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    WNT2 Wnt family member 2 [ Homo sapiens (human) ]

    Gene ID: 7472, updated on 5-Mar-2024

    Summary

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    Official Symbol
    WNT2provided by HGNC
    Official Full Name
    Wnt family member 2provided by HGNC
    Primary source
    HGNC:HGNC:12780
    See related
    Ensembl:ENSG00000105989 MIM:147870; AllianceGenome:HGNC:12780
    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
    IRP; INT1L1
    Summary
    This gene is a member of the WNT gene family. 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. Alternatively spliced transcript variants have been identified for this gene. [provided by RefSeq, Jul 2008]
    Expression
    Biased expression in placenta (RPKM 44.0), endometrium (RPKM 14.0) and 3 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See WNT2 in Genome Data Viewer
    Location:
    7q31.2
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (117275451..117323058, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (118590786..118638396, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (116915505..116963112, complement)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene heterogeneous nuclear ribonucleoprotein A1 like 2 pseudogene Neighboring gene MT-ND2 pseudogene 37 Neighboring gene MT-ND4 pseudogene 6 Neighboring gene MT-CYB pseudogene 6 Neighboring gene greater CFTR locus negative regulatory elements CR12 and CR13 Neighboring gene uncharacterized LOC124900596 Neighboring gene uncharacterized LOC105375467 Neighboring gene greater CFTR locus negative regulatory element CR15 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:116962406-116962980 Neighboring gene greater CFTR locus negative regulatory element CR17 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26546 Neighboring gene greater CFTR locus negative regulatory element CR18 Neighboring gene ankyrin repeat, SAM and basic leucine zipper domain containing 1 Neighboring gene DNase I hypersensitive site -80 kb upstream of CFTR Neighboring gene CFTR -44 kb upstream enhancer Neighboring gene ANKRD49 pseudogene 4

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. A translational exploration of the effects of WNT2 variants on altered cortical structures in autism spectrum disorder. Chien YL, et al. J Psychiatry Neurosci, 2021 Nov-Dec. PMID 34862305, Free PMC Article
    2. Distinguishing colorectal adenoma from hyperplastic polyp by WNT2 expression. Wang B, et al. J Clin Lab Anal, 2021 Oct. PMID 34477243, Free PMC Article
    3. WNT2 activation through proximal germline deletion predisposes to small intestinal neuroendocrine tumors and intestinal adenocarcinomas. Aavikko M, et al. Hum Mol Genet, 2021 Nov 30. PMID 34274970, Free PMC Article
    4. Involvement of WNT2 in trophoblast cell behavior in preeclampsia development. Liu Y, et al. Cell Cycle, 2020 Sep. PMID 32779546, Free PMC Article
    5. Promoter Methylation Status of WNT2 in Placenta from Patients with Preeclampsia. Liu Y, et al. Med Sci Monit, 2017 Nov 7. PMID 29109390, Free PMC Article

    See all (97) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. A translational exploration of the effects of WNT2 variants on altered cortical structures in autism spectrum disorder.
      Title: A translational exploration of the effects of WNT2 variants on altered cortical structures in autism spectrum disorder.
    2. WNT2 activation through proximal germline deletion predisposes to small intestinal neuroendocrine tumors and intestinal adenocarcinomas.
      Title: WNT2 activation through proximal germline deletion predisposes to small intestinal neuroendocrine tumors and intestinal adenocarcinomas.
    3. Overexpression of IL-8 and Wnt2 is associated with prognosis of gastric cancer.
      Title: Overexpression of IL-8 and Wnt2 is associated with prognosis of gastric cancer.
    4. Distinguishing colorectal adenoma from hyperplastic polyp by WNT2 expression.
      Title: Distinguishing colorectal adenoma from hyperplastic polyp by WNT2 expression.
    5. LncRNA-HAGLR motivates triple negative breast cancer progression by regulation of WNT2 via sponging miR-335-3p.
      Title: LncRNA-HAGLR motivates triple negative breast cancer progression by regulation of WNT2 via sponging miR-335-3p.
    6. Prognostic Significance of Wnt1, Wnt2, E-Cadherin, and beta-catenin Expression in Operable Non-small Cell Lung Cancer.
      Title: Prognostic Significance of Wnt1, Wnt2, E-Cadherin, and β-catenin Expression in Operable Non-small Cell Lung Cancer.
    7. Involvement of WNT2 in trophoblast cell behavior in preeclampsia development.
      Title: Involvement of WNT2 in trophoblast cell behavior in preeclampsia development.
    8. MiR-548b suppresses proliferative capacity of colorectal cancer by binding WNT2.
      Title: MiR-548b suppresses proliferative capacity of colorectal cancer by binding WNT2.
    9. The increased expression of DKK1 and decreased expression of WNT2 may be involved in the pathogenesis of early-onset preeclampsia
      Title: Altered DNA methylation and transcription of WNT2 and DKK1 genes in placentas associated with early-onset preeclampsia.
    10. Down-regulation of miR-30a-3p/5p promotes esophageal squamous cell carcinoma cell proliferation by activating the Wnt signaling pathway through inhibition of Wnt2 and Fzd2.
      Title: Down-regulation of miR-30a-3p/5p promotes esophageal squamous cell carcinoma cell proliferation by activating the Wnt signaling pathway.
    Submit: New GeneRIF Correction See all GeneRIFs (62)

    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
    Genome-wide association study of prognosis in advanced non-small cell lung cancer patients receiving platinum-based chemotherapy.
    EBI GWAS Catalog
    Wnt signaling and Dupuytren's disease.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat HIV-1 Tat specifically associates with WNT2 promoter to upregulate WNT2 expression in T cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables cytokine activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables cytokine activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables frizzled binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables frizzled binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables receptor ligand activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables receptor ligand activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in atrial cardiac muscle tissue 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 canonical Wnt signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in canonical Wnt signaling pathway TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in cardiac epithelial to mesenchymal transition IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cardiac muscle cell proliferation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cell fate commitment IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cell proliferation in midbrain IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cell-cell signaling IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cellular response to retinoic acid ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in cellular response to transforming growth factor beta stimulus IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in epithelial cell proliferation involved in lung morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in iris morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    involved_in labyrinthine layer blood vessel development IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in lens development in camera-type eye ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    involved_in lung induction IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mammary gland epithelium development IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in mesenchymal cell proliferation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in midbrain dopaminergic neuron differentiation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in neurogenesis TAS
    Traceable Author Statement
    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 positive regulation of DNA-binding transcription factor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of cardiac muscle cell proliferation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of cell population proliferation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of epithelial cell proliferation involved in lung morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of fibroblast proliferation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of mesenchymal cell proliferation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of neurogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Wnt signalosome IC
    Inferred by Curator
    more info
    		 PubMed 
    located_in collagen-containing extracellular matrix IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in extracellular region IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in extracellular region NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    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-2
    Names
    Int-1-related protein
    epididymis secretory sperm binding protein
    int-1-like protein 1
    secreted growth factor
    wingless-type MMTV integration site family member 2

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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.

    mRNA and Protein(s)

    1. NM_003391.3 → NP_003382.1  protein Wnt-2 precursor

      See identical proteins and their annotated locations for NP_003382.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AC006326, BC078170
      Consensus CDS
      CCDS5771.1
      UniProtKB/Swiss-Prot
      A4D0V1, P09544, Q75N05, Q9UDP9
      UniProtKB/TrEMBL
      A0A384MDX3
      Related
      ENSP00000265441.3, ENST00000265441.8
      Conserved Domains (1) summary
      pfam00110
      Location:43 → 349
      wnt; wnt family

    RNA

    1. NR_024047.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 5' coding region, compared to variant 1, that significantly impacts the predicted protein, and apparently results in a non-protein coding transcript.
      Source sequence(s)
      AC006326, BC078170
      Related
      ENST00000647844.1

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      117275451..117323058 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      118590786..118638396 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P09544.1 GenPept UniProtKB/Swiss-Prot:P09544

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
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