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Human Gene PCDHB2 (ENST00000194155.7) from GENCODE V50
  Description: protocadherin beta 2 (from RefSeq NM_018936.4)
Gencode Transcript: ENST00000194155.7
Gencode Gene: ENSG00000112852.8
Transcript (Including UTRs)
   Position: hg38 chr5:141,094,615-141,098,703 Size: 4,089 Total Exon Count: 1 Strand: +
Coding Region
   Position: hg38 chr5:141,094,791-141,097,187 Size: 2,397 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther Names
Methods
Data last updated at UCSC: 2026-07-12 09:30:09

-  Comments and Description Text from UniProtKB
  ID: PCDB2_HUMAN
DESCRIPTION: RecName: Full=Protocadherin beta-2; Short=PCDH-beta-2; Flags: Precursor;
FUNCTION: Potential calcium-dependent cell-adhesion protein. May be involved in the establishment and maintenance of specific neuronal connections in the brain.
SUBCELLULAR LOCATION: Cell membrane; Single-pass type I membrane protein (By similarity).
SIMILARITY: Contains 6 cadherin domains.

-  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


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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 6.57 RPKM in Testis
Total median expression: 45.87 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -55.60176-0.316 Picture PostScript Text
3' UTR -343.501516-0.227 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
IPR002126 - Cadherin
IPR015919 - Cadherin-like
IPR020894 - Cadherin_CS
IPR013164 - Cadherin_N

Pfam Domains:
PF00028 - Cadherin domain
PF08266 - Cadherin-like

ModBase Predicted Comparative 3D Structure on Q9Y5E7
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-  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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005509 calcium ion binding

Biological Process:
GO:0007155 cell adhesion
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules
GO:0007268 chemical synaptic transmission
GO:0007399 nervous system development
GO:0007416 synapse assembly
GO:0016339 calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules

Cellular Component:
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK027526 - Homo sapiens cDNA FLJ14620 fis, clone NT2RP2000070, weakly similar to CADHERIN-RELATED TUMOR SUPPRESSOR PRECURSOR.
BC098575 - Homo sapiens protocadherin beta 2, mRNA (cDNA clone MGC:111392 IMAGE:30921306), complete cds.
BC011717 - Homo sapiens cDNA clone IMAGE:4100060, containing frame-shift errors.
BC023636 - Homo sapiens cDNA clone IMAGE:3160477, containing frame-shift errors.
AK314642 - Homo sapiens cDNA, FLJ95485, highly similar to Homo sapiens protocadherin beta 2 (PCDHB2), mRNA.
JD210736 - Sequence 191760 from Patent EP1572962.
BC098138 - Homo sapiens cDNA clone IMAGE:40007952, containing frame-shift errors.
BC098347 - Homo sapiens protocadherin beta 2, mRNA (cDNA clone MGC:119506 IMAGE:40007951), complete cds.
BC103505 - Homo sapiens cDNA clone IMAGE:40007954, containing frame-shift errors.
JD221532 - Sequence 202556 from Patent EP1572962.
AF152495 - Homo sapiens protocadherin beta 2 (PCDH-beta2) mRNA, complete cds.
AF217756 - Homo sapiens protocadherin-beta2 (PCDHB2) mRNA, complete cds.
AB209745 - Homo sapiens mRNA for protocadherin beta 2 precursor variant protein.
DQ600425 - Homo sapiens piRNA piR-38491, complete sequence.
DQ579929 - Homo sapiens piRNA piR-48041, complete sequence.
JD326281 - Sequence 307305 from Patent EP1572962.
JD254773 - Sequence 235797 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000194155.1, ENST00000194155.2, ENST00000194155.3, ENST00000194155.4, ENST00000194155.5, ENST00000194155.6, NM_018936, PCDB2_HUMAN, Q4KMU1, Q9Y5E7, uc003lil.1, uc003lil.2, uc003lil.3, uc003lil.4, uc003lil.5, uc003lil.6
UCSC ID: ENST00000194155.7
RefSeq Accession: NM_018936.4
Protein: Q9Y5E7 (aka PCDB2_HUMAN or CDB2_HUMAN)
CCDS: CCDS4244.1

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