WNT9B Wnt family member 9B [Homo sapiens (human)] - Gene

Summary

Official Symbol: WNT9Bprovided by HGNC
Official Full Name: Wnt family member 9Bprovided by HGNC
Primary source: HGNC:HGNC:12779
See related: Ensembl:ENSG00000158955 MIM:602864; AllianceGenome:HGNC:12779
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: WNT15; WNT14B
Summary: 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]
Expression: Biased expression in kidney (RPKM 1.6), skin (RPKM 0.7) and 9 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 17q21.32

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	17	NC_000017.11 (46833189..46886738)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	17	NC_060941.1 (47694652..47748202)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	17	NC_000017.10 (44928949..44964104)

Chromosome 17 - NC_000017.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Homozygous WNT9B variants in two families with bilateral renal agenesis/hypoplasia/dysplasia.
Title: Homozygous WNT9B variants in two families with bilateral renal agenesis/hypoplasia/dysplasia.
Wnt Family Member 9b (Wnt9b) Is a New Sensitive and Specific Marker for Breast Cancer.
Title: Wnt Family Member 9b (Wnt9b) Is a New Sensitive and Specific Marker for Breast Cancer.
Genetic Variation in WNT9B Increases Relapse Hazard in Multiple Sclerosis.
Title: Genetic Variation in WNT9B Increases Relapse Hazard in Multiple Sclerosis.
Canonical Wnts Mediate CD8(+) T Cell Noncytolytic Anti-HIV-1 Activity and Correlate with HIV-1 Clinical Status.
Title: Canonical Wnts Mediate CD8(+) T Cell Noncytolytic Anti-HIV-1 Activity and Correlate with HIV-1 Clinical Status.
Circulating Exosomal miR-20b-5p Inhibition Restores Wnt9b Signaling and Reverses Diabetes-Associated Impaired Wound Healing.
Title: Circulating Exosomal miR-20b-5p Inhibition Restores Wnt9b Signaling and Reverses Diabetes-Associated Impaired Wound Healing.
Our study further supports the involvement of WNT9B as a cleft susceptibility gene in Brazilian families experiencing NSCL+/-P. Although additional studies are still necessary to unveil the exact mechanism by which WNT genes would contribute to NSCL+/-P, allelic polymorphisms in these genes and their interactions may partly explain the variance of individual susceptibility to NSCL+/-P.
Title: Association of WNT9B Gene Polymorphisms With Nonsyndromic Cleft Lip With or Without Cleft Palate in Brazilian Nuclear Families.
Multi-layered mutation in hedgehog-related genes in Gorlin syndrome may affect the phenotype
Title: Multi-layered mutation in hedgehog-related genes in Gorlin syndrome may affect the phenotype.
This association study successfully identified two susceptibility Single Nucleotide Polymorphisms, (WNT9B and PBX1) associated with Mayer-Rokitansky-Kuster-Hauser syndrome risk, both separately and interactively.
Title: Associations of Polymorphisms in WNT9B and PBX1 with Mayer-Rokitansky-Küster-Hauser Syndrome in Chinese Han.
Genome association study shows a highly conserved 32 kb intergenic region containing regulatory elements between WNT3 and WNT9B in patients with classic bladder exstrophy.
Title: Genome-wide association study and mouse expression data identify a highly conserved 32 kb intergenic region between WNT3 and WNT9b as possible susceptibility locus for isolated classic exstrophy of the bladder.
results indicate that mutations in the coding sequence of WNT9B are not responsible for Mullerian duct abnormalities in the Chinese population
Title: WNT9B in 542 Chinese women with Müllerian duct abnormalities: mutation analysis.

Submit: New GeneRIF Correction See all GeneRIFs (17)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genetically distinct subsets within ANCA-associated vasculitis. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

WNT9B_3891 (e-PCR)
- UniSTS:462620

L17705 (e-PCR)
- UniSTS:66091

D8S2278 (e-PCR)
- UniSTS:473906

D8S2279 (e-PCR)
- UniSTS:473907

D17S2024 (e-PCR)
- UniSTS:24893

RH80030 (e-PCR)
- UniSTS:87680

D17S1399E (e-PCR)
- UniSTS:150447

RH80031 (e-PCR)
- UniSTS:91103

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables co-receptor binding	IEA Inferred from Electronic Annotation more info
enables cytokine activity	IBA Inferred from Biological aspect of Ancestor more info
enables frizzled binding	IBA Inferred from Biological aspect of Ancestor more info
enables receptor ligand activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in Wnt signaling pathway, planar cell polarity pathway	IEA Inferred from Electronic Annotation more info
involved_in branching involved in ureteric bud morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in canonical Wnt signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in canonical Wnt signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in cell fate commitment	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to retinoic acid	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to starvation	IEA Inferred from Electronic Annotation more info
involved_in collecting duct development	IEA Inferred from Electronic Annotation more info
involved_in cornea development in camera-type eye	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in embryonic cranial skeleton morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in establishment of planar polarity involved in nephron morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in in utero embryonic development	IEA Inferred from Electronic Annotation more info
involved_in kidney rudiment formation	IEA Inferred from Electronic Annotation more info
involved_in male genitalia development	IEA Inferred from Electronic Annotation more info
involved_in mesenchymal stem cell maintenance involved in nephron morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in mesonephric duct formation	IEA Inferred from Electronic Annotation more info
involved_in metanephric tubule formation	IEA Inferred from Electronic Annotation more info
involved_in midbrain dopaminergic neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of stem cell population maintenance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in neuron differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in non-canonical Wnt signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of asymmetric cell division	IEA Inferred from Electronic Annotation more info
involved_in regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in regulation of protein phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in regulation of tube size	IEA Inferred from Electronic Annotation more info
involved_in response to retinoic acid	NAS Non-traceable Author Statement more info	PubMed
involved_in roof of mouth development	IEA Inferred from Electronic Annotation more info
involved_in uterus morphogenesis	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in extracellular region	TAS Traceable Author Statement more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: protein Wnt-9b

Names: protein Wnt-14b; wingless-type MMTV integration site family member 9B; wingless-type MMTV integration site family, member 15

NCBI Reference Sequences (RefSeq)

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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

NG_029164.4 RefSeqGene

Range

23396..52373

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001320458.2 → NP_001307387.1 protein Wnt-9b isoform 2 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (2) includes an alternate penultimate exon, compared to variant 1, resulting in a novel 3' coding region and 3' UTR. It encodes isoform 2 which has a distinct C-terminus, compared to isoform 1.

Source sequence(s)

AC015855

Consensus CDS

CCDS82147.1

UniProtKB/TrEMBL

E7EPC3, Q6ZS96

Related

ENSP00000377105.2, ENST00000393461.2

Conserved Domains (1) summary

pfam00110
Location:60 → 302

wnt; wnt family
NM_003396.3 → NP_003387.1 protein Wnt-9b isoform 1 precursor

See identical proteins and their annotated locations for NP_003387.1

Status: REVIEWED

Description

Transcript Variant: This variant (1) encodes the longer isoform (1).

Source sequence(s)

AC015855

Consensus CDS

CCDS11506.1

UniProtKB/Swiss-Prot

O14905, Q6UXT4, Q96Q09

UniProtKB/TrEMBL

Q6ZS96

Related

ENSP00000290015.2, ENST00000290015.7

Conserved Domains (1) summary

pfam00110
Location:60 → 356

wnt; wnt family