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WNT16 Wnt family member 16 [ Homo sapiens (human) ]

Gene ID: 51384, updated on 24-Nov-2020

Summary

Official Symbol
WNT16provided by HGNC
Official Full Name
Wnt family member 16provided by HGNC
Primary source
HGNC:HGNC:16267
See related
Ensembl:ENSG00000002745 MIM:606267
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
Summary
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 contains two transcript variants diverging at the 5' termini. These two variants are proposed to be the products of separate promoters and not to be splice variants from a single promoter. They are differentially expressed in normal tissues, one of which (variant 2) is expressed at significant levels only in the pancreas, whereas another one (variant 1) is expressed more ubiquitously with highest levels in adult kidney, placenta, brain, heart, and spleen. [provided by RefSeq, Jul 2008]
Expression
Biased expression in skin (RPKM 9.9) and lymph node (RPKM 0.5) See more
Orthologs

Genomic context

See WNT16 in Genome Data Viewer
Location:
7q31.31
Exon count:
5
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (121325367..121341104)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (120965421..120981158)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene cadherin like and PC-esterase domain containing 1 Neighboring gene RNA, 5S ribosomal pseudogene 241 Neighboring gene RNA, U6 small nuclear 517, pseudogene Neighboring gene FAM3 metabolism regulating signaling molecule C Neighboring gene CYCS pseudogene 19

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Genetic determinants of heel bone properties: genome-wide association meta-analysis and replication in the GEFOS/GENOMOS consortium.
GeneReviews: Not available
Genome-wide meta-analysis identifies 56 bone mineral density loci and reveals 14 loci associated with risk of fracture.
GeneReviews: Not available
Meta-analysis of genome-wide scans for total body BMD in children and adults reveals allelic heterogeneity and age-specific effects at the WNT16 locus.
GeneReviews: Not available
Multistage genome-wide association meta-analyses identified two new loci for bone mineral density.
GeneReviews: Not available
Phenotypic dissection of bone mineral density reveals skeletal site specificity and facilitates the identification of novel loci in the genetic regulation of bone mass attainment.
GeneReviews: Not available
WNT16 influences bone mineral density, cortical bone thickness, bone strength, and osteoporotic fracture risk.
GeneReviews: Not available

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
cytokine activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
frizzled binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
Wnt signaling pathway TAS
Traceable Author Statement
more info
 
bone remodeling IEA
Inferred from Electronic Annotation
more info
 
canonical Wnt signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cardiac epithelial to mesenchymal transition IEA
Inferred from Electronic Annotation
more info
 
cell fate commitment IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
keratinocyte differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
keratinocyte proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of cell death IMP
Inferred from Mutant Phenotype
more info
PubMed 
neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
optic cup formation involved in camera-type eye development ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
oxidative stress-induced premature senescence IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of JNK cascade IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of phosphatidylinositol 3-kinase signaling IMP
Inferred from Mutant Phenotype
more info
PubMed 
replicative senescence IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
extracellular region TAS
Traceable Author Statement
more info
 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular space IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
protein Wnt-16
Names
wingless-type MMTV integration site family member 16b
wingless-type MMTV integration site family, member 16

NCBI Reference Sequences (RefSeq)

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

  1. NG_029242.1 RefSeqGene

    Range
    5001..20738
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_016087.2NP_057171.2  protein Wnt-16 isoform 2

    See identical proteins and their annotated locations for NP_057171.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs from variant 1 at the 5' terminus including 5' UTR and the coding region for the N-terminus. It encodes a shorter isoform than variant 1.
    Source sequence(s)
    AF152584, AF169963
    Consensus CDS
    CCDS5780.1
    UniProtKB/Swiss-Prot
    Q9UBV4
    UniProtKB/TrEMBL
    E9PH60
    Related
    ENSP00000355065.2, ENST00000361301.6
    Conserved Domains (1) summary
    pfam00110
    Location:42355
    wnt; wnt family
  2. NM_057168.2NP_476509.1  protein Wnt-16 isoform 1 precursor

    See identical proteins and their annotated locations for NP_476509.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) differs from variant 2 at the 5' terminus including 5' UTR and the coding region for the N-terminus. Isoform 1, encoded by this variant, is 90% identical to the mouse Wnt16 protein at the amino acid level.
    Source sequence(s)
    AC006364
    Consensus CDS
    CCDS5781.1
    UniProtKB/Swiss-Prot
    Q9UBV4
    Related
    ENSP00000222462.2, ENST00000222462.3
    Conserved Domains (1) summary
    pfam00110
    Location:52365
    wnt; wnt family

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20201120

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

    Range
    121325367..121341104
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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