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Aliases for WNT5B Gene

Aliases for WNT5B Gene

  • Wnt Family Member 5B 2 3 5
  • Wingless-Type MMTV Integration Site Family, Member 5B 2 3
  • WNT-5B Protein 3
  • Protein Wnt-5b 3

External Ids for WNT5B Gene

Previous GeneCards Identifiers for WNT5B Gene

  • GC12P001595
  • GC12P001596
  • GC12P001726
  • GC12P001639

Summaries for WNT5B Gene

Entrez Gene Summary for WNT5B 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 94% and 80% amino acid identity to the mouse Wnt5b protein and the human WNT5A protein, respectively. Alternative splicing of this gene generates 2 transcript variants. [provided by RefSeq, Jul 2008]

GeneCards Summary for WNT5B Gene

WNT5B (Wnt Family Member 5B) is a Protein Coding gene. Among its related pathways are Adipogenesis and HTLV-I infection. Gene Ontology (GO) annotations related to this gene include signaling receptor binding and frizzled binding. An important paralog of this gene is WNT5A.

UniProtKB/Swiss-Prot for WNT5B Gene

  • Ligand for members of the frizzled family of seven transmembrane receptors. Probable developmental protein. May be a signaling molecule which affects the development of discrete regions of tissues. Is likely to signal over only few cell diameters (By similarity).

Gene Wiki entry for WNT5B Gene

Additional gene information for WNT5B Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for WNT5B Gene

Genomics for WNT5B Gene

GeneHancer (GH) Regulatory Elements for WNT5B Gene

Promoters and enhancers for WNT5B Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH12J001529 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE 657.3 +2.0 2044 5.8 HDAC1 PKNOX1 STAT5A BATF ZNF335 GLIS2 GATA2 ZFP91 ATF7 BCLAF1 WNT5B NINJ2 GC12P001546
GH12J001628 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE dbSUPER 650.2 +99.8 99840 2.3 CTCF SUZ12 SIN3A ZFHX2 GATA3 POLR2A RCOR1 CHD2 EZH2 EGR2 WNT5B ENSG00000256706 CACNA2D4 ENSG00000250132 ERC1 RAD52 LINC00940 MIR3649 FBXL14
GH12J001527 Enhancer 0.6 Ensembl ENCODE 650.7 -2.0 -1971 1.1 EBF1 FOS REST WNT5B LINC00942
GH12J001589 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 11.8 +63.5 63518 7.3 HDGF PKNOX1 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 IRF4 YY1 PIR54397 GC12M001593 FBXL14 CACNA1C-IT3 WNT5B RAD52 DCP1B
GH12J001604 Enhancer 1.5 Ensembl ENCODE dbSUPER 10.9 +75.9 75899 2.8 MLX FEZF1 IRF4 YY1 ZNF416 ZNF143 ZNF548 ZNF263 ZNF610 NBN RAD52 DCP1B CACNA1C-IT3 WNT5B LINC00942 ENSG00000250132 ERC1 FBXL14 MIR3649
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around WNT5B on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the WNT5B gene promoter:
  • MyoD

Genomic Locations for WNT5B Gene

Genomic Locations for WNT5B Gene
chr12:1,529,891-1,647,243
(GRCh38/hg38)
Size:
117,353 bases
Orientation:
Plus strand
chr12:1,639,057-1,756,409
(GRCh37/hg19)
Size:
117,353 bases
Orientation:
Plus strand

Genomic View for WNT5B Gene

Genes around WNT5B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
WNT5B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for WNT5B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for WNT5B Gene

Proteins for WNT5B Gene

  • Protein details for WNT5B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H1J7-WNT5B_HUMAN
    Recommended name:
    Protein Wnt-5b
    Protein Accession:
    Q9H1J7
    Secondary Accessions:
    • A8K315
    • D3DUP9
    • Q96S49
    • Q9BV04

    Protein attributes for WNT5B Gene

    Size:
    359 amino acids
    Molecular mass:
    40323 Da
    Quaternary structure:
    • Interacts with PORCN.

neXtProt entry for WNT5B Gene

Post-translational modifications for WNT5B Gene

  • Palmitoleoylation is required for efficient binding to frizzled receptors. Depalmitoleoylation leads to Wnt signaling pathway inhibition.
  • Glycosylation at isoforms=305, posLast=291291, isoforms=99, and posLast=9393
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for WNT5B Gene

Domains & Families for WNT5B Gene

Gene Families for WNT5B Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted secreted proteins

Protein Domains for WNT5B Gene

Suggested Antigen Peptide Sequences for WNT5B Gene

Graphical View of Domain Structure for InterPro Entry

Q9H1J7

UniProtKB/Swiss-Prot:

WNT5B_HUMAN :
  • Belongs to the Wnt family.
Family:
  • Belongs to the Wnt family.
genes like me logo Genes that share domains with WNT5B: view

Function for WNT5B Gene

Molecular function for WNT5B Gene

UniProtKB/Swiss-Prot Function:
Ligand for members of the frizzled family of seven transmembrane receptors. Probable developmental protein. May be a signaling molecule which affects the development of discrete regions of tissues. Is likely to signal over only few cell diameters (By similarity).

LifeMap Function Summary for WNT5B Gene

Phenotypes From GWAS Catalog for WNT5B Gene

Gene Ontology (GO) - Molecular Function for WNT5B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005102 signaling receptor binding IPI,IEA 19486338
GO:0005109 frizzled binding IBA --
genes like me logo Genes that share ontologies with WNT5B: view
genes like me logo Genes that share phenotypes with WNT5B: view

Animal Models for WNT5B Gene

MGI Knock Outs for WNT5B:
  • Wnt5b Wnt5b<tm1Tmj>
  • Wnt5b Wnt5b<tm1.1(KOMP)Vlcg>

Animal Model Products

  • Taconic Biosciences Mouse Models for WNT5B

miRNA for WNT5B Gene

miRTarBase miRNAs that target WNT5B

Clone Products

  • Addgene plasmids for WNT5B

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for WNT5B Gene

Localization for WNT5B Gene

Subcellular locations from UniProtKB/Swiss-Prot for WNT5B Gene

Secreted, extracellular space, extracellular matrix.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for WNT5B gene
Compartment Confidence
extracellular 5
plasma membrane 4
endoplasmic reticulum 4
golgi apparatus 4
nucleus 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for WNT5B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA,TAS --
GO:0005615 extracellular space IBA,NAS 15135146
GO:0005788 endoplasmic reticulum lumen TAS --
GO:0005796 Golgi lumen TAS --
GO:0005886 plasma membrane TAS --
genes like me logo Genes that share ontologies with WNT5B: view

Pathways & Interactions for WNT5B Gene

genes like me logo Genes that share pathways with WNT5B: view

SIGNOR curated interactions for WNT5B Gene

Activates:

Gene Ontology (GO) - Biological Process for WNT5B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002062 chondrocyte differentiation IEP 15135146
GO:0007275 multicellular organism development IEA --
GO:0016055 Wnt signaling pathway IEA,TAS --
GO:0030182 neuron differentiation ISS --
GO:0030335 positive regulation of cell migration IDA 19486338
genes like me logo Genes that share ontologies with WNT5B: view

Drugs & Compounds for WNT5B Gene

(2) Drugs for WNT5B Gene - From: PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Fluorouracil Approved Pharma RNA processing inhibitor and thymidylate synthase inhibitor 1970
Platinum compounds Pharma 0
genes like me logo Genes that share compounds with WNT5B: view

Transcripts for WNT5B Gene

Unigene Clusters for WNT5B Gene

Wingless-type MMTV integration site family, member 5B:
Representative Sequences:

Clone Products

  • Addgene plasmids for WNT5B

Alternative Splicing Database (ASD) splice patterns (SP) for WNT5B Gene

No ASD Table

Relevant External Links for WNT5B Gene

GeneLoc Exon Structure for
WNT5B
ECgene alternative splicing isoforms for
WNT5B

Expression for WNT5B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for WNT5B Gene

mRNA differential expression in normal tissues according to GTEx for WNT5B Gene

This gene is overexpressed in Esophagus - Muscularis (x4.9).

Protein differential expression in normal tissues from HIPED for WNT5B Gene

This gene is overexpressed in Bone marrow mesenchymal stem cell (68.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for WNT5B Gene



Protein tissue co-expression partners for WNT5B Gene

NURSA nuclear receptor signaling pathways regulating expression of WNT5B Gene:

WNT5B

SOURCE GeneReport for Unigene cluster for WNT5B Gene:

Hs.306051

Evidence on tissue expression from TISSUES for WNT5B Gene

  • Muscle(4.3)
  • Stomach(2.1)
genes like me logo Genes that share expression patterns with WNT5B: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for WNT5B Gene

Orthologs for WNT5B Gene

This gene was present in the common ancestor of animals.

Orthologs for WNT5B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia WNT5B 34 33
  • 99.07 (n)
OneToOne
dog
(Canis familiaris)
Mammalia WNT5B 34 33
  • 91.43 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia WNT5B 34
  • 89 (a)
OneToOne
cow
(Bos Taurus)
Mammalia WNT5B 34 33
  • 87.79 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Wnt5b 16 34 33
  • 87.74 (n)
rat
(Rattus norvegicus)
Mammalia Wnt5b 33
  • 87.19 (n)
oppossum
(Monodelphis domestica)
Mammalia WNT5B 34
  • 87 (a)
OneToOne
chicken
(Gallus gallus)
Aves WNT5B 34 33
  • 85.2 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia WNT5B 34
  • 81 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia wnt5b 33
  • 79.38 (n)
African clawed frog
(Xenopus laevis)
Amphibia wnt-2-prov 33
zebrafish
(Danio rerio)
Actinopterygii wnt5b 34 33
  • 76.77 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010290 33
  • 54.41 (n)
fruit fly
(Drosophila melanogaster)
Insecta Wnt5 35
  • 51 (a)
Wnt2 35
  • 43 (a)
Wnt6 35
  • 43 (a)
worm
(Caenorhabditis elegans)
Secernentea cwn-2 34 35 33
  • 49.7 (n)
OneToMany
egl-20 35
  • 35 (a)
mom-2 35
  • 31 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.4951 34
  • 50 (a)
OneToMany
Species where no ortholog for WNT5B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for WNT5B Gene

ENSEMBL:
Gene Tree for WNT5B (if available)
TreeFam:
Gene Tree for WNT5B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for WNT5B: view image

Paralogs for WNT5B Gene

Paralogs for WNT5B Gene

(17) SIMAP similar genes for WNT5B Gene using alignment to 5 proteins:

  • WNT5B_HUMAN
  • F5GYM2_HUMAN
  • F5H034_HUMAN
  • F5H364_HUMAN
  • F5H7Q6_HUMAN
genes like me logo Genes that share paralogs with WNT5B: view

Variants for WNT5B Gene

Sequence variations from dbSNP and Humsavar for WNT5B Gene

SNP ID Clin Chr 12 pos Variation AA Info Type
rs1000028294 -- 1,618,684(+) A/G genic_upstream_transcript_variant, intron_variant
rs1000212873 -- 1,638,512(+) G/T intron_variant
rs1000247121 -- 1,638,935(+) T/C intron_variant
rs1000371117 -- 1,621,624(+) A/C genic_upstream_transcript_variant, intron_variant
rs1000669682 -- 1,628,587(+) C/T genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for WNT5B Gene

Variant ID Type Subtype PubMed ID
dgv257n67 CNV gain 20364138
esv2540814 CNV insertion 19546169
esv3628288 CNV loss 21293372
nsv513345 CNV insertion 21212237
nsv523570 CNV loss 19592680
nsv527641 CNV loss 19592680
nsv556994 CNV loss 21841781
nsv556995 CNV loss 21841781
nsv832304 CNV gain 17160897

Variation tolerance for WNT5B Gene

Residual Variation Intolerance Score: 23.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.84; 17.52% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for WNT5B Gene

Human Gene Mutation Database (HGMD)
WNT5B
SNPedia medical, phenotypic, and genealogical associations of SNPs for
WNT5B

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for WNT5B Gene

Disorders for WNT5B Gene

Additional Disease Information for WNT5B

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for WNT5B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for WNT5B Gene

Publications for WNT5B Gene

  1. Molecular cloning and characterization of human WNT5B on chromosome 12p13.3 region. (PMID: 11445850) Saitoh T … Katoh M (International journal of oncology 2001) 2 3 4 58
  2. High-density association study of 383 candidate genes for volumetric BMD at the femoral neck and lumbar spine among older men. (PMID: 19453261) Yerges LM … MrOS Research Group (Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research 2009) 3 44 58
  3. Orphan receptor tyrosine kinase ROR2 as a potential therapeutic target for osteosarcoma. (PMID: 19486338) Morioka K … Matsuda K (Cancer science 2009) 3 22 58
  4. The effect of WNT5B IVS3C>G on the susceptibility to type 2 diabetes in UK Caucasian subjects. (PMID: 18555673) Salpea KD … Humphries SE (Nutrition, metabolism, and cardiovascular diseases : NMCD 2009) 3 44 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for WNT5B Gene

Sources for WNT5B Gene

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