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WNT5A (wingless-type MMTV integration site family, member 5A)

Identity

Other namesWNT-5A
HGNC (Hugo) WNT5A
LocusID (NCBI) 7474
Location 3p14.3
Location_base_pair Starts at 55499743 and ends at 55515426 bp from pter ( according to hg19-Feb_2009)  [Mapping]
Local_order CACNA2D3 - WNT5A - ERC2
Note WNT family ligand. WNT family members with conserved 22 or 24 Cys residues are secreted-type glycoproteins, which are implicated in embryogenesis and carcinogenesis. Nineteen WNT family genes exist within the human genome.

DNA/RNA

Note WNT5A gene at chromosome 3p14.3 and WNT5B gene at chromosome 12p13.33 are paralogs within the human genome.
 
  Schematic representation of WNT5A gene.
Note [Annexed document]
  Alignment of mammalian WNT5A and WNT5B orthologs. N-terminal signal peptide (double over-line), conserved Cys residues (+), and Asn-linked glycosylation sites are shown.
Description WNT5A gene consists of 5 exons. First methionine is located in exon 1, while stop codon in exon 5. dbSNP rs655731, located within exon 5 of the human WNT5A gene, is a synonymous SNP corresponding to codon 263.
Transcription WNT5A is preferentially upregulated in gastric cancer, and melanoma, but downregulated in breast cancer, colorectal cancer, and acute lymphocytic leukemia.
Wnt5a is upregulated by IL6 family cytokines through gp130 in cultured cardiomyocytes, by TGFbeta in mammary epithelial cells, and by TNFalpha in gastric cancer cells. WNT5A upregulation in primary tumor is in part due to stromal expression based on tumor-stromal interaction, while WNT5A downregulation in primary tumor is in part due to epigenetic silencing induced by promoter CpG hypermethylation.

Protein

Description Mature WNT5A protein with conserved Cys residues is a secreted-type glycoprotein.
Expression WNT5A mRNA is relatively abundantly expressed in salivary gland, bladder, uterus, placenta, and fetal kidney.
Localisation Naive WNT5A protein is synthesized in the endoplasmic reticulum. Mature WNT5A protein with lipid modifications and glycosylations enters the trans-Golgi network for secretion from the cell surface.
Function WNT5A signals are transduced to the canonical and non-canonical WNT signaling cascades. WNT5A signaling through Frizzled-4 ( FZD4 ) or FZD5 receptor and LRP5 or LRP6 co-receptor leads to the stabilization and nuclear accumulation of beta-catenin for the transcriptional activation of target genes, such as MYC, CCND1, and FGF20. On the other hand, WNT5A signaling through Frizzled family receptor or ROR1 or ROR2 co-receptor leads to the activation of the non-canonical WNT signaling cascades, such as DAG - PKC, IP3 - NFAT, or IP3 - NLK signaling cascades. WNT5A-PKC signaling promotes invasion and metastasis of tumors through SNAI1 (Snail)-mediated epithelial-to-mesenchymal transition (EMT), while WNT5A-NLK signaling suppresses carcinogenesis through inhibition of the canonical WNT signaling cascade. Expression of WNT5A is associated with metastatic or aggressive phenotype in gastric cancer, melanoma, and osteosarcoma, but is associated with non-aggressive or better prognostic phenotype in breast cancer, colorectal cancer, and acute lymphocytic leukemia. Together these facts indicate that WNT5A induces oncogenic as well as tumor suppressive functions in a context-dependent manner.
Homology Human WNT5A shows 98.7% total amino-acid identity with rodent Wnt5a, indicating that mammalian WNT5A orthologs are highly conserved. Among 19 WNT family members, WNT5A is most homologous to WNT5B.

Mutations

Note WNT5A gene is located at human chromosome 3p14.3 around the susceptible locus of Zimmermann-Laband Syndrome; however, mutation of WNT5A gene has not been detected.
Germinal Wnt5a knockout mice show smaller somites and shortened presomitic mesoderm, abnormalities in the lungs with the foreshortened trachea, dysplasia of genitals, and ventricular septal defects.

Implicated in

Entity Melanoma
Prognosis Poor prognosis
  
Entity Gastric cancer
Prognosis Poor prognosis
  
Entity Osteosarcoma
Prognosis Poor prognosis
  
Entity Breast cancer
Prognosis Better prognosis
  
Entity Colorectal cancer
Prognosis Better prognosis
  
Entity Acute lymphocytic leukemia
Prognosis Better prognosis
  

External links

Nomenclature
HGNC (Hugo)WNT5A   12784
Entrez_Gene (NCBI)WNT5A  7474  wingless-type MMTV integration site family, member 5A
Cards
AtlasWNT5AID42825ch3p14
GeneCards (Weizmann)WNT5A
Ensembl (Hinxton)ENSG00000114251 [Gene_View]  chr3:55499743-55515426 [Contig_View]  WNT5A [Vega]
AceView (NCBI)WNT5A
Genatlas (Paris)WNT5A
euGene (Indiana)7474
SOURCE (Stanford)NM_001256105 NM_003392
Genomic and cartography
GoldenPath (UCSC)WNT5A  -  3p14.3   chr3:55499743-55515426 -  3p21-p14   [Description]    (hg19-Feb_2009)
EnsemblWNT5A - 3p21-p14 [CytoView]
Mapping of homologs : NCBIWNT5A [Mapview]
OMIM164975   180700   
Gene and transcription
Genbank (Entrez)AI634753 AK021503 AK090582 AK290375 AK290869
RefSeq transcript (SRS)NM_001256105 NM_003392
RefSeq transcript (Entrez)NM_001256105 NM_003392
RefSeq genomic (SRS)AC_000135 NC_000003 NG_031992 NT_022517 NW_001838877
RefSeq genomic (Entrez)AC_000135 NC_000003 NG_031992 NT_022517 NW_001838877
Consensus coding sequences : CCDS (NCBI)WNT5A
Cluster EST : UnigeneHs.643085 [ SRS ] Hs.643085 [ NCBI ]
Alternative Splicing : Fast-db (Paris)8589
Alternative Splicing GalleryENSG00000114251
Gene ExpressionWNT5A [ NCBI-GEO ]   WNT5A [ EBI - ARRAY_EXPRESS ]
Protein : pattern, domain, 3D structure
UniProt/SwissProtP41221 (SRS) P41221 (Uniprot)
With graphics : InterProP41221
Splice isoforms : SwissVarP41221(Swissvar)
Domaine pattern : Prosite (SRS)WNT1 (PS00246)   
Domaine pattern : Prosite (Expaxy)WNT1 (PS00246)   
Domains : Interpro (SRS)Wnt    Wnt_grthfactor_CS   
Domains : Interpro (EBI)Wnt    Wnt_grthfactor_CS   
Related proteins : CluSTrP41221
Domain families : Pfam (SRS)wnt (PF00110)   
Domain families : Pfam (Sanger)wnt (PF00110)   
Domain families : Pfam (NCBI)pfam00110   
Domain families : Smart (EMBL)WNT1 (SM00097)  
Blocks (Seattle)P41221
Human Protein AtlasENSG00000114251
HPRD01293
IPIIPI00795811   IPI00013178   IPI00807634   IPI00985138   
Protein Interaction databases
DIP (DOE-UCLA)P41221
IntAct (EBI)P41221
FunCoupENSG00000114251
REACTOMEWNT5A
BioGRIDWNT5A
InParanoidP41221
Interologous Interaction database P41221
Polymorphism : SNP, mutations, diseases
SNP Single Nucleotide Polymorphism (NCBI)WNT5A
SNP (GeneSNP Utah)WNT5A
SNP : HGBaseWNT5A
Genetic variants : HAPMAPWNT5A
Somatic Mutations in Cancer : COSMICWNT5A 
CONAN: Copy Number AnalysisWNT5A 
Mutations and Diseases : HGMDWNT5A
OMIM164975    180700   
GENETests164975    180700   
Disease Genetic AssociationWNT5A
Huge Navigator WNT5A [HugePedia]  WNT5A [HugeCancerGEM]
Genomic VariantsWNT5A
snp3D : Map Gene to Disease7474
General knowledge
Homologs : HomoloGeneWNT5A
Homology/Alignments : Family Browser (UCSC)WNT5A
Phylogenetic Trees/Animal Genes : TreeFamWNT5A
Chemical/Protein Interactions : CTD7474
Chemical/Pharm GKB GenePA37385
Clinical trialWNT5A
Cancer Resource (Charite)ENSG00000114251
Ontology : AmiGOactivation of MAPK activity  ameboidal cell migration  establishment of planar polarity  somitogenesis  epithelial to mesenchymal transition  neural tube closure  positive regulation of endothelial cell proliferation  heart looping  positive regulation of mesenchymal cell proliferation  lens development in camera-type eye  positive regulation of cytokine secretion involved in immune response  type B pancreatic cell development  pericardium morphogenesis  axis elongation  optic cup formation involved in camera-type eye development  sequence-specific DNA binding transcription factor activity  receptor binding  frizzled binding  frizzled-2 binding  receptor tyrosine kinase-like orphan receptor binding  cytokine activity  extracellular region  proteinaceous extracellular matrix  extracellular space  membrane fraction  cytoplasm  plasma membrane  signal transduction  Wnt receptor signaling pathway, calcium modulating pathway  Wnt receptor signaling pathway, calcium modulating pathway  activation of JUN kinase activity  activation of JUN kinase activity  multicellular organismal development  axon guidance  hindgut morphogenesis  midgut development  male gonad development  anterior/posterior axis specification, embryo  embryo development  dorsal/ventral axis specification  cell surface  response to organic substance  positive regulation of endothelial cell migration  positive regulation of peptidyl-threonine phosphorylation  positive regulation of T cell chemotaxis  positive regulation of neuron projection development  response to organic cyclic compound  Wnt receptor signaling pathway  Wnt receptor signaling pathway  protein domain specific binding  olfactory bulb interneuron development  neural tube development  neuron differentiation  keratinocyte differentiation  negative regulation of BMP signaling pathway  positive regulation of cGMP metabolic process  prostate gland development  activation of protein kinase B activity  response to estradiol stimulus  positive regulation of interferon-gamma production  positive regulation of interleukin-6 production  positive regulation of peptidyl-serine phosphorylation  response to testosterone stimulus  cellular protein localization  tail morphogenesis  negative regulation of fibroblast growth factor receptor signaling pathway  wound healing  embryonic digit morphogenesis  positive regulation of macrophage activation  negative regulation of apoptotic process  transcription regulatory region DNA binding  positive regulation of chemokine biosynthetic process  negative regulation of fat cell differentiation  positive regulation of protein catabolic process  positive regulation of angiogenesis  positive regulation of ossification  positive regulation of meiosis  negative regulation of transcription, DNA-dependent  positive regulation of transcription, DNA-dependent  positive regulation of transcription from RNA polymerase II promoter  positive regulation of JNK cascade  receptor agonist activity  positive regulation of fibroblast proliferation  lung alveolus development  digestive tract morphogenesis  embryonic skeletal system development  genitalia development  neuron projection morphogenesis  negative regulation of axon extension involved in axon guidance  hypophysis morphogenesis  negative regulation of epithelial cell proliferation  positive regulation of interleukin-1 beta secretion  positive regulation of inflammatory response  negative chemotaxis  positive regulation of NF-kappaB transcription factor activity  response to glucocorticoid stimulus  negative regulation of synapse assembly  response to hyperoxia  palate development  convergent extension involved in organogenesis  uterus development  cervix development  vagina development  Wnt receptor signaling pathway, planar cell polarity pathway  urinary bladder development  metestrus  face development  positive regulation of type I interferon-mediated signaling pathway  respiratory system development  lateral sprouting involved in mammary gland duct morphogenesis  mesenchymal-epithelial cell signaling  negative regulation of prostatic bud formation  mammary gland branching involved in thelarche  epithelial cell proliferation involved in mammary gland duct elongation  positive regulation of response to cytokine stimulus  regulation of branching involved in mammary gland duct morphogenesis  positive regulation of macrophage cytokine production  positive regulation of cartilage development  planar cell polarity pathway involved in outflow tract morphogenesis  planar cell polarity pathway involved in ventricular septum morphogenesis  planar cell polarity pathway involved in cardiac right atrium morphogenesis  planar cell polarity pathway involved in cardiac muscle tissue morphogenesis  planar cell polarity pathway involved in pericardium morphogenesis  positive regulation of thymocyte apoptosis  cellular response to lipopolysaccharide  cellular response to calcium ion  cellular response to retinoic acid  cellular response to interferon-gamma  hemopoietic stem cell proliferation  dopaminergic neuron differentiation  cellular response to transforming growth factor beta stimulus  negative regulation of mesenchymal cell proliferation  primitive streak formation  positive regulation of protein kinase C signaling cascade  negative regulation of canonical Wnt receptor signaling pathway  negative regulation of canonical Wnt receptor signaling pathway  cochlea morphogenesis  planar cell polarity pathway involved in neural tube closure  positive regulation of cell-cell adhesion mediated by cadherin  positive regulation of interleukin-8 secretion  
Ontology : EGO-EBIactivation of MAPK activity  ameboidal cell migration  establishment of planar polarity  somitogenesis  epithelial to mesenchymal transition  neural tube closure  positive regulation of endothelial cell proliferation  heart looping  positive regulation of mesenchymal cell proliferation  lens development in camera-type eye  positive regulation of cytokine secretion involved in immune response  type B pancreatic cell development  pericardium morphogenesis  axis elongation  optic cup formation involved in camera-type eye development  sequence-specific DNA binding transcription factor activity  receptor binding  frizzled binding  frizzled-2 binding  receptor tyrosine kinase-like orphan receptor binding  cytokine activity  extracellular region  proteinaceous extracellular matrix  extracellular space  membrane fraction  cytoplasm  plasma membrane  signal transduction  Wnt receptor signaling pathway, calcium modulating pathway  Wnt receptor signaling pathway, calcium modulating pathway  activation of JUN kinase activity  activation of JUN kinase activity  multicellular organismal development  axon guidance  hindgut morphogenesis  midgut development  male gonad development  anterior/posterior axis specification, embryo  embryo development  dorsal/ventral axis specification  cell surface  response to organic substance  positive regulation of endothelial cell migration  positive regulation of peptidyl-threonine phosphorylation  positive regulation of T cell chemotaxis  positive regulation of neuron projection development  response to organic cyclic compound  Wnt receptor signaling pathway  Wnt receptor signaling pathway  protein domain specific binding  olfactory bulb interneuron development  neural tube development  neuron differentiation  keratinocyte differentiation  negative regulation of BMP signaling pathway  positive regulation of cGMP metabolic process  prostate gland development  activation of protein kinase B activity  response to estradiol stimulus  positive regulation of interferon-gamma production  positive regulation of interleukin-6 production  positive regulation of peptidyl-serine phosphorylation  response to testosterone stimulus  cellular protein localization  tail morphogenesis  negative regulation of fibroblast growth factor receptor signaling pathway  wound healing  embryonic digit morphogenesis  positive regulation of macrophage activation  negative regulation of apoptotic process  transcription regulatory region DNA binding  positive regulation of chemokine biosynthetic process  negative regulation of fat cell differentiation  positive regulation of protein catabolic process  positive regulation of angiogenesis  positive regulation of ossification  positive regulation of meiosis  negative regulation of transcription, DNA-dependent  positive regulation of transcription, DNA-dependent  positive regulation of transcription from RNA polymerase II promoter  positive regulation of JNK cascade  receptor agonist activity  positive regulation of fibroblast proliferation  lung alveolus development  digestive tract morphogenesis  embryonic skeletal system development  genitalia development  neuron projection morphogenesis  negative regulation of axon extension involved in axon guidance  hypophysis morphogenesis  negative regulation of epithelial cell proliferation  positive regulation of interleukin-1 beta secretion  positive regulation of inflammatory response  negative chemotaxis  positive regulation of NF-kappaB transcription factor activity  response to glucocorticoid stimulus  negative regulation of synapse assembly  response to hyperoxia  palate development  convergent extension involved in organogenesis  uterus development  cervix development  vagina development  Wnt receptor signaling pathway, planar cell polarity pathway  urinary bladder development  metestrus  face development  positive regulation of type I interferon-mediated signaling pathway  respiratory system development  lateral sprouting involved in mammary gland duct morphogenesis  mesenchymal-epithelial cell signaling  negative regulation of prostatic bud formation  mammary gland branching involved in thelarche  epithelial cell proliferation involved in mammary gland duct elongation  positive regulation of response to cytokine stimulus  regulation of branching involved in mammary gland duct morphogenesis  positive regulation of macrophage cytokine production  positive regulation of cartilage development  planar cell polarity pathway involved in outflow tract morphogenesis  planar cell polarity pathway involved in ventricular septum morphogenesis  planar cell polarity pathway involved in cardiac right atrium morphogenesis  planar cell polarity pathway involved in cardiac muscle tissue morphogenesis  planar cell polarity pathway involved in pericardium morphogenesis  positive regulation of thymocyte apoptosis  cellular response to lipopolysaccharide  cellular response to calcium ion  cellular response to retinoic acid  cellular response to interferon-gamma  hemopoietic stem cell proliferation  dopaminergic neuron differentiation  cellular response to transforming growth factor beta stimulus  negative regulation of mesenchymal cell proliferation  primitive streak formation  positive regulation of protein kinase C signaling cascade  negative regulation of canonical Wnt receptor signaling pathway  negative regulation of canonical Wnt receptor signaling pathway  cochlea morphogenesis  planar cell polarity pathway involved in neural tube closure  positive regulation of cell-cell adhesion mediated by cadherin  positive regulation of interleukin-8 secretion  
Pathways : KEGGHedgehog signaling pathwayWnt signaling pathway
Other databases
Probes
Probes : ImagenesWNT5A Related clones (RZPD - Berlin)
Litterature
PubMed138 Pubmed reference(s) in Entrez
PubGeneWNT5A
iHOPWNT5A

Bibliography

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Contributor(s)

Written06-2008Masaru Katoh
Genetics and Cell Biology Section, National Cancer Center Research Institute, 5-1-1 Tsukiji, Chuo-ku, Tokyo 104-0045, Japan

Citation

This paper should be referenced as such :
Katoh M . WNT5A (wingless-type MMTV integration site family, member 5A). Atlas Genet Cytogenet Oncol Haematol. June 2008 .
URL : http://AtlasGeneticsOncology.org/Genes/WNT5AID42825ch3p14.html

This paper is referenced by INIST as such :
http://documents.irevues.inist.fr/bitstream/2042/44474/1/06-2008-WNT5AID42825ch3p14.pdf   [ Bibliographic record ]

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indexed on : Sat Apr 28 15:10:27 CEST 2012

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