Human Gene WNT16 (ENST00000222462.3_7) from GENCODE V47lift37
  Description: Wnt family member 16, transcript variant 1 (from RefSeq NM_057168.2)
Gencode Transcript: ENST00000222462.3_7
Gencode Gene: ENSG00000002745.13_10
Transcript (Including UTRs)
   Position: hg19 chr7:120,969,054-120,981,158 Size: 12,105 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr7:120,969,347-120,979,399 Size: 10,053 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:120,969,054-120,981,158)mRNA (may differ from genome)Protein (365 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: WNT16_HUMAN
DESCRIPTION: RecName: Full=Protein Wnt-16; Flags: Precursor;
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).
SUBCELLULAR LOCATION: Secreted, extracellular space, extracellular matrix.
TISSUE SPECIFICITY: Isoform Wnt-16b is expressed in peripheral lymphoid organs such as spleen, appendix, and lymph nodes, in kidney but not in bone marrow. Isoform Wnt-16a is expressed at significant levels only in the pancreas.
PTM: Palmitoylation at Ser-227 is required for efficient binding to frizzled receptors. It is also required for subsequent palmitoylation at Cys-81. Palmitoylation is necessary for proper trafficking to cell surface (By similarity).
SIMILARITY: Belongs to the Wnt family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: WNT16
Diseases sorted by gene-association score: nodular basal cell carcinoma (23), basal cell carcinoma (7), coffin-siris syndrome 1 (4)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 4.46 RPKM in Skin - Not Sun Exposed (Suprapubic)
Total median expression: 15.81 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -124.30293-0.424 Picture PostScript Text
3' UTR -363.801759-0.207 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR005817 - Wnt
IPR013304 - Wnt16
IPR018161 - Wnt_CS

Pfam Domains:
PF00110 - wnt family

ModBase Predicted Comparative 3D Structure on Q9UBV4
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005102 receptor binding
GO:0005109 frizzled binding

Biological Process:
GO:0003408 optic cup formation involved in camera-type eye development
GO:0007275 multicellular organism development
GO:0010628 positive regulation of gene expression
GO:0014068 positive regulation of phosphatidylinositol 3-kinase signaling
GO:0016055 Wnt signaling pathway
GO:0030182 neuron differentiation
GO:0030216 keratinocyte differentiation
GO:0043616 keratinocyte proliferation
GO:0045165 cell fate commitment
GO:0046330 positive regulation of JNK cascade
GO:0046849 bone remodeling
GO:0060317 cardiac epithelial to mesenchymal transition
GO:0060548 negative regulation of cell death
GO:0090399 replicative senescence
GO:0090403 oxidative stress-induced premature senescence

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AF152584 - Homo sapiens WNT16 protein (WNT16) mRNA, complete cds.
AF169963 - Homo sapiens WNT16 protein (WNT16) mRNA, complete cds.
BC104919 - Homo sapiens wingless-type MMTV integration site family, member 16, transcript variant 1, mRNA (cDNA clone MGC:132579 IMAGE:8143922), complete cds.
BC104945 - Homo sapiens wingless-type MMTV integration site family, member 16, mRNA (cDNA clone MGC:132605 IMAGE:8143948), complete cds.
JD208457 - Sequence 189481 from Patent EP1572962.
JD332111 - Sequence 313135 from Patent EP1572962.
JD341927 - Sequence 322951 from Patent EP1572962.
JD485278 - Sequence 466302 from Patent EP1572962.
JD477207 - Sequence 458231 from Patent EP1572962.
JD178250 - Sequence 159274 from Patent EP1572962.
AB590726 - Synthetic construct DNA, clone: pFN21AE1847, Homo sapiens WNT16 gene for wingless-type MMTV integration site family, member 16, without stop codon, in Flexi system.
KJ893901 - Synthetic construct Homo sapiens clone ccsbBroadEn_03295 WNT16 gene, encodes complete protein.
EU190890 - Homo sapiens wingless-type MMTV integration site family member 16b (WNT16) mRNA, partial cds, alternatively spliced.
JD431424 - Sequence 412448 from Patent EP1572962.
JD292284 - Sequence 273308 from Patent EP1572962.
JD534039 - Sequence 515063 from Patent EP1572962.
JD450376 - Sequence 431400 from Patent EP1572962.
JD362479 - Sequence 343503 from Patent EP1572962.
JD046280 - Sequence 27304 from Patent EP1572962.
JD345236 - Sequence 326260 from Patent EP1572962.
JD117359 - Sequence 98383 from Patent EP1572962.
JD202871 - Sequence 183895 from Patent EP1572962.
JD530759 - Sequence 511783 from Patent EP1572962.
JD507872 - Sequence 488896 from Patent EP1572962.
JD360791 - Sequence 341815 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9UBV4 (Reactome details) participates in the following event(s):

R-HSA-201708 Frizzled receptors bind Wnts
R-HSA-3238694 PORCN palmitoleoylates N-glycosyl WNTs
R-HSA-3247843 secretion of WNT ligands
R-HSA-3247840 WLS binds WNT ligands in the Golgi
R-HSA-373080 Class B/2 (Secretin family receptors)
R-HSA-3238698 WNT ligand biogenesis and trafficking
R-HSA-500792 GPCR ligand binding
R-HSA-195721 Signaling by WNT
R-HSA-372790 Signaling by GPCR
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000222462.1, ENST00000222462.2, NM_057168, Q2M3G1, Q9UBV4, Q9Y5C0, uc317dew.1, uc317dew.2, WNT16_HUMAN
UCSC ID: ENST00000222462.3_7
RefSeq Accession: NM_057168.2
Protein: Q9UBV4 (aka WNT16_HUMAN or WN16_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.