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Aliases for PCDHGA9 Gene

Aliases for PCDHGA9 Gene

  • Protocadherin Gamma Subfamily A, 9 2 3 5
  • PCDH-GAMMA-A9 3 4

External Ids for PCDHGA9 Gene

Previous GeneCards Identifiers for PCDHGA9 Gene

  • GC05P140588
  • GC05P141312
  • GC05P140708
  • GC05P140767
  • GC05P140787
  • GC05P140726
  • GC05P140806
  • GC05P140829
  • GC05P140846
  • GC05P140871
  • GC05P140878
  • GC05P140898
  • GC05P140931
  • GC05P140953
  • GC05P140974
  • GC05P140998
  • GC05P141026
  • GC05P141044
  • GC05P141072
  • GC05P135927
  • GC05P141110
  • GC05P141152
  • GC05P141169
  • GC05P141205
  • GC05P141245
  • GC05P141332
  • GC05P141387
  • GC05P141455
  • GC05P141533

Summaries for PCDHGA9 Gene

Entrez Gene Summary for PCDHGA9 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 PCDHGA9 Gene

PCDHGA9 (Protocadherin Gamma Subfamily A, 9) is a Protein Coding gene. GO annotations related to this gene include poly(A) RNA binding and calcium ion binding. An important paralog of this gene is PCDHGA5.

UniProtKB/Swiss-Prot for PCDHGA9 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 PCDHGA9 Gene

Genomics for PCDHGA9 Gene

Regulatory Elements for PCDHGA9 Gene

Promoters for PCDHGA9 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around PCDHGA9 on UCSC Golden Path with GeneCards custom track

Genomic Location for PCDHGA9 Gene

Chromosome:
5
Start:
141,402,932 bp from pter
End:
141,512,979 bp from pter
Size:
110,048 bases
Orientation:
Plus strand

Genomic View for PCDHGA9 Gene

Genes around PCDHGA9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PCDHGA9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PCDHGA9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCDHGA9 Gene

Proteins for PCDHGA9 Gene

  • Protein details for PCDHGA9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5G4-PCDG9_HUMAN
    Recommended name:
    Protocadherin gamma-A9
    Protein Accession:
    Q9Y5G4
    Secondary Accessions:
    • A2RU65
    • Q9Y5C9

    Protein attributes for PCDHGA9 Gene

    Size:
    932 amino acids
    Molecular mass:
    101687 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PCDHGA9 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PCDHGA9 Gene

Proteomics data for PCDHGA9 Gene at MOPED

Post-translational modifications for PCDHGA9 Gene

  • Glycosylation at Asn 47, Asn 127, Asn 389, Asn 419, and Asn 545
  • Modification sites at PhosphoSitePlus

Other Protein References for PCDHGA9 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PCDHGA9 Gene

Domains & Families for PCDHGA9 Gene

Gene Families for PCDHGA9 Gene

Protein Domains for PCDHGA9 Gene

Suggested Antigen Peptide Sequences for PCDHGA9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y5G4

UniProtKB/Swiss-Prot:

PCDG9_HUMAN :
  • Contains 6 cadherin domains.
Domain:
  • Contains 6 cadherin domains.
genes like me logo Genes that share domains with PCDHGA9: view

Function for PCDHGA9 Gene

Molecular function for PCDHGA9 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 PCDHGA9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with PCDHGA9: view
genes like me logo Genes that share phenotypes with PCDHGA9: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for PCDHGA9 Gene

Localization for PCDHGA9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCDHGA9 Gene

Cell membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PCDHGA9 Gene COMPARTMENTS Subcellular localization image for PCDHGA9 gene
Compartment Confidence
plasma membrane 3

Gene Ontology (GO) - Cellular Components for PCDHGA9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with PCDHGA9: view

Pathways & Interactions for PCDHGA9 Gene

SuperPathways for PCDHGA9 Gene

No Data Available

Interacting Proteins for PCDHGA9 Gene

Gene Ontology (GO) - Biological Process for PCDHGA9 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for PCDHGA9 Gene

Drugs & Compounds for PCDHGA9 Gene

(1) Drugs for PCDHGA9 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 PCDHGA9: view

Transcripts for PCDHGA9 Gene

mRNA/cDNA for PCDHGA9 Gene

CRISPR Products

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PCDHGA9 Gene

No ASD Table

Relevant External Links for PCDHGA9 Gene

GeneLoc Exon Structure for
PCDHGA9
ECgene alternative splicing isoforms for
PCDHGA9

Expression for PCDHGA9 Gene

mRNA expression in normal human tissues for PCDHGA9 Gene

Protein differential expression in normal tissues from HIPED for PCDHGA9 Gene

This gene is overexpressed in Testis (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for PCDHGA9 Gene



genes like me logo Genes that share expression patterns with PCDHGA9: view

Protein tissue co-expression partners for PCDHGA9 Gene

- Elite partner

Primer Products

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 and mRNA Expression by UniProt/SwissProt for PCDHGA9 Gene

Orthologs for PCDHGA9 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PCDHGA9 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PCDHGA9 35
  • 99.61 (n)
  • 99.68 (a)
cow
(Bos Taurus)
Mammalia PCDHGA9 35
  • 84 (n)
  • 84.55 (a)
mouse
(Mus musculus)
Mammalia Pcdhga9 35
  • 82.59 (n)
  • 84.04 (a)
Pcdhga9 16
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 62 (a)
ManyToMany
-- 36
  • 64 (a)
ManyToMany
-- 36
  • 65 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 66 (a)
ManyToMany
-- 36
  • 65 (a)
ManyToMany
-- 36
  • 65 (a)
ManyToMany
-- 36
  • 68 (a)
ManyToMany
-- 36
  • 58 (a)
ManyToMany
-- 36
  • 65 (a)
ManyToMany
rat
(Rattus norvegicus)
Mammalia Pcdhga9 35
  • 82.1 (n)
  • 83.08 (a)
chicken
(Gallus gallus)
Aves -- 36
  • 51 (a)
ManyToMany
-- 36
  • 51 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 54 (a)
ManyToMany
-- 36
  • 53 (a)
ManyToMany
-- 36
  • 53 (a)
ManyToMany
-- 36
  • 53 (a)
ManyToMany
-- 36
  • 54 (a)
ManyToMany
-- 36
  • 55 (a)
ManyToMany
-- 36
  • 51 (a)
ManyToMany
-- 36
  • 51 (a)
ManyToMany
Species with no ortholog for PCDHGA9:
  • 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)
  • dog (Canis familiaris)
  • 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 PCDHGA9 Gene

ENSEMBL:
Gene Tree for PCDHGA9 (if available)
TreeFam:
Gene Tree for PCDHGA9 (if available)

Paralogs for PCDHGA9 Gene

genes like me logo Genes that share paralogs with PCDHGA9: view

Variants for PCDHGA9 Gene

Sequence variations from dbSNP and Humsavar for PCDHGA9 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
VAR_048565 -

Structural Variations from Database of Genomic Variants (DGV) for PCDHGA9 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
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 PCDHGA9 Gene

Residual Variation Intolerance Score: 88.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.88; 48.42% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PCDHGA9 Gene

HapMap Linkage Disequilibrium report
PCDHGA9

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCDHGA9 Gene

Disorders for PCDHGA9 Gene

Relevant External Links for PCDHGA9

Genetic Association Database (GAD)
PCDHGA9
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PCDHGA9

No disorders were found for PCDHGA9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PCDHGA9 Gene

Publications for PCDHGA9 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 67
  2. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. (PMID: 22681889) Baltz A.G. … Landthaler M. (Mol. Cell 2012) 3
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3
  4. Comparative DNA sequence analysis of mouse and human protocadherin gene clusters. (PMID: 11230163) Wu Q. … Maniatis T. (Genome Res. 2001) 3
  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 PCDHGA9 Gene

Sources for PCDHGA9 Gene

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