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Aliases for PCDHGA6 Gene

Aliases for PCDHGA6 Gene

  • Protocadherin Gamma Subfamily A, 6 2 3 5
  • PCDH-GAMMA-A6 3 4
  • Protocadherin Gamma-A6 3

External Ids for PCDHGA6 Gene

Previous GeneCards Identifiers for PCDHGA6 Gene

  • GC05P140570
  • GC05P141308
  • GC05P140705
  • GC05P140764
  • GC05P140784
  • GC05P140723
  • GC05P140817
  • GC05P140825
  • GC05P140841
  • GC05P140866
  • GC05P140892
  • GC05P140914
  • GC05P140926
  • GC05P140948
  • GC05P140969
  • GC05P140991
  • GC05P141010
  • GC05P141039
  • GC05P141067
  • GC05P135898
  • GC05P141105
  • GC05P141146
  • GC05P141184
  • GC05P141215
  • GC05P141255
  • GC05P141299
  • GC05P141382
  • GC05P141450
  • GC05P141526
  • GC05P141630
  • GC05P141732

Summaries for PCDHGA6 Gene

Entrez Gene Summary for PCDHGA6 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 PCDHGA6 Gene

PCDHGA6 (Protocadherin Gamma Subfamily A, 6) is a Protein Coding gene. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is PCDHGA7.

UniProtKB/Swiss-Prot for PCDHGA6 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 PCDHGA6 Gene

Genomics for PCDHGA6 Gene

Regulatory Elements for PCDHGA6 Gene

Enhancers for PCDHGA6 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH05F141968 1.2 ENCODE 17.3 +595.7 595653 3.0 HDGF PKNOX1 ARNT WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 PCDHB5 KIAA0141 HDAC3 PCDHGA5 PCDHB12 RNF14 PCDHB11 PCDHB4 PCDHB19P PCDHB18P
GH05F142355 1.7 FANTOM5 Ensembl ENCODE 10.9 +986.7 986714 9.9 PKNOX1 CREB3L1 MLX ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF766 CBX5 HDAC3 ARHGAP26 SPRY4 LOC101926941 PCDHGA6 PCDHGA7 RPL7P21 LINC01844 ENSG00000261757 GC05P142356
GH05F142011 1.5 FANTOM5 ENCODE 10.9 +640.5 640515 5.3 CREB3L1 MLX ARID4B SIN3A DMAP1 YY1 ZNF143 FOS ZNF263 SP3 PCDHB18P GNPDA1 PCDHGA6 PCDHGA7 PCDH12 DIAPH1 KIAA0141 MRPL11P2
GH05F141557 0.9 ENCODE 15.7 +185.6 185591 4.7 ATF1 CBX3 PKNOX1 SIN3A RAD21 CHAMP1 YY1 ZNF207 RCOR1 FOS PCDHGA6 PCDHB18P PCDHA2 PCDHGA7 PCDHA3 PCDHA7 RELL2 DIAPH1 FCHSD1 LOC100505658
GH05F141712 1.2 Ensembl ENCODE 10.9 +340.7 340674 3.9 TBP ELF3 PKNOX1 ARID4B SIN3A DMAP1 ZNF2 RAD21 ZSCAN9 ZNF48 PCDHB18P PCDH1 PCDHGA6 PCDHA2 RNF14 PCDH12 PCDHA3 PCDHGA7 PCDHA7 RELL2
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PCDHGA6 on UCSC Golden Path with GeneCards custom track

Promoters for PCDHGA6 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001874448 287 799 CTCF ZNF654 SMC3 ZNF2 RAD21

Genomic Location for PCDHGA6 Gene

Chromosome:
5
Start:
141,373,914 bp from pter
End:
141,512,979 bp from pter
Size:
139,066 bases
Orientation:
Plus strand

Genomic View for PCDHGA6 Gene

Genes around PCDHGA6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PCDHGA6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PCDHGA6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCDHGA6 Gene

Proteins for PCDHGA6 Gene

  • Protein details for PCDHGA6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5G7-PCDG6_HUMAN
    Recommended name:
    Protocadherin gamma-A6
    Protein Accession:
    Q9Y5G7
    Secondary Accessions:
    • A6H8K7
    • B2RN55
    • Q9Y5D1

    Protein attributes for PCDHGA6 Gene

    Size:
    932 amino acids
    Molecular mass:
    100871 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PCDHGA6 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PCDHGA6 Gene

Post-translational modifications for PCDHGA6 Gene

  • Glycosylation at Asn 81, Asn 419, Asn 545, and Asn 685
  • Modification sites at PhosphoSitePlus

Other Protein References for PCDHGA6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PCDHGA6 Gene

Domains & Families for PCDHGA6 Gene

Gene Families for PCDHGA6 Gene

Protein Domains for PCDHGA6 Gene

Suggested Antigen Peptide Sequences for PCDHGA6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y5G7

UniProtKB/Swiss-Prot:

PCDG6_HUMAN :
  • Contains 6 cadherin domains.
Domain:
  • Contains 6 cadherin domains.
genes like me logo Genes that share domains with PCDHGA6: view

Function for PCDHGA6 Gene

Molecular function for PCDHGA6 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 PCDHGA6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with PCDHGA6: view

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for PCDHGA6 Gene

Localization for PCDHGA6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCDHGA6 Gene

Cell membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PCDHGA6 gene
Compartment Confidence
plasma membrane 3

Gene Ontology (GO) - Cellular Components for PCDHGA6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0005887 integral component of plasma membrane IBA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with PCDHGA6: view

Pathways & Interactions for PCDHGA6 Gene

SuperPathways for PCDHGA6 Gene

No Data Available

Interacting Proteins for PCDHGA6 Gene

STRING Interaction Network Preview (showing 5 interactants - click image to see 7)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000429601%0d%0a9606.ENSP00000344818%0d%0a9606.ENSP00000346155%0d%0a9606.ENSP00000344456%0d%0a9606.ENSP00000311113%0d%0a9606.ENSP00000362481%0d%0a
Selected Interacting proteins: ENSP00000429601 Q9Y5G7-PCDG6_HUMAN for PCDHGA6 Gene via STRING IID

Gene Ontology (GO) - Biological Process for PCDHGA6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion IEA,IBA --
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
GO:0007267 cell-cell signaling IBA --
GO:0007399 nervous system development IBA --
genes like me logo Genes that share ontologies with PCDHGA6: view

No data available for Pathways by source and SIGNOR curated interactions for PCDHGA6 Gene

Drugs & Compounds for PCDHGA6 Gene

(1) Drugs for PCDHGA6 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 PCDHGA6: view

Transcripts for PCDHGA6 Gene

mRNA/cDNA for PCDHGA6 Gene

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PCDHGA6 Gene

No ASD Table

Relevant External Links for PCDHGA6 Gene

GeneLoc Exon Structure for
PCDHGA6
ECgene alternative splicing isoforms for
PCDHGA6

Expression for PCDHGA6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PCDHGA6 Gene

Protein differential expression in normal tissues from HIPED for PCDHGA6 Gene

This gene is overexpressed in Plasma (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for PCDHGA6 Gene



Protein tissue co-expression partners for PCDHGA6 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PCDHGA6 Gene:

PCDHGA6
genes like me logo Genes that share expression patterns with PCDHGA6: view

Primer 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 PCDHGA6 Gene

Orthologs for PCDHGA6 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PCDHGA6 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PCDHGA6 34
  • 99.57 (n)
cow
(Bos Taurus)
Mammalia PCDHGA6 34
  • 83.5 (n)
dog
(Canis familiaris)
Mammalia PCDHGB3 34
  • 81.2 (n)
mouse
(Mus musculus)
Mammalia Pcdhga6 34 16
  • 81.13 (n)
rat
(Rattus norvegicus)
Mammalia LOC102552796 34
  • 80.68 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 69 (a)
ManyToMany
-- 35
  • 66 (a)
ManyToMany
-- 35
  • 66 (a)
ManyToMany
-- 35
  • 66 (a)
ManyToMany
-- 35
  • 64 (a)
ManyToMany
-- 35
  • 58 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 65 (a)
ManyToMany
-- 35
  • 64 (a)
ManyToMany
-- 35
  • 64 (a)
ManyToMany
chicken
(Gallus gallus)
Aves -- 35
  • 50 (a)
ManyToMany
-- 35
  • 50 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 57 (a)
ManyToMany
-- 35
  • 56 (a)
ManyToMany
-- 35
  • 55 (a)
ManyToMany
-- 35
  • 54 (a)
ManyToMany
-- 35
  • 54 (a)
ManyToMany
-- 35
  • 54 (a)
ManyToMany
-- 35
  • 53 (a)
ManyToMany
-- 35
  • 52 (a)
ManyToMany
Species where no ortholog for PCDHGA6 was found in the sources mined by GeneCards:
  • 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)
  • 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 PCDHGA6 Gene

ENSEMBL:
Gene Tree for PCDHGA6 (if available)
TreeFam:
Gene Tree for PCDHGA6 (if available)

Paralogs for PCDHGA6 Gene

genes like me logo Genes that share paralogs with PCDHGA6: view

Variants for PCDHGA6 Gene

Sequence variations from dbSNP and Humsavar for PCDHGA6 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs386352347 Uncertain significance 141,485,635(+) CCGTT(A/G)GAAAA intron-variant, reference, synonymous-codon
rs1002519 -- 141,489,436(-) GCCCA(A/G)TTGCA intron-variant, reference, synonymous-codon
rs10035418 -- 141,437,664(+) CGAAG(A/G)GATGT intron-variant
rs10038103 -- 141,414,849(+) CTGGA(C/T)CAGAA intron-variant, reference, synonymous-codon
rs10040701 -- 141,508,490(+) TTTCC(A/G)TATCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PCDHGA6 Gene

Variant ID Type Subtype PubMed ID
esv3606987 CNV gain 21293372
nsv1123990 CNV deletion 24896259
nsv1125852 CNV tandem duplication 24896259
nsv327707 CNV deletion 16902084
nsv462470 CNV loss 19166990
nsv518799 CNV loss 19592680
nsv519627 CNV loss 19592680
nsv599922 CNV loss 21841781
nsv599923 CNV loss 21841781
nsv823279 CNV gain 20364138
nsv823280 CNV loss 20364138
nsv968259 CNV duplication 23825009
nsv980740 CNV duplication 23825009
esv3606985 CNV gain 21293372
esv3606984 CNV loss 21293372
esv3422812 CNV insertion 20981092
esv2759382 CNV gain 17122850
esv2730847 CNV deletion 23290073
esv25744 CNV gain 19812545

Variation tolerance for PCDHGA6 Gene

Residual Variation Intolerance Score: 36.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.90; 59.22% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PCDHGA6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PCDHGA6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCDHGA6 Gene

Disorders for PCDHGA6 Gene

Relevant External Links for PCDHGA6

Genetic Association Database (GAD)
PCDHGA6
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PCDHGA6

No disorders were found for PCDHGA6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PCDHGA6 Gene

Publications for PCDHGA6 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 64
  2. A catalogue of putative HIV-1 protease host cell substrates. (PMID: 22944692) Impens F. … Gevaert K. (Biol. Chem. 2012) 3 64
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 4 64
  4. 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 64
  5. Comparative DNA sequence analysis of mouse and human protocadherin gene clusters. (PMID: 11230163) Wu Q. … Maniatis T. (Genome Res. 2001) 3 64

Products for PCDHGA6 Gene

Sources for PCDHGA6 Gene

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