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Aliases for PCDHGA4 Gene

Aliases for PCDHGA4 Gene

  • Protocadherin Gamma Subfamily A, 4 2 3
  • PCDH-GAMMA-A4 3 4

External Ids for PCDHGA4 Gene

Previous GeneCards Identifiers for PCDHGA4 Gene

  • GC05P140551
  • GC05P141304
  • GC05P140703
  • GC05P140762
  • GC05P140782
  • GC05P140700
  • GC05P140812
  • GC05P140821
  • GC05P140836
  • GC05P140863
  • GC05P140889
  • GC05P140911
  • GC05P140923
  • GC05P140945
  • GC05P140966
  • GC05P140988
  • GC05P141018
  • GC05P141036
  • GC05P141066
  • GC05P135879
  • GC05P141103
  • GC05P141133
  • GC05P141165
  • GC05P141200
  • GC05P141241
  • GC05P141290
  • GC05P141376
  • GC05P141445

Summaries for PCDHGA4 Gene

Entrez Gene Summary for PCDHGA4 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 PCDHGA4 Gene

PCDHGA4 (Protocadherin Gamma Subfamily A, 4) 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 PCDHGA4 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 PCDHGA4 Gene

Genomics for PCDHGA4 Gene

Regulatory Elements for PCDHGA4 Gene

Genomic Location for PCDHGA4 Gene

Chromosome:
5
Start:
141,355,025 bp from pter
End:
141,512,979 bp from pter
Size:
157,955 bases
Orientation:
Plus strand

Genomic View for PCDHGA4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for PCDHGA4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCDHGA4 Gene

Proteins for PCDHGA4 Gene

  • Protein details for PCDHGA4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5G9-PCDG4_HUMAN
    Recommended name:
    Protocadherin gamma-A4
    Protein Accession:
    Q9Y5G9
    Secondary Accessions:
    • Q9Y5D3

    Protein attributes for PCDHGA4 Gene

    Size:
    931 amino acids
    Molecular mass:
    100589 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PCDHGA4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PCDHGA4 Gene

Proteomics data for PCDHGA4 Gene at MOPED

Post-translational modifications for PCDHGA4 Gene

  • Glycosylation at Asn 419 and Asn 545
  • Modification sites at PhosphoSitePlus

Other Protein References for PCDHGA4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PCDHGA4 Gene

Domains & Families for PCDHGA4 Gene

Gene Families for PCDHGA4 Gene

Protein Domains for PCDHGA4 Gene

Suggested Antigen Peptide Sequences for PCDHGA4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y5G9

UniProtKB/Swiss-Prot:

PCDG4_HUMAN :
  • Contains 6 cadherin domains.
Domain:
  • Contains 6 cadherin domains.
genes like me logo Genes that share domains with PCDHGA4: view

Function for PCDHGA4 Gene

Molecular function for PCDHGA4 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 PCDHGA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with PCDHGA4: view
genes like me logo Genes that share phenotypes with PCDHGA4: view

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for PCDHGA4

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for PCDHGA4 Gene

Localization for PCDHGA4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCDHGA4 Gene

Cell membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PCDHGA4 Gene COMPARTMENTS Subcellular localization image for PCDHGA4 gene
Compartment Confidence
plasma membrane 3

Gene Ontology (GO) - Cellular Components for PCDHGA4 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 PCDHGA4: view

Pathways & Interactions for PCDHGA4 Gene

SuperPathways for PCDHGA4 Gene

No Data Available

Interacting Proteins for PCDHGA4 Gene

Gene Ontology (GO) - Biological Process for PCDHGA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion --
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
genes like me logo Genes that share ontologies with PCDHGA4: view

No data available for Pathways by source and SIGNOR curated interactions for PCDHGA4 Gene

Drugs & Compounds for PCDHGA4 Gene

(1) Drugs for PCDHGA4 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Calcium Nutra 0
genes like me logo Genes that share compounds with PCDHGA4: view

Transcripts for PCDHGA4 Gene

mRNA/cDNA for PCDHGA4 Gene

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for PCDHGA4

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PCDHGA4 Gene

No ASD Table

Relevant External Links for PCDHGA4 Gene

GeneLoc Exon Structure for
PCDHGA4
ECgene alternative splicing isoforms for
PCDHGA4

Expression for PCDHGA4 Gene

mRNA expression in normal human tissues for PCDHGA4 Gene

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for PCDHGA4 Gene



genes like me logo Genes that share expression patterns with PCDHGA4: view

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for PCDHGA4 Gene

Orthologs for PCDHGA4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PCDHGA4 Gene

Organism Taxonomy Gene Similarity Type Details
dog
(Canis familiaris)
Mammalia PCDHGA4 35
  • 84.98 (n)
  • 84.16 (a)
mouse
(Mus musculus)
Mammalia Pcdhga4 35
  • 82.39 (n)
  • 84.46 (a)
Pcdhga4 16
chimpanzee
(Pan troglodytes)
Mammalia PCDHGA4 35
  • 99.06 (n)
  • 98.34 (a)
PCDHGA2 36
  • 95 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia LOC102553012 35
  • 81.13 (n)
  • 82.39 (a)
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 63 (a)
ManyToMany
-- 36
  • 65 (a)
ManyToMany
-- 36
  • 65 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 66 (a)
ManyToMany
-- 36
  • 66 (a)
ManyToMany
-- 36
  • 65 (a)
ManyToMany
-- 36
  • 71 (a)
ManyToMany
-- 36
  • 58 (a)
ManyToMany
-- 36
  • 67 (a)
ManyToMany
chicken
(Gallus gallus)
Aves -- 36
  • 50 (a)
ManyToMany
-- 36
  • 50 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 52 (a)
ManyToMany
-- 36
  • 54 (a)
ManyToMany
-- 36
  • 52 (a)
ManyToMany
-- 36
  • 53 (a)
ManyToMany
-- 36
  • 55 (a)
ManyToMany
-- 36
  • 56 (a)
ManyToMany
-- 36
  • 53 (a)
ManyToMany
-- 36
  • 51 (a)
ManyToMany
Species with no ortholog for PCDHGA4:
  • 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)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • 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 PCDHGA4 Gene

ENSEMBL:
Gene Tree for PCDHGA4 (if available)
TreeFam:
Gene Tree for PCDHGA4 (if available)

Paralogs for PCDHGA4 Gene

genes like me logo Genes that share paralogs with PCDHGA4: view

Variants for PCDHGA4 Gene

Sequence variations from dbSNP and Humsavar for PCDHGA4 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type MAF
VAR_048557 -
VAR_048558 -
VAR_048559 -

Structural Variations from Database of Genomic Variants (DGV) for PCDHGA4 Gene

Variant ID Type Subtype PubMed ID
dgv1857e1 CNV Complex 17122850
dgv6351n71 CNV Loss 21882294
dgv6352n71 CNV Loss 21882294
dgv6353n71 CNV Loss 21882294
nsv882987 CNV Gain 21882294
nsv882990 CNV Loss 21882294
nsv823279 CNV Gain 20364138
nsv823280 CNV Loss 20364138
nsv519627 CNV Loss 19592680
esv267823 CNV Insertion 20981092
nsv518799 CNV Loss 19592680
nsv327707 CNV Loss 16902084
esv2730847 CNV Deletion 23290073
nsv462470 CNV Loss 19166990
esv25744 CNV Gain 19812545

Variation tolerance for PCDHGA4 Gene

Gene Damage Index Score: 7.96; 84.01% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PCDHGA4 Gene

HapMap Linkage Disequilibrium report
PCDHGA4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCDHGA4 Gene

Disorders for PCDHGA4 Gene

Relevant External Links for PCDHGA4

Genetic Association Database (GAD)
PCDHGA4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PCDHGA4
genes like me logo Genes that share disorders with PCDHGA4: view

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PCDHGA4 Gene

Publications for PCDHGA4 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 67
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 67
  3. Comparative DNA sequence analysis of mouse and human protocadherin gene clusters. (PMID: 11230163) Wu Q. … Maniatis T. (Genome Res. 2001) 67
  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) 67
  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) 67

Products for PCDHGA4 Gene

Sources for PCDHGA4 Gene

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