathway, planar cell polarity pathway TAS
Traceable Author Statement
more info
PubMed 
activation of GTPase activity IEA
Inferred from Electronic Annotation
more info
 
activation of JUN kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
activation of JUN kinase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
activation of MAPK activity IDA
Inferred from Direct Assay
more info
PubMed 
activation of protein kinase B activity IDA
Inferred from Direct Assay
more info
PubMed 
anterior/posterior axis specification, embryo IEA
Inferred from Electronic Annotation
more info
 
axon guidance ISS
Inferred from Sequence or Structural Similarity
more info
 
canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
cartilage development IEA
Inferred from Electronic Annotation
more info
 
cell fate commitment IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cellular protein localization IDA
Inferred from Direct Assay
more info
PubMed 
cellular response to calcium ion IEP
Inferred from Expression Pattern
more info
PubMed 
cellular response to interferon-gamma IEP
Inferred from Expression Pattern
more info
PubMed 
cellular response to lipopolysaccharide IEP
Inferred from Expression Pattern
more info
PubMed 
cellular response to retinoic acid ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to transforming growth factor beta stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
cervix development IEA
Inferred from Electronic Annotation
more info
 
chemoattraction of serotonergic neuron axon IEA
Inferred from Electronic Annotation
more info
 
chemorepulsion of dopaminergic neuron axon IEA
Inferred from Electronic Annotation
more info
 
cochlea morphogenesis IEA
Inferred from Electronic Annotation
more info
 
convergent extension involved in axis elongation IEA
Inferred from Electronic Annotation
more info
 
convergent extension involved in organogenesis IEA
Inferred from Electronic Annotation
more info
 
embryonic digit morphogenesis IEA
Inferred from Electronic Annotation
more info
 
embryonic skeletal system development IMP
Inferred from Mutant Phenotype
more info
PubMed 
epithelial cell proliferation involved in mammary gland duct elongation IEA
Inferred from Electronic Annotation
more info
 
epithelial to mesenchymal transition IEP
Inferred from Expression Pattern
more info
PubMed 
establishment of epithelial cell apical/basal polarity IEA
Inferred from Electronic Annotation
more info
 
establishment of planar polarity IEA
Inferred from Electronic Annotation
more info
 
excitatory synapse assembly TAS
Traceable Author Statement
more info
PubMed 
face development IMP
Inferred from Mutant Phenotype
more info
PubMed 
genitalia development IMP
Inferred from Mutant Phenotype
more info
PubMed 
heart looping IEA
Inferred from Electronic Annotation
more info
 
hematopoietic stem cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
hindgut morphogenesis IEA
Inferred from Electronic Annotation
more info
 
hypophysis morphogenesis IEA
Inferred from Electronic Annotation
more info
 
inhibitory synapse assembly TAS
Traceable Author Statement
more info
PubMed 
keratinocyte differentiation IEP
Inferred from Expression Pattern
more info
PubMed 
lateral sprouting involved in mammary gland duct morphogenesis IEA
Inferred from Electronic Annotation
more info
 
lens development in camera-type eye ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
lung development IEA
Inferred from Electronic Annotation
more info
 
male gonad development IEP
Inferred from Expression Pattern
more info
PubMed 
mammary gland branching involved in thelarche IEA
Inferred from Electronic Annotation
more info
 
melanocyte proliferation IEA
Inferred from Electronic Annotation
more info
 
membrane organization TAS
Traceable Author Statement
more info
 
mesenchymal-epithelial cell signaling IEA
Inferred from Electronic Annotation
more info
 
mesodermal to mesenchymal transition involved in gastrulation IEA
Inferred from Electronic Annotation
more info
 
midgut development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of BMP signaling pathway IEA
Inferred from Electronic Annotation
more info
 
negative regulation of apoptotic process IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of axon extension involved in axon guidance IEA
Inferred from Electronic Annotation
more info
 
negative regulation of canonical Wnt signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
negative regulation of cell proliferation in midbrain NAS
Non-traceable Author Statement
more info
PubMed 
negative regulation of epithelial cell proliferation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of fat cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of fibroblast growth factor receptor signaling pathway IEA
Inferred from Electronic Annotation
more info
 
negative regulation of melanin biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
negative regulation of mesenchymal cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of prostatic bud formation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of synapse assembly IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
neuron differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
non-canonical Wnt signaling pathway TAS
Traceable Author Statement
more info
PubMed 
non-canonical Wnt signaling pathway via JNK cascade IEA
Inferred from Electronic Annotation
more info
 
notochord morphogenesis IEA
Inferred from Electronic Annotation
more info
 
olfactory bulb interneuron development ISS
Inferred from Sequence or Structural Similarity
more info
 
optic cup formation involved in camera-type eye development ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
paraxial mesoderm formation IEA
Inferred from Electronic Annotation
more info
 
planar cell polarity pathway involved in axis elongation IEA
Inferred from Electronic Annotation
more info
 
planar cell polarity pathway involved in axon guidance IEA
Inferred from Electronic Annotation
more info
 
planar cell polarity pathway involved in cardiac muscle tissue morphogenesis IEA
Inferred from Electronic Annotation
more info
 
planar cell polarity pathway involved in cardiac right atrium morphogenesis IEA
Inferred from Electronic Annotation
more info
 
planar cell polarity pathway involved in gastrula mediolateral intercalation IEA
Inferred from Electronic Annotation
more info
 
planar cell polarity pathway involved in midbrain dopaminergic neuron differentiation TAS
Traceable Author Statement
more info
PubMed 
planar cell polarity pathway involved in neural tube closure IEA
Inferred from Electronic Annotation
more info
 
planar cell polarity pathway involved in outflow tract morphogenesis IEA
Inferred from Electronic Annotation
more info
 
planar cell polarity pathway involved in pericardium morphogenesis IEA
Inferred from Electronic Annotation
more info
 
planar cell polarity pathway involved in ventricular septum morphogenesis IEA
Inferred from Electronic Annotation
more info
 
positive regulation of G protein-coupled receptor signaling pathway IDA
Inferred from Direct Assay
more info
 
positive regulation of NF-kappaB transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of T cell chemotaxis IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of angiogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cartilage development IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cell-cell adhesion mediated by cadherin IEA
Inferred from Electronic Annotation
more info
 
positive regulation of chemokine biosynthetic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cytokine secretion involved in immune response IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of endocytosis IEA
Inferred from Electronic Annotation
more info
 
positive regulation of endothelial cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of endothelial cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of fibroblast proliferation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of gene expression ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of inflammatory response IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of interferon-gamma production IEA
Inferred from Electronic Annotation
more info
 
positive regulation of interleukin-1 beta secretion IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of interleukin-1 beta secretion ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of interleukin-6 production IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of interleukin-8 secretion IEA
Inferred from Electronic Annotation
more info
 
positive regulation of macrophage activation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of macrophage cytokine production IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of meiotic nuclear division IEA
Inferred from Electronic Annotation
more info
 
positive regulation of mesenchymal cell proliferation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of neuron death ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of neuron projection arborization ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of neuron projection development ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of non-canonical Wnt signaling pathway IEA
Inferred from Electronic Annotation
more info
 
positive regulation of ossification IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of peptidyl-serine phosphorylation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of peptidyl-threonine phosphorylation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of protein binding IEA
Inferred from Electronic Annotation
more info
 
positive regulation of protein catabolic process IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of protein kinase C activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of protein kinase C signaling IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of protein localization to synapse TAS
Traceable Author Statement
more info
PubMed 
positive regulation of response to cytokine stimulus IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of thymocyte apoptotic process IEA
Inferred from Electronic Annotation
more info
 
positive regulation of timing of anagen IEA
Inferred from Electronic Annotation
more info
 
positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of transcription, DNA-templated IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of tumor necrosis factor secretion ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of type I interferon-mediated signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
post-anal tail morphogenesis IEA
Inferred from Electronic Annotation
more info
 
postsynapse assembly TAS
Traceable Author Statement
more info
PubMed 
presynapse assembly TAS
Traceable Author Statement
more info
PubMed 
primitive streak formation IEA
Inferred from Electronic Annotation
more info
 
regulation of I-kappaB kinase/NF-kappaB signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of branching involved in mammary gland duct morphogenesis IEA
Inferred from Electronic Annotation
more info
 
regulation of cellular protein localization IEA
Inferred from Electronic Annotation
more info
 
regulation of inflammatory response NAS
Non-traceable Author Statement
more info
PubMed 
regulation of postsynapse organization IDA
Inferred from Direct Assay
more info
PubMed 
regulation of postsynapse organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of postsynaptic cytosolic calcium ion concentration IDA
Inferred from Direct Assay
more info
PubMed 
regulation of postsynaptic cytosolic calcium ion concentration IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of synapse organization IDA
Inferred from Direct Assay
more info
PubMed 
regulation of synapse organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
response to organic substance IEP
Inferred from Expression Pattern
more info
PubMed 
secondary palate development IMP
Inferred from Mutant Phenotype
more info
PubMed 
somitogenesis IEA
Inferred from Electronic Annotation
more info
 
type B pancreatic cell development IEA
Inferred from Electronic Annotation
more info
 
urinary bladder development IEA
Inferred from Electronic Annotation
more info
 
uterus development IEA
Inferred from Electronic Annotation
more info
 
vagina development IEA
Inferred from Electronic Annotation
more info
 
wound healing IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
Golgi lumen TAS
Traceable Author Statement
more info
 
cell surface IEA
Inferred from Electronic Annotation
more info
 
clathrin-coated endocytic vesicle membrane TAS
Traceable Author Statement
more info
 
clathrin-coated vesicle membrane TAS
Traceable Author Statement
more info
 
colocalizes_with collagen-containing extracellular matrix HDA PubMed 
endocytic vesicle membrane TAS
Traceable Author Statement
more info
 
endoplasmic reticulum lumen TAS
Traceable Author Statement
more info
 
extracellular exosome TAS
Traceable Author Statement
more info
 
extracellular region TAS
Traceable Author Statement
more info
PubMed 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
postsynapse IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
protein Wnt-5a
Names
WNT-5A protein
epididymis secretory sperm binding protein
wingless-type MMTV integration site family, member 5A

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_031992.1 RefSeqGene

    Range
    5001..26928
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001256105.1NP_001243034.1  protein Wnt-5a isoform 2 precursor

    See identical proteins and their annotated locations for NP_001243034.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1.
    Source sequence(s)
    AC121764, AK290869, BU742635, DB224740
    Consensus CDS
    CCDS58835.1
    UniProtKB/Swiss-Prot
    P41221
    UniProtKB/TrEMBL
    A0A024R316
    Related
    ENSP00000420104.1, ENST00000497027.5
    Conserved Domains (1) summary
    pfam00110
    Location:60365
    wnt; wnt family
  2. NM_001377271.1NP_001364200.1  protein Wnt-5a isoform 2 precursor

    Status: REVIEWED

    Source sequence(s)
    AC121764
  3. NM_001377272.1NP_001364201.1  protein Wnt-5a isoform 2 precursor

    Status: REVIEWED

    Source sequence(s)
    AC121764
  4. NM_003392.5NP_003383.3  protein Wnt-5a isoform 2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform 2.
    Source sequence(s)
    AC121764
    Consensus CDS
    CCDS46850.1
    Related
    ENSP00000264634.4, ENST00000264634.8

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    55465715..55505261 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017007127.1XP_016862616.1  protein Wnt-5a isoform X1

  2. XM_011534086.2XP_011532388.1  protein Wnt-5a isoform X2

    See identical proteins and their annotated locations for XP_011532388.1

    UniProtKB/Swiss-Prot
    P41221
    UniProtKB/TrEMBL
    A0A024R316
    Conserved Domains (1) summary
    pfam00110
    Location:60365
    wnt; wnt family
  3. XM_017007128.1XP_016862617.1  protein Wnt-5a isoform X2

    UniProtKB/Swiss-Prot
    P41221
    UniProtKB/TrEMBL
    A0A024R316
    Conserved Domains (1) summary
    pfam00110
    Location:60365
    wnt; wnt family
  4. XM_011534085.2XP_011532387.1  protein Wnt-5a isoform X2

    See identical proteins and their annotated locations for XP_011532387.1

    UniProtKB/Swiss-Prot
    P41221
    UniProtKB/TrEMBL
    A0A024R316
    Conserved Domains (1) summary
    pfam00110
    Location:60365
    wnt; wnt family
  5. XM_006713324.1XP_006713387.1  protein Wnt-5a isoform X2

    UniProtKB/Swiss-Prot
    P41221
    UniProtKB/TrEMBL
    A0A024R316
    Conserved Domains (1) summary
    pfam00110
    Location:60365
    wnt; wnt family
  6. XM_011534087.2XP_011532389.1  protein Wnt-5a isoform X2

    UniProtKB/Swiss-Prot
    P41221
    UniProtKB/TrEMBL
    A0A024R316
    Conserved Domains (1) summary
    pfam00110
    Location:60365
    wnt; wnt family
  7. XM_011534088.2XP_011532390.1  protein Wnt-5a isoform X2

    See identical proteins and their annotated locations for XP_011532390.1

    UniProtKB/Swiss-Prot
    P41221
    UniProtKB/TrEMBL
    A0A024R316
    Conserved Domains (1) summary
    pfam00110
    Location:60365
    wnt; wnt family
  8. XM_011534089.1XP_011532391.1  protein Wnt-5a isoform X2

    See identical proteins and their annotated locations for XP_011532391.1

    UniProtKB/Swiss-Prot
    P41221
    UniProtKB/TrEMBL
    A0A024R316
    Conserved Domains (1) summary
    pfam00110
    Location:60365
    wnt; wnt family
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