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Aliases for WNT9B Gene

Aliases for WNT9B Gene

  • Wnt Family Member 9B 2 3 5
  • Wingless-Type MMTV Integration Site Family, Member 15 2 3
  • Protein Wnt-14b 3 4
  • WNT14B 3 4
  • WNT15 3 4
  • Wingless-Type MMTV Integration Site Family, Member 9B 2
  • Wingless-Type MMTV Integration Site Family Member 9B 3
  • Protein Wnt-9b 3
  • Protein Wnt-15 4

External Ids for WNT9B Gene

Previous HGNC Symbols for WNT9B Gene

  • WNT15

Previous GeneCards Identifiers for WNT9B Gene

  • GC17P047327
  • GC17P045271
  • GC17P045403
  • GC17P042283
  • GC17P044910
  • GC17P040307

Summaries for WNT9B Gene

Entrez Gene Summary for WNT9B Gene

  • The WNT gene family consists of structurally related genes that 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. Study of its expression in the teratocarcinoma cell line NT2 suggests that it may be implicated in the early process of neuronal differentiation of NT2 cells induced by retinoic acid. This gene is clustered with WNT3, another family member, in the chromosome 17q21 region. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Feb 2016]

GeneCards Summary for WNT9B Gene

WNT9B (Wnt Family Member 9B) is a Protein Coding gene. Diseases associated with WNT9B include Mayer-Rokitansky-Kuster-Hauser Syndrome and Exstrophy Of Bladder. Among its related pathways are Presynaptic function of Kainate receptors 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 WNT9A.

UniProtKB/Swiss-Prot for WNT9B Gene

  • Ligand for members of the frizzled family of seven transmembrane receptors (PubMed:20093360). Functions in the canonical Wnt/beta-catenin signaling pathway. Plays a role in cranofacial development and is required for normal fusion of the palate during embryonic development (By similarity).

Additional gene information for WNT9B Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for WNT9B Gene

Genomics for WNT9B Gene

GeneHancer (GH) Regulatory Elements for WNT9B Gene

Promoters and enhancers for WNT9B Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH17J046850 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE 650.4 +18.5 18471 1.7 ZSCAN4 KLF17 SIN3A ZNF48 ZEB1 ZNF335 ZNF121 GLIS2 ZNF366 SP3 WNT9B GOSR2 LOC101927060 LRRC37A17P MAPK8IP1P1 SCRN2 ARL17B LINC01974
GH17J046833 Promoter/Enhancer 1.3 EPDnew ENCODE 650.7 -0.1 -59 0.2 ELF3 PKNOX1 ATF1 FOXA2 ZFP64 ARID4B KLF17 ZNF2 ATF7 CREM LOC101929777 WNT3 WNT9B RPS7P11
GH17J046834 Enhancer 0.2 ENCODE 650.7 +0.5 489 0.2 LOC101929777 WNT3 WNT9B GOSR2 LINC01974
GH17J046922 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 10.8 +93.8 93791 9.6 CLOCK MLX ZFP64 DMAP1 YY1 SLC30A9 ZNF213 E2F8 ZNF143 SP3 GOSR2 MRPL45P2 LOC101927060 ARL17B ARL17A EFCAB13 ENSG00000262372 CDC27 RPS7P11 MYL4
GH17J046769 Enhancer 1.5 FANTOM5 Ensembl ENCODE 12.3 -61.5 -61499 4.6 FOXA2 MLX ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9 KANSL1-AS1 ENSG00000262539 ARL17A WNT3 ENSG00000263766 ENSG00000253347 WNT9B KPNB1 GOSR2 MRPL45P2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around WNT9B on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the WNT9B gene promoter:
  • p53
  • GR-alpha
  • GR
  • POU2F1a
  • POU2F1
  • NF-kappaB1
  • TBP
  • NF-kappaB
  • Max1

Genomic Locations for WNT9B Gene

Genomic Locations for WNT9B Gene
53,575 bases
Plus strand
53,530 bases
Plus strand

Genomic View for WNT9B Gene

Genes around WNT9B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
WNT9B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for WNT9B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for WNT9B Gene

Proteins for WNT9B Gene

  • Protein details for WNT9B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Wnt-9b
    Protein Accession:
    Secondary Accessions:
    • Q6UXT4
    • Q96Q09

    Protein attributes for WNT9B Gene

    357 amino acids
    Molecular mass:
    39001 Da
    Quaternary structure:
    • Forms a soluble 1:1 complex with AFM; this prevents oligomerization and is required for prolonged biological activity (PubMed:26902720). The complex with AFM may represent the physiological form in body fluids (PubMed:26902720). Component of the Wnt-Fzd-LRP5-LRP6 signaling complex that contains a WNT protein, a FZD protein and LRP5 or LRP6. Interacts directly in the complex with LRP6 (PubMed:20093360).

neXtProt entry for WNT9B Gene

Post-translational modifications for WNT9B Gene

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

Other Protein References for WNT9B Gene

No data available for DME Specific Peptides for WNT9B Gene

Domains & Families for WNT9B Gene

Gene Families for WNT9B Gene

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

Protein Domains for WNT9B Gene

Suggested Antigen Peptide Sequences for WNT9B Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the Wnt family.
  • Belongs to the Wnt family.
genes like me logo Genes that share domains with WNT9B: view

Function for WNT9B Gene

Molecular function for WNT9B Gene

UniProtKB/Swiss-Prot Function:
Ligand for members of the frizzled family of seven transmembrane receptors (PubMed:20093360). Functions in the canonical Wnt/beta-catenin signaling pathway. Plays a role in cranofacial development and is required for normal fusion of the palate during embryonic development (By similarity).

LifeMap Function Summary for WNT9B Gene

Phenotypes From GWAS Catalog for WNT9B Gene

Gene Ontology (GO) - Molecular Function for WNT9B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005102 signaling receptor binding IEA --
GO:0005109 frizzled binding IBA --
GO:0039706 co-receptor binding IEA --
GO:0048018 receptor ligand activity IDA 28733458
genes like me logo Genes that share ontologies with WNT9B: view
genes like me logo Genes that share phenotypes with WNT9B: view

Animal Models for WNT9B Gene

MGI Knock Outs for WNT9B:

Animal Model Products

  • Taconic Biosciences Mouse Models for WNT9B

Clone Products

  • Addgene plasmids for WNT9B

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for WNT9B Gene

Localization for WNT9B Gene

Subcellular locations from UniProtKB/Swiss-Prot for WNT9B Gene

Secreted, extracellular space, extracellular matrix. Secreted.

Subcellular locations from

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 WNT9B gene
Compartment Confidence
extracellular 5
golgi apparatus 2

Gene Ontology (GO) - Cellular Components for WNT9B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA,TAS --
GO:0005615 extracellular space IBA --
genes like me logo Genes that share ontologies with WNT9B: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for WNT9B Gene

Pathways & Interactions for WNT9B Gene

genes like me logo Genes that share pathways with WNT9B: view

SIGNOR curated interactions for WNT9B Gene


Gene Ontology (GO) - Biological Process for WNT9B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001658 branching involved in ureteric bud morphogenesis IEA --
GO:0001701 in utero embryonic development IEA --
GO:0001822 kidney development IEA --
GO:0001932 regulation of protein phosphorylation IEA --
GO:0003339 regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis IEA --
genes like me logo Genes that share ontologies with WNT9B: view

Drugs & Compounds for WNT9B Gene

(9) Drugs for WNT9B Gene - From:

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
FH535 Pharma Wnt/B-catenin inhibitor, Inhibitor of Wnt/beta-catenin signaling 0
ICG 001 Pharma Wnt/β-catenin pathway inhibitor 0
IWP 2 Pharma Wnt production inhibitor,PORCN inhibitor, PORCN inhibitor; inhibits Wnt processing and secretion 0
IWR-1-endo Pharma Potent Wnt signaling inhibitor 0
Kartogenin Pharma 0

(1) Additional Compounds for WNT9B Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with WNT9B: view

Transcripts for WNT9B Gene

mRNA/cDNA for WNT9B Gene

(3) REFSEQ mRNAs :
(5) Additional mRNA sequences :
(16) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for WNT9B Gene

Wingless-type MMTV integration site family, member 9B:
Representative Sequences:

Clone Products

  • Addgene plasmids for WNT9B

Alternative Splicing Database (ASD) splice patterns (SP) for WNT9B Gene

No ASD Table

Relevant External Links for WNT9B Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for WNT9B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for WNT9B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for WNT9B Gene

This gene is overexpressed in Kidney - Cortex (x9.4).

NURSA nuclear receptor signaling pathways regulating expression of WNT9B Gene:


SOURCE GeneReport for Unigene cluster for WNT9B Gene:


mRNA Expression by UniProt/SwissProt for WNT9B Gene:

Tissue specificity: Moderately expressed in fetal kidney and adult kidney. Also found in brain.

Evidence on tissue expression from TISSUES for WNT9B Gene

  • Kidney(2.8)
genes like me logo Genes that share expression patterns with WNT9B: view

No data available for Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for WNT9B Gene

Orthologs for WNT9B Gene

This gene was present in the common ancestor of animals.

Orthologs for WNT9B Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia WNT9B 34 33
  • 99.44 (n)
(Canis familiaris)
Mammalia WNT9B 34 33
  • 91.21 (n)
(Bos Taurus)
Mammalia WNT9B 34 33
  • 90.49 (n)
(Rattus norvegicus)
Mammalia Wnt9b 33
  • 87.03 (n)
(Mus musculus)
Mammalia Wnt9b 16 34 33
  • 86.53 (n)
(Monodelphis domestica)
Mammalia WNT9B 34
  • 71 (a)
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 23 (a)
(Gallus gallus)
Aves WNT9B 34 33
  • 75.02 (n)
(Anolis carolinensis)
Reptilia WNT9B 34
  • 76 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia wnt9b 33
  • 66.97 (n)
(Danio rerio)
Actinopterygii wnt9b 34 33
  • 68.98 (n)
fruit fly
(Drosophila melanogaster)
Insecta Wnt5 34
  • 12 (a)
(Caenorhabditis elegans)
Secernentea egl-20 34
  • 27 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 41 (a)
Species where no ortholog for WNT9B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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 WNT9B Gene

Gene Tree for WNT9B (if available)
Gene Tree for WNT9B (if available)
Evolutionary constrained regions (ECRs) for WNT9B: view image

Paralogs for WNT9B Gene

Paralogs for WNT9B Gene

(16) SIMAP similar genes for WNT9B Gene using alignment to 4 proteins:

  • I3L0L8_HUMAN
  • Q6ZS96_HUMAN Pseudogenes for WNT9B Gene

genes like me logo Genes that share paralogs with WNT9B: view

Variants for WNT9B Gene

Sequence variations from dbSNP and Humsavar for WNT9B Gene

SNP ID Clin Chr 17 pos Variation AA Info Type
rs1000012117 -- 46,843,450(+) CTCT/CT genic_upstream_transcript_variant, intron_variant
rs1000017699 -- 46,837,221(+) G/A genic_upstream_transcript_variant, intron_variant
rs1000051927 -- 46,863,818(+) C/A intron_variant
rs1000067832 -- 46,851,356(+) G/C genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000095636 -- 46,876,937(+) G/C 3_prime_UTR_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for WNT9B Gene

Variant ID Type Subtype PubMed ID
esv2656635 CNV deletion 23128226
esv2758692 CNV gain+loss 17122850
nsv1146669 OTHER inversion 26484159
nsv962330 CNV duplication 23825009

Variation tolerance for WNT9B Gene

Residual Variation Intolerance Score: 74.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.08; 50.75% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for WNT9B Gene

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

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for WNT9B Gene

Disorders for WNT9B Gene

MalaCards: The human disease database

(3) MalaCards diseases for WNT9B Gene - From: HGMD, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
mayer-rokitansky-kuster-hauser syndrome
  • mrkh syndrome
exstrophy of bladder
  • bladder exstrophy
orofacial cleft
- elite association - COSMIC cancer census association via MalaCards
Search WNT9B in MalaCards View complete list of genes associated with diseases

Additional Disease Information for WNT9B

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with WNT9B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for WNT9B Gene

Publications for WNT9B Gene

  1. Expression of WNT14 and WNT14B mRNAs in human cancer, up-regulation of WNT14 by IFNgamma and up-regulation of WNT14B by beta-estradiol. (PMID: 11713592) Kirikoshi H … Katoh M (International journal of oncology 2001) 2 3 22 58
  2. Molecular cloning and characterization of WNT14B, a novel member of the WNT gene family. (PMID: 11604992) Kirikoshi H … Katoh M (International journal of oncology 2001) 3 4 22 58
  3. Isolation of two novel WNT genes, WNT14 and WNT15, one of which (WNT15) is closely linked to WNT3 on human chromosome 17q21. (PMID: 9441749) Bergstein I … Brown AM (Genomics 1997) 2 3 4 58
  4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  5. Maternal genes and facial clefts in offspring: a comprehensive search for genetic associations in two population-based cleft studies from Scandinavia. (PMID: 20634891) Jugessur A … Murray JC (PloS one 2010) 3 44 58

Products for WNT9B Gene

Sources for WNT9B Gene

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