Human Gene WNT2B (ENST00000369684.5_4) from GENCODE V47lift37
  Description: Wnt family member 2B, transcript variant WNT-2B2 (from RefSeq NM_024494.3)
Gencode Transcript: ENST00000369684.5_4
Gencode Gene: ENSG00000134245.18_7
Transcript (Including UTRs)
   Position: hg19 chr1:113,051,587-113,072,787 Size: 21,201 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr1:113,051,885-113,063,131 Size: 11,247 Coding Exon Count: 5 

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 (chr1:113,051,587-113,072,787)mRNA (may differ from genome)Protein (391 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: WNT2B_HUMAN
DESCRIPTION: RecName: Full=Protein Wnt-2b; AltName: Full=Protein Wnt-13; 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. May be involved in normal development or differentiation as well as in carcinogenesis.
SUBCELLULAR LOCATION: Secreted, extracellular space, extracellular matrix.
TISSUE SPECIFICITY: Isoform 1 is expressed in adult heart, brain, placenta, lung, prostate, testis, ovary, small intestine and colon. In the adult brain, it is mainly found in the caudate nucleus, subthalamic nucleus and thalamus. Also detected in fetal brain, lung and kidney. Isoform 2 is expressed in fetal brain, fetal lung, fetal kidney, caudate nucleus, testis and cancer cell lines.
PTM: Palmitoylation at Ser-243 is required for efficient binding to frizzled receptors. It is also required for subsequent palmitoylation at Cys-107. 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: WNT2B
Diseases sorted by gene-association score: gastric cancer, somatic (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  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: 3.53 RPKM in Ovary
Total median expression: 62.58 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 -130.20298-0.437 Picture PostScript Text
3' UTR -2971.609656-0.308 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
IPR009140 - Wnt2
IPR018161 - Wnt_CS

Pfam Domains:
PF00110 - wnt family

SCOP Domains:
50891 - Cyclophilin-like

ModBase Predicted Comparative 3D Structure on Q93097
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:0002062 chondrocyte differentiation
GO:0002088 lens development in camera-type eye
GO:0007275 multicellular organism development
GO:0008584 male gonad development
GO:0009267 cellular response to starvation
GO:0016055 Wnt signaling pathway
GO:0021871 forebrain regionalization
GO:0030182 neuron differentiation
GO:0045165 cell fate commitment
GO:0060070 canonical Wnt signaling pathway
GO:0060492 lung induction
GO:0060638 mesenchymal-epithelial cell signaling
GO:0061072 iris morphogenesis
GO:0061303 cornea development in camera-type eye
GO:0071425 hematopoietic stem cell proliferation
GO:0090190 positive regulation of branching involved in ureteric bud morphogenesis
GO:0090263 positive regulation of canonical Wnt signaling pathway

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  CU688055 - Synthetic construct Homo sapiens gateway clone IMAGE:100021765 3' read ST7L mRNA.
AK127449 - Homo sapiens cDNA FLJ45541 fis, clone BRTHA2033264, highly similar to WNT-2B protein precursor.
AB045116 - Homo sapiens mRNA for WNT-2B Isoform 1, complete cds.
LF383825 - JP 2014500723-A/191328: Polycomb-Associated Non-Coding RNAs.
Z71621 - H.sapiens Wnt-13 mRNA.
LF212963 - JP 2014500723-A/20466: Polycomb-Associated Non-Coding RNAs.
LF211917 - JP 2014500723-A/19420: Polycomb-Associated Non-Coding RNAs.
BC141825 - Homo sapiens wingless-type MMTV integration site family, member 2B, mRNA (cDNA clone MGC:164954 IMAGE:40148248), complete cds.
LF206281 - JP 2014500723-A/13784: Polycomb-Associated Non-Coding RNAs.
AK312696 - Homo sapiens cDNA, FLJ93095, Homo sapiens wingless-type MMTV integration site family, member 2B(WNT2B), transcript variant WNT-2B2, mRNA.
AB045117 - Homo sapiens mRNA for WNT-2B Isoform 2, complete cds.
DQ587925 - Homo sapiens piRNA piR-55037, complete sequence.
DQ584165 - Homo sapiens piRNA piR-51277, complete sequence.
AF028701 - Homo sapiens Wnt-like protein Wnt13 mRNA, partial cds.
AK307185 - Homo sapiens cDNA, FLJ97133.
JD439099 - Sequence 420123 from Patent EP1572962.
JD133794 - Sequence 114818 from Patent EP1572962.
JD310356 - Sequence 291380 from Patent EP1572962.
JD067445 - Sequence 48469 from Patent EP1572962.
JD521704 - Sequence 502728 from Patent EP1572962.
JD292860 - Sequence 273884 from Patent EP1572962.
JD269004 - Sequence 250028 from Patent EP1572962.
JD450886 - Sequence 431910 from Patent EP1572962.
JD051255 - Sequence 32279 from Patent EP1572962.
JD100065 - Sequence 81089 from Patent EP1572962.
JD323472 - Sequence 304496 from Patent EP1572962.
JD089610 - Sequence 70634 from Patent EP1572962.
JD045363 - Sequence 26387 from Patent EP1572962.
JD506941 - Sequence 487965 from Patent EP1572962.
JD251697 - Sequence 232721 from Patent EP1572962.
JD224870 - Sequence 205894 from Patent EP1572962.
JD263190 - Sequence 244214 from Patent EP1572962.
JD412299 - Sequence 393323 from Patent EP1572962.
JD549609 - Sequence 530633 from Patent EP1572962.
JD553913 - Sequence 534937 from Patent EP1572962.
LF352934 - JP 2014500723-A/160437: Polycomb-Associated Non-Coding RNAs.
JD021396 - Sequence 2420 from Patent EP1572962.
JD032773 - Sequence 13797 from Patent EP1572962.
AK128799 - Homo sapiens cDNA FLJ45668 fis, clone CTONG3002588.
DQ587174 - Homo sapiens piRNA piR-54286, complete sequence.
DQ578496 - Homo sapiens piRNA piR-46608, complete sequence.
DQ590098 - Homo sapiens piRNA piR-57210, complete sequence.
DQ594891 - Homo sapiens piRNA piR-61003, complete sequence.
DQ578765 - Homo sapiens piRNA piR-46877, complete sequence.
LF206280 - JP 2014500723-A/13783: Polycomb-Associated Non-Coding RNAs.
LF352932 - JP 2014500723-A/160435: Polycomb-Associated Non-Coding RNAs.
LF352931 - JP 2014500723-A/160434: Polycomb-Associated Non-Coding RNAs.
LF352930 - JP 2014500723-A/160433: Polycomb-Associated Non-Coding RNAs.
MA619402 - JP 2018138019-A/191328: Polycomb-Associated Non-Coding RNAs.
MA588511 - JP 2018138019-A/160437: Polycomb-Associated Non-Coding RNAs.
MA588509 - JP 2018138019-A/160435: Polycomb-Associated Non-Coding RNAs.
MA588508 - JP 2018138019-A/160434: Polycomb-Associated Non-Coding RNAs.
MA588507 - JP 2018138019-A/160433: Polycomb-Associated Non-Coding RNAs.
MA448540 - JP 2018138019-A/20466: Polycomb-Associated Non-Coding RNAs.
MA447494 - JP 2018138019-A/19420: Polycomb-Associated Non-Coding RNAs.
MA441858 - JP 2018138019-A/13784: Polycomb-Associated Non-Coding RNAs.
MA441857 - JP 2018138019-A/13783: Polycomb-Associated Non-Coding RNAs.

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

Protein Q93097 (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-3247840 WLS binds WNT ligands in the Golgi
R-HSA-3247843 secretion of WNT ligands
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: ENST00000369684.1, ENST00000369684.2, ENST00000369684.3, ENST00000369684.4, NM_024494, O14903, Q5TEH9, Q5TEI2, Q93097, Q9HDC1, Q9HDC2, uc318htm.1, uc318htm.2, WNT13, WNT2B_HUMAN
UCSC ID: ENST00000369684.5_4
RefSeq Accession: NM_024494.3
Protein: Q93097 (aka WNT2B_HUMAN or WN2B_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.