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Aliases for PCDHB6 Gene

Aliases for PCDHB6 Gene

  • Protocadherin Beta 6 2 3
  • Protocadherin Beta-6 3
  • PCDH-Beta-6 4
  • PCDH-BETA6 3

External Ids for PCDHB6 Gene

Previous GeneCards Identifiers for PCDHB6 Gene

  • GC05P140346
  • GC05P141112
  • GC05P140512
  • GC05P140558
  • GC05P140510
  • GC05P135674
  • GC05P140529

Summaries for PCDHB6 Gene

Entrez Gene Summary for PCDHB6 Gene

  • This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. Unlike the alpha and gamma clusters, the transcripts from these genes do not share common 3' exons. These neural cadherin-like cell adhesion proteins are integral plasma membrane proteins that most likely play a critical role in the establishment and function of specific cell-cell neural connections. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2014]

GeneCards Summary for PCDHB6 Gene

PCDHB6 (Protocadherin Beta 6) is a Protein Coding gene. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is PCDHGA11.

UniProtKB/Swiss-Prot for PCDHB6 Gene

  • Potential calcium-dependent cell-adhesion protein. May be involved in the establishment and maintenance of specific neuronal connections in the brain

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PCDHB6 Gene

Genomics for PCDHB6 Gene

Regulatory Elements for PCDHB6 Gene

Genomic Location for PCDHB6 Gene

Start:
141,150,022 bp from pter
End:
141,153,287 bp from pter
Size:
3,266 bases
Orientation:
Plus strand

Genomic View for PCDHB6 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for PCDHB6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCDHB6 Gene

Proteins for PCDHB6 Gene

  • Protein details for PCDHB6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5E3-PCDB6_HUMAN
    Recommended name:
    Protocadherin beta-6
    Protein Accession:
    Q9Y5E3
    Secondary Accessions:
    • B2R8R9

    Protein attributes for PCDHB6 Gene

    Size:
    794 amino acids
    Molecular mass:
    87350 Da
    Quaternary structure:
    No Data Available

neXtProt entry for PCDHB6 Gene

Proteomics data for PCDHB6 Gene at MOPED

Post-translational modifications for PCDHB6 Gene

  • Glycosylation at Asn46, Asn183, Asn416, and Asn565
  • Modification sites at PhosphoSitePlus

Other Protein References for PCDHB6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PCDHB6 Gene

Domains for PCDHB6 Gene

Gene Families for PCDHB6 Gene

HGNC:
  • PCDHC :Cadherins / Protocadherins : Clustered

Protein Domains for PCDHB6 Gene

Suggested Antigen Peptide Sequences for PCDHB6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y5E3

UniProtKB/Swiss-Prot:

PCDB6_HUMAN :
  • Q9Y5E3
Domain:
  • Contains 6 cadherin domains.
genes like me logo Genes that share domains with PCDHB6: view

Function for PCDHB6 Gene

Molecular function for PCDHB6 Gene

UniProtKB/Swiss-Prot Function: Potential calcium-dependent cell-adhesion protein. May be involved in the establishment and maintenance of specific neuronal connections in the brain

Gene Ontology (GO) - Molecular Function for PCDHB6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with PCDHB6: view

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for PCDHB6 Gene

Localization for PCDHB6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCDHB6 Gene

Cell membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PCDHB6 Gene COMPARTMENTS Subcellular localization image for PCDHB6 gene
Compartment Confidence
plasma membrane 5
extracellular 2
cytosol 1
nucleus 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for PCDHB6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005887 integral component of plasma membrane TAS 10380929
GO:0016020 membrane --
GO:0016021 integral component of membrane NAS 11322959
genes like me logo Genes that share ontologies with PCDHB6: view

Pathways for PCDHB6 Gene

SuperPathways for PCDHB6 Gene

No Data Available

Interacting Proteins for PCDHB6 Gene

STRING Interaction Network Preview (showing 4 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000231136%0d%0a9606.ENSP00000346155%0d%0a9606.ENSP00000344456%0d%0a9606.ENSP00000311113%0d%0a9606.ENSP00000362481%0d%0a
Selected Interacting proteins: ENSP00000231136 for PCDHB6 Gene via STRING

Gene Ontology (GO) - Biological Process for PCDHB6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion TAS 10380929
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
GO:0007268 synaptic transmission TAS 12231349
GO:0007399 nervous system development TAS 10380929
GO:0007416 synapse assembly TAS 12231349
genes like me logo Genes that share ontologies with PCDHB6: view

No data available for Pathways by source for PCDHB6 Gene

Compounds for PCDHB6 Gene

(1) HMDB Compounds for PCDHB6 Gene

Compound Synonyms Cas Number PubMed IDs
Calcium
  • Ca
7440-70-2
genes like me logo Genes that share compounds with PCDHB6: view

Transcripts for PCDHB6 Gene

mRNA/cDNA for PCDHB6 Gene

Unigene Clusters for PCDHB6 Gene

Protocadherin beta 6:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for PCDHB6 Gene

No ASD Table

Relevant External Links for PCDHB6 Gene

GeneLoc Exon Structure for
PCDHB6
ECgene alternative splicing isoforms for
PCDHB6

Expression for PCDHB6 Gene

mRNA expression in normal human tissues for PCDHB6 Gene

SOURCE GeneReport for Unigene cluster for PCDHB6 Gene Hs.283085

genes like me logo Genes that share expressions with PCDHB6: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein expression and mRNA Expression by UniProt/SwissProt for PCDHB6 Gene

Orthologs for PCDHB6 Gene

This gene was present in the common ancestor of mammals.

Orthologs for PCDHB6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PCDHB6 35
  • 98.15 (n)
  • 97.98 (a)
PCDHB6 36
  • 98 (a)
OneToOne
cow
(Bos Taurus)
Mammalia PCDHB6 36
  • 83 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PCDHB6 35
  • 85.68 (n)
  • 83.88 (a)
mouse
(Mus musculus)
Mammalia Pcdhb13 35
  • 79.91 (n)
  • 77.81 (a)
Pcdhb13 16
Pcdhb13 36
  • 78 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 63 (a)
ManyToMany
-- 36
  • 62 (a)
ManyToMany
-- 36
  • 62 (a)
ManyToMany
-- 36
  • 63 (a)
ManyToMany
-- 36
  • 64 (a)
ManyToMany
-- 36
  • 61 (a)
ManyToMany
-- 36
  • 64 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 60 (a)
ManyToMany
-- 36
  • 62 (a)
ManyToMany
-- 36
  • 60 (a)
ManyToMany
Species with no ortholog for PCDHB6:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for PCDHB6 Gene

ENSEMBL:
Gene Tree for PCDHB6 (if available)
TreeFam:
Gene Tree for PCDHB6 (if available)

Paralogs for PCDHB6 Gene

genes like me logo Genes that share paralogs with PCDHB6: view

Variants for PCDHB6 Gene

Sequence variations from dbSNP and Humsavar for PCDHB6 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type MAF
rs246702 -- 141,153,469(-) CTGTA(A/G)CGGTG downstream-variant-500B
rs246703 - 141,152,165(-) AGCCT(C/G)TGCTT reference, missense
rs246704 -- 141,152,086(-) GACCG(A/G)GCTCC missense, reference
rs246705 -- 141,151,935(-) GTACA(A/G)CACGA synonymous-codon, reference
rs246706 -- 141,151,634(-) TTCTC(C/G/T)CGGAC synonymous-codon, reference

Structural Variations from Database of Genomic Variants (DGV) for PCDHB6 Gene

Variant ID Type Subtype PubMed ID
dgv1857e1 CNV Complex 17122850
nsv428127 CNV Loss 18775914
dgv6348n71 CNV Loss 21882294
nsv522785 CNV Loss 19592680
nsv471634 CNV Gain+Loss 15918152
dgv6349n71 CNV Loss 21882294
dgv1858e1 CNV Complex 17122850
nsv5029 CNV Insertion 18451855
dgv6350n71 CNV Loss 21882294
dgv1045e199 CNV Deletion 23128226
nsv10755 CNV Loss 18304495
esv25821 CNV Loss 19812545

Relevant External Links for PCDHB6 Gene

HapMap Linkage Disequilibrium report
PCDHB6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCDHB6 Gene

Disorders for PCDHB6 Gene

No disorders were found for PCDHB6 Gene.

No data available for UniProtKB/Swiss-Prot for PCDHB6 Gene

Publications for PCDHB6 Gene

  1. A striking organization of a large family of human neural cadherin- like cell adhesion genes. (PMID: 10380929) Wu Q. … Maniatis T. (Cell 1999) 2 3 4
  2. The human and murine protocadherin-beta one-exon gene families show high evolutionary conservation, despite the difference in gene number. (PMID: 11322959) Vanhalst K. … van Roy F. (FEBS Lett. 2001) 3 4
  3. Protocadherins. (PMID: 12231349) Frank M. … Kemler R. (Curr. Opin. Cell Biol. 2002) 3
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 4
  5. Large exons encoding multiple ectodomains are a characteristic feature of protocadherin genes. (PMID: 10716726) Wu Q. … Maniatis T. (Proc. Natl. Acad. Sci. U.S.A. 2000) 3

Products for PCDHB6 Gene

Sources for PCDHB6 Gene

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