Free for academic non-profit institutions. Other users need a Commercial license

Aliases for PCDHGC5 Gene

Aliases for PCDHGC5 Gene

  • Protocadherin Gamma Subfamily C, 5 2 3 5
  • Protocadherin Gamma-C5 3
  • PCDH-GAMMA-C5 3
  • PCDH-Gamma-C5 4

External Ids for PCDHGC5 Gene

Previous GeneCards Identifiers for PCDHGC5 Gene

  • GC05P140593
  • GC05P141321
  • GC05P140718
  • GC05P140776
  • GC05P140797
  • GC05P140736
  • GC05P140745
  • GC05P140820
  • GC05P140849
  • GC05P140862
  • GC05P140888
  • GC05P140910
  • GC05P140937
  • GC05P140959
  • GC05P140980
  • GC05P141006
  • GC05P141020
  • GC05P141031
  • GC05P141071
  • GC05P136013
  • GC05P141123
  • GC05P141158
  • GC05P141189
  • GC05P141222
  • GC05P141262
  • GC05P141339
  • GC05P141396
  • GC05P141490
  • GC05P141552
  • GC05P141647
  • GC05P141746
  • GC05P141845
  • GC05P141953
  • GC05P142054
  • GC05P142160

Summaries for PCDHGC5 Gene

Entrez Gene Summary for PCDHGC5 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 PCDHGC5 Gene

PCDHGC5 (Protocadherin Gamma Subfamily C, 5) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include calcium ion binding. An important paralog of this gene is PCDHGC4.

UniProtKB/Swiss-Prot for PCDHGC5 Gene

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

Additional gene information for PCDHGC5 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PCDHGC5 Gene

Genomics for PCDHGC5 Gene

GeneHancer (GH) Regulatory Elements for PCDHGC5 Gene

Promoters and enhancers for PCDHGC5 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH05J141506 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 663.1 +27.4 27357 20 HDGF PKNOX1 FOXA2 MLX ARID4B SIN3A FEZF1 ZNF2 IRF4 YY1 PCDHGC5 PCDHGC4 PCDHGA7 DIAPH1 PCDHGB6 PCDHGA2 HARS2 PCDHGA11 PCDHB18P IK
GH05J141475 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 650.4 -12.1 -12067 3.8 PKNOX1 NFIB SIN3A BATF RAD21 RFX5 YY1 ZNF335 ZNF143 BCLAF1 PCDHGC3 PCDHGC5 PCDHGA6 ARAP3 PCDHGA2 HDAC3 PCDHGA1 RN7SL68P PCDHGA12 PCDHGA11
GH05J141493 Promoter/Enhancer 1.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 650.4 +6.0 6034 3.2 POLR2A GLIS1 FOXP2 ZIC2 PCDHGC5 ENSG00000272070 CD14 PCDHB2 DIAPH1 RELL2 TAF7 PCDHB16 PCDHGC4 PCDHGC3
GH05J141488 Promoter/Enhancer 0.7 EPDnew ENCODE 650.7 0.0 -48 1.6 PCDHGC5 PCDHGA2 GC05P142306 PCDHGC4 PIR35622 PCDHGC3 PCDHGA12 PCDHGA11 PCDHGB7 PCDHGA10
GH05J141372 Promoter 0.5 EPDnew 650.1 -116.6 -116569 0.1 PCDHGA6 PCDHGC5 PCDHGB3 PCDHGA5 PCDHGB2 PCDHGA4 PCDHGB1 PCDHGA3 PCDHGA2 PCDHG@
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around PCDHGC5 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PCDHGC5 gene promoter:

Genomic Locations for PCDHGC5 Gene

Genomic Locations for PCDHGC5 Gene
chr5:141,489,121-141,512,979
(GRCh38/hg38)
Size:
23,859 bases
Orientation:
Plus strand
chr5:140,868,808-140,892,546
(GRCh37/hg19)

Genomic View for PCDHGC5 Gene

Genes around PCDHGC5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PCDHGC5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PCDHGC5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCDHGC5 Gene

Proteins for PCDHGC5 Gene

  • Protein details for PCDHGC5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5F6-PCDGM_HUMAN
    Recommended name:
    Protocadherin gamma-C5
    Protein Accession:
    Q9Y5F6
    Secondary Accessions:
    • Q9Y5C2

    Protein attributes for PCDHGC5 Gene

    Size:
    944 amino acids
    Molecular mass:
    101921 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PCDHGC5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PCDHGC5 Gene

Post-translational modifications for PCDHGC5 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PCDHGC5 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PCDHGC5 Gene

Domains & Families for PCDHGC5 Gene

Gene Families for PCDHGC5 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for PCDHGC5 Gene

Suggested Antigen Peptide Sequences for PCDHGC5 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with PCDHGC5: view

No data available for UniProtKB/Swiss-Prot for PCDHGC5 Gene

Function for PCDHGC5 Gene

Molecular function for PCDHGC5 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 PCDHGC5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with PCDHGC5: view
genes like me logo Genes that share phenotypes with PCDHGC5: view

Animal Model Products

CRISPR Products

miRNA for PCDHGC5 Gene

miRTarBase miRNAs that target PCDHGC5

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PCDHGC5

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PCDHGC5 Gene

Localization for PCDHGC5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCDHGC5 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 PCDHGC5 gene
Compartment Confidence
extracellular 5
plasma membrane 3

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
  • Nucleus (2)
  • Plasma membrane (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PCDHGC5 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 --
GO:0070062 extracellular exosome HDA --
genes like me logo Genes that share ontologies with PCDHGC5: view

Pathways & Interactions for PCDHGC5 Gene

SuperPathways for PCDHGC5 Gene

No Data Available

Gene Ontology (GO) - Biological Process for PCDHGC5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion IBA --
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
GO:0007267 cell-cell signaling IBA --
GO:0007399 nervous system development IBA --
GO:0050808 synapse organization IEA --
genes like me logo Genes that share ontologies with PCDHGC5: view

No data available for Pathways by source and SIGNOR curated interactions for PCDHGC5 Gene

Drugs & Compounds for PCDHGC5 Gene

(1) Drugs for PCDHGC5 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Approved Nutra 0
genes like me logo Genes that share compounds with PCDHGC5: view

Transcripts for PCDHGC5 Gene

mRNA/cDNA for PCDHGC5 Gene

(737) Selected AceView cDNA sequences:
(2) REFSEQ mRNAs :
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PCDHGC5

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PCDHGC5 Gene

No ASD Table

Relevant External Links for PCDHGC5 Gene

GeneLoc Exon Structure for
PCDHGC5
ECgene alternative splicing isoforms for
PCDHGC5

Expression for PCDHGC5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PCDHGC5 Gene

mRNA differential expression in normal tissues according to GTEx for PCDHGC5 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x6.5), Brain - Nucleus accumbens (basal ganglia) (x6.4), Brain - Anterior cingulate cortex (BA24) (x6.0), and Brain - Cortex (x5.1).

Protein differential expression in normal tissues from HIPED for PCDHGC5 Gene

This gene is overexpressed in Cerebrospinal fluid (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PCDHGC5 Gene



Protein tissue co-expression partners for PCDHGC5 Gene

NURSA nuclear receptor signaling pathways regulating expression of PCDHGC5 Gene:

PCDHGC5

Evidence on tissue expression from TISSUES for PCDHGC5 Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with PCDHGC5: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PCDHGC5 Gene

Orthologs for PCDHGC5 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PCDHGC5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PCDHGC5 33
  • 99.61 (n)
mouse
(Mus musculus)
Mammalia Pcdhga9 34
  • 93 (a)
OneToOne
Pcdhgc5 16 33
  • 88.45 (n)
dog
(Canis familiaris)
Mammalia PCDHGC5 34
  • 93 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Pcdhgc5 33
  • 88.27 (n)
chicken
(Gallus gallus)
Aves -- 34
  • 42 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia pcdhga11 33
  • 58.33 (n)
zebrafish
(Danio rerio)
Actinopterygii pcdh1g26 34
  • 47 (a)
ManyToMany
BX119910.6 34
  • 46 (a)
ManyToMany
BX119910.4 34 34
  • 46 (a)
ManyToMany
BX119910.9 34
  • 45 (a)
ManyToMany
pcdh1g32 34
  • 45 (a)
ManyToMany
zgc:162322 34
  • 45 (a)
ManyToMany
BX119910.3 34
  • 45 (a)
ManyToMany
pcdh1g22 34
  • 44 (a)
ManyToMany
pcdh1gc5 34
  • 38 (a)
ManyToMany
Species where no ortholog for PCDHGC5 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)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PCDHGC5 Gene

ENSEMBL:
Gene Tree for PCDHGC5 (if available)
TreeFam:
Gene Tree for PCDHGC5 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PCDHGC5: view image

Paralogs for PCDHGC5 Gene

genes like me logo Genes that share paralogs with PCDHGC5: view

Variants for PCDHGC5 Gene

Sequence variations from dbSNP and Humsavar for PCDHGC5 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000138324 -- 141,499,091(+) A/C genic_downstream_transcript_variant, intron_variant
rs1000330093 -- 141,511,812(+) C/T 3_prime_UTR_variant, genic_downstream_transcript_variant
rs1000400491 -- 141,499,457(+) T/G genic_downstream_transcript_variant, intron_variant
rs1000447569 -- 141,494,026(+) G/A genic_downstream_transcript_variant, intron_variant
rs1000450107 -- 141,494,141(+) G/A genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PCDHGC5 Gene

Variant ID Type Subtype PubMed ID
esv25744 CNV gain 19812545
nsv462470 CNV loss 19166990
nsv599923 CNV loss 21841781

Variation tolerance for PCDHGC5 Gene

Residual Variation Intolerance Score: 5.78% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.76; 78.90% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PCDHGC5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PCDHGC5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCDHGC5 Gene

Disorders for PCDHGC5 Gene

Additional Disease Information for PCDHGC5

No disorders were found for PCDHGC5 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PCDHGC5 Gene

Publications for PCDHGC5 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 58
  2. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. (PMID: 23376485) Prunotto M … Moll S (Journal of proteomics 2013) 3 58
  3. Interactions of pathological hallmark proteins: tubulin polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PMID: 21832049) Oláh J … Ovádi J (The Journal of biological chemistry 2011) 3 58
  4. Toward a confocal subcellular atlas of the human proteome. (PMID: 18029348) Barbe L … Andersson-Svahn H (Molecular & cellular proteomics : MCP 2008) 3 58
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 3 58

Products for PCDHGC5 Gene

Sources for PCDHGC5 Gene

Content
Loading form....