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Aliases for PCDHGB6 Gene

Aliases for PCDHGB6 Gene

  • Protocadherin Gamma Subfamily B, 6 2 3
  • PCDH-GAMMA-B6 3 4
  • Protocadherin Gamma-B6 3

External Ids for PCDHGB6 Gene

Summaries for PCDHGB6 Gene

Entrez Gene Summary for PCDHGB6 Gene

  • This gene is a member of the protocadherin gamma gene cluster, one of three related clusters tandemly linked on chromosome five. These gene clusters have an immunoglobulin-like organization, suggesting that a novel mechanism may be involved in their regulation and expression. The gamma gene cluster includes 22 genes divided into 3 subfamilies. Subfamily A contains 12 genes, subfamily B contains 7 genes and 2 pseudogenes, and the more distantly related subfamily C contains 3 genes. The tandem array of 22 large, variable region exons are followed by a constant region, containing 3 exons shared by all genes in the cluster. Each variable region exon encodes the extracellular region, which includes 6 cadherin ectodomains and a transmembrane region. The constant region exons encode the common cytoplasmic region. These neural cadherin-like cell adhesion proteins most likely play a critical role in the establishment and function of specific cell-cell connections in the brain. Alternative splicing has been described for the gamma cluster genes. [provided by RefSeq, Jul 2008]

GeneCards Summary for PCDHGB6 Gene

PCDHGB6 (Protocadherin Gamma Subfamily B, 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 PCDHGB6 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 PCDHGB6 Gene

Genomics for PCDHGB6 Gene

Genomic Location for PCDHGB6 Gene

Start:
141,408,021 bp from pter
End:
141,512,979 bp from pter
Size:
104,959 bases
Orientation:
Plus strand

Genomic View for PCDHGB6 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for PCDHGB6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCDHGB6 Gene

Regulatory Elements for PCDHGB6 Gene

Proteins for PCDHGB6 Gene

  • Protein details for PCDHGB6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5F9-PCDGI_HUMAN
    Recommended name:
    Protocadherin gamma-B6
    Protein Accession:
    Q9Y5F9
    Secondary Accessions:
    • Q9Y5C5

    Protein attributes for PCDHGB6 Gene

    Size:
    930 amino acids
    Molecular mass:
    101043 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PCDHGB6 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PCDHGB6 Gene

Proteomics data for PCDHGB6 Gene at MOPED

Post-translational modifications for PCDHGB6 Gene

  • Modification sites at PhosphoSitePlus
  • Glycosylation at Asn304, Asn419, and Asn545

Other Protein References for PCDHGB6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PCDHGB6 Gene

Domains for PCDHGB6 Gene

Gene Families for PCDHGB6 Gene

HGNC:
  • PCDHC :Cadherins / Protocadherins : Clustered

Protein Domains for PCDHGB6 Gene

UniProtKB/Swiss-Prot:

PCDGI_HUMAN
Domain:
  • Contains 6 cadherin domains.:
    • Q9Y5F9
genes like me logo Genes that share domains with PCDHGB6: view

Function for PCDHGB6 Gene

Molecular function for PCDHGB6 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 PCDHGB6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with PCDHGB6: view

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for PCDHGB6 Gene

Localization for PCDHGB6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCDHGB6 Gene

Cell membrane; Single-pass type I membrane protein.

Gene Ontology (GO) - Cellular Components for PCDHGB6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0016020 membrane --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with PCDHGB6: view

Pathways for PCDHGB6 Gene

SuperPathways for PCDHGB6 Gene

No Data Available

Interacting Proteins for PCDHGB6 Gene

Gene Ontology (GO) - Biological Process for PCDHGB6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
genes like me logo Genes that share ontologies with PCDHGB6: view

No data available for Pathways by source for PCDHGB6 Gene

Compounds for PCDHGB6 Gene

(1) HMDB Compounds for PCDHGB6 Gene

Compound Synonyms Cas Number PubMed IDs
Calcium
  • Ca
7440-70-2
genes like me logo Genes that share compounds with PCDHGB6: view

Transcripts for PCDHGB6 Gene

mRNA/cDNA for PCDHGB6 Gene

Alternative Splicing Database (ASD) splice patterns (SP) for PCDHGB6 Gene

No ASD Table

Relevant External Links for PCDHGB6 Gene

GeneLoc Exon Structure for
PCDHGB6
ECgene alternative splicing isoforms for
PCDHGB6

Expression for PCDHGB6 Gene

mRNA expression in normal human tissues for PCDHGB6 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for PCDHGB6 Gene

genes like me logo Genes that share expressions with PCDHGB6: view

Orthologs for PCDHGB6 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PCDHGB6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PCDHGB6 36
  • 99.53 (n)
  • 99.57 (a)
cow
(Bos Taurus)
Mammalia PCDHGB6 36
  • 86.21 (n)
  • 86.71 (a)
dog
(Canis familiaris)
Mammalia PCDHGB6 36
  • 84.39 (n)
  • 84.6 (a)
mouse
(Mus musculus)
Mammalia Pcdhgb6 36
  • 82.19 (n)
  • 82.95 (a)
Pcdhgb6 16
oppossum
(Monodelphis domestica)
Mammalia -- 37
  • 58 (a)
ManyToMany
-- 37
  • 59 (a)
ManyToMany
-- 37
  • 56 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 37
  • 59 (a)
ManyToMany
-- 37
  • 59 (a)
ManyToMany
-- 37
  • 58 (a)
ManyToMany
-- 37
  • 56 (a)
ManyToMany
-- 37
  • 60 (a)
ManyToMany
rat
(Rattus norvegicus)
Mammalia LOC102552497 36
  • 80.5 (n)
  • 81.61 (a)
lizard
(Anolis carolinensis)
Reptilia -- 37
  • 50 (a)
ManyToMany
-- 37
  • 50 (a)
ManyToMany
-- 37
  • 50 (a)
ManyToMany
-- 37
  • 50 (a)
ManyToMany
-- 37
  • 51 (a)
ManyToMany
-- 37
  • 50 (a)
ManyToMany
-- 37
  • 50 (a)
ManyToMany
-- 37
  • 51 (a)
ManyToMany
-- 37
  • 50 (a)
ManyToMany
-- 37
  • 49 (a)
ManyToMany
-- 37
  • 49 (a)
ManyToMany
-- 37
  • 50 (a)
ManyToMany
-- 37
  • 49 (a)
ManyToMany
-- 37
  • 50 (a)
ManyToMany
-- 37
  • 49 (a)
ManyToMany
-- 37
  • 50 (a)
ManyToMany
-- 37
  • 49 (a)
ManyToMany
-- 37
  • 51 (a)
ManyToMany
-- 37
  • 51 (a)
ManyToMany
-- 37
  • 53 (a)
ManyToMany
-- 37
  • 49 (a)
ManyToMany
Species with no ortholog for PCDHGB6:
  • 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)
  • 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)
  • 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 PCDHGB6 Gene

ENSEMBL:
Gene Tree for PCDHGB6 (if available)
TreeFam:
Gene Tree for PCDHGB6 (if available)

Paralogs for PCDHGB6 Gene

genes like me logo Genes that share paralogs with PCDHGB6: view

Variants for PCDHGB6 Gene

Sequence variations from dbSNP and Humsavar for PCDHGB6 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type MAF
VAR_021883 -
VAR_021884 -
VAR_048572 -

Structural Variations from Database of Genomic Variants (DGV) for PCDHGB6 Gene

Variant ID Type Subtype PubMed ID
dgv1857e1 CNV Complex 17122850
dgv6351n71 CNV Loss 21882294
dgv6352n71 CNV Loss 21882294
nsv882987 CNV Gain 21882294
nsv882990 CNV Loss 21882294
nsv519627 CNV Loss 19592680
nsv518799 CNV Loss 19592680
nsv327707 CNV Loss 16902084
esv2730847 CNV Deletion 23290073
nsv462470 CNV Loss 19166990
esv25744 CNV Gain 19812545

Relevant External Links for PCDHGB6 Gene

HapMap Linkage Disequilibrium report
PCDHGB6

Disorders for PCDHGB6 Gene

Relevant External Links for PCDHGB6

Genetic Association Database (GAD)
PCDHGB6
genes like me logo Genes that share disorders with PCDHGB6: view

No data available for UniProtKB/Swiss-Prot for PCDHGB6 Gene

Publications for PCDHGB6 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. 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
  3. Cadherin superfamily genes: functions, genomic organization, and neurologic diversity. (PMID: 10817752) Yagi T. … Takeichi M. (Genes Dev. 2000) 3
  4. Phylogenetic analysis of the cadherin superfamily allows identification of six major subfamilies besides several solitary members. (PMID: 10835267) Nollet F. … van Roy F. (J. Mol. Biol. 2000) 3
  5. Comparative DNA sequence analysis of mouse and human protocadherin gene clusters. (PMID: 11230163) Wu Q. … Maniatis T. (Genome Res. 2001) 3

Products for PCDHGB6 Gene

Sources for PCDHGB6 Gene

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