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

Aliases for PCDHA2 Gene

Aliases for PCDHA2 Gene

  • Protocadherin Alpha 2 2 3
  • KIAA0345-Like 12 2 3
  • Protocadherin Alpha-2 3
  • PCDH-Alpha-2 4

External Ids for PCDHA2 Gene

Summaries for PCDHA2 Gene

Entrez Gene Summary for PCDHA2 Gene

  • This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked on chromosome five that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes and consists of 13 highly similar and 2 more distantly related coding sequences. The tandem array of 15 N-terminal exons, or variable exons, are followed by downstream C-terminal exons, or constant exons, which are shared by all genes in the cluster. The large, uninterrupted N-terminal exons each encode six cadherin ectodomains while the C-terminal exons encode the cytoplasmic domain. These neural cadherin-like cell adhesion proteins are integral plasma membrane proteins that most likely play a critical role in the establishment and function of specific cell-cell connections in the brain. Alternative splicing has been observed and additional variants have been suggested but their full-length nature has yet to be determined. [provided by RefSeq, Jul 2008]

GeneCards Summary for PCDHA2 Gene

PCDHA2 (Protocadherin Alpha 2) is a Protein Coding gene. GO annotations related to this gene include calcium ion binding. An important paralog of this gene is PCDH7.

UniProtKB/Swiss-Prot for PCDHA2 Gene

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

Gene Wiki entry for PCDHA2 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PCDHA2 Gene

Genomics for PCDHA2 Gene

Genomic Location for PCDHA2 Gene

140,794,852 bp from pter
141,012,344 bp from pter
217,493 bases
Plus strand

Genomic View for PCDHA2 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for PCDHA2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCDHA2 Gene

Regulatory Elements for PCDHA2 Gene

Proteins for PCDHA2 Gene

  • Protein details for PCDHA2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protocadherin alpha-2
    Protein Accession:
    Secondary Accessions:
    • O75287
    • Q9BTV3

    Protein attributes for PCDHA2 Gene

    948 amino acids
    Molecular mass:
    102063 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PCDHA2 Gene


neXtProt entry for PCDHA2 Gene

Proteomics data for PCDHA2 Gene at MOPED

Post-translational modifications for PCDHA2 Gene

  • Modification sites at PhosphoSitePlus
  • Glycosylation at Asn257, Asn265, Asn362, and Asn548

Other Protein References for PCDHA2 Gene

No data available for DME Specific Peptides for PCDHA2 Gene

Domains for PCDHA2 Gene

Gene Families for PCDHA2 Gene

  • PCDHC :Cadherins / Protocadherins : Clustered

Protein Domains for PCDHA2 Gene


  • Contains 6 cadherin domains.:
    • Q9Y5H9
genes like me logo Genes that share domains with PCDHA2: view

Function for PCDHA2 Gene

Molecular function for PCDHA2 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 PCDHA2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with PCDHA2: view

miRNA for PCDHA2 Gene

miRTarBase miRNAs that target PCDHA2

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for PCDHA2 Gene

Localization for PCDHA2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCDHA2 Gene

Cell membrane; Single-pass type I membrane protein.

Subcellular locations from

Jensen Localization Image for PCDHA2 Gene COMPARTMENTS Subcellular localization image for PCDHA2 gene
Compartment Confidence
plasma membrane 5
cytosol 1
extracellular 1
mitochondrion 1
nucleus 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for PCDHA2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005887 integral component of plasma membrane TAS 10380929
GO:0016020 membrane --
genes like me logo Genes that share ontologies with PCDHA2: view

Pathways for PCDHA2 Gene

SuperPathways for PCDHA2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for PCDHA2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion TAS 10380929
GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules IEA --
GO:0007399 nervous system development TAS 10380929
genes like me logo Genes that share ontologies with PCDHA2: view

No data available for Pathways by source for PCDHA2 Gene

Compounds for PCDHA2 Gene

(1) HMDB Compounds for PCDHA2 Gene

Compound Synonyms Cas Number PubMed IDs
  • Ca
genes like me logo Genes that share compounds with PCDHA2: view

Transcripts for PCDHA2 Gene

Alternative Splicing Database (ASD) splice patterns (SP) for PCDHA2 Gene

No ASD Table

Relevant External Links for PCDHA2 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PCDHA2 Gene

mRNA expression in normal human tissues for PCDHA2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PCDHA2 Gene

This gene is overexpressed in Brain - Cerebellum (5.6), Brain - Cerebellar Hemisphere (4.7), and Pituitary (4.6).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for PCDHA2 Gene

genes like me logo Genes that share expressions with PCDHA2: view

Orthologs for PCDHA2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PCDHA2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia PCDHA2 36
  • 99.33 (n)
  • 99.05 (a)
(Mus musculus)
Mammalia Pcdha2 36
  • 84.74 (n)
  • 88.01 (a)
Pcdha2 16
(Monodelphis domestica)
Mammalia -- 37
  • 63 (a)
(Ornithorhynchus anatinus)
Mammalia -- 37
  • 66 (a)
-- 37
  • 68 (a)
-- 37
  • 70 (a)
(Rattus norvegicus)
Mammalia Pcdha2 36
  • 84.09 (n)
  • 86.83 (a)
(Gallus gallus)
Aves -- 37
  • 48 (a)
PCDHA11 37
  • 54 (a)
  • 66.15 (n)
  • 60.42 (a)
(Anolis carolinensis)
Reptilia -- 37
  • 53 (a)
-- 37
  • 55 (a)
-- 37
  • 54 (a)
-- 37
  • 53 (a)
-- 37
  • 55 (a)
-- 37
  • 55 (a)
-- 37
  • 54 (a)
-- 37
  • 54 (a)
-- 37
  • 55 (a)
-- 37
  • 55 (a)
-- 37
  • 55 (a)
-- 37
  • 55 (a)
-- 37
  • 56 (a)
-- 37
  • 55 (a)
-- 37
  • 51 (a)
-- 37
  • 54 (a)
(Danio rerio)
Actinopterygii CR847851.6 37
  • 41 (a)
CR847851.8 37
  • 41 (a)
CT573264.4 37
  • 41 (a)
CT573264.5 37
  • 42 (a)
pcdh1a6 37
  • 42 (a)
pcdh2ab1 37
  • 43 (a)
pcdh2ab10 37
  • 41 (a)
pcdh2ab11 37
  • 41 (a)
pcdh2ab12 37
  • 42 (a)
pcdh2ab2 37
  • 41 (a)
pcdh2ab2 37
  • 41 (a)
pcdh2ab3 37
  • 42 (a)
pcdh2ab6 37
  • 42 (a)
pcdh2ab7 37
  • 41 (a)
pcdh2ab8 37
  • 43 (a)
pcdh2ab9 37
  • 41 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 33 (a)
CSA.7308 37
  • 20 (a)
Species with no ortholog for PCDHA2:
  • 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)
  • 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 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)

Evolution for PCDHA2 Gene

Gene Tree for PCDHA2 (if available)
Gene Tree for PCDHA2 (if available)

Paralogs for PCDHA2 Gene

genes like me logo Genes that share paralogs with PCDHA2: view

Variants for PCDHA2 Gene

Sequence variations from dbSNP and Humsavar for PCDHA2 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type MAF
VAR_024389 -
VAR_048523 -
VAR_059179 -

Structural Variations from Database of Genomic Variants (DGV) for PCDHA2 Gene

Variant ID Type Subtype PubMed ID
nsv830508 CNV Loss 17160897
nsv882950 CNV Loss 21882294
dgv6343n71 CNV Loss 21882294
dgv1856e1 CNV Complex 17122850
dgv1857e1 CNV Complex 17122850
nsv882952 CNV Loss 21882294
dgv6344n71 CNV Loss 21882294
dgv970n67 CNV Gain 20364138
nsv330045 CNV Loss 16902084
esv8310 CNV Loss 19470904
esv2659321 CNV Deletion 23128226
nsv882956 CNV Loss 21882294
nsv882957 CNV Loss 21882294
dgv6345n71 CNV Loss 21882294
nsv882960 CNV Gain 21882294
esv2730838 CNV Deletion 23290073
nsv10752 CNV Gain+Loss 18304495
dgv6346n71 CNV Loss 21882294
esv21596 CNV Gain 19812545
nsv882965 CNV Gain+Loss 21882294
nsv436885 CNV Insertion 17901297
esv27071 CNV Loss 19812545
esv33939 CNV Gain+Loss 17666407
dgv6347n71 CNV Loss 21882294
nsv823251 CNV Gain 20364138
dgv1043e199 CNV Deletion 23128226
esv2730839 CNV Deletion 23290073
esv26168 CNV Gain 19812545
dgv971n67 CNV Loss 20364138
nsv820841 CNV Deletion 20802225
nsv10753 CNV Gain 18304495
nsv819207 CNV Gain 19587683
dgv972n67 CNV Gain 20364138
dgv1044e199 CNV Deletion 23128226
esv29977 CNV Gain 17803354
nsv514324 CNV Loss 21397061
esv2421858 CNV Deletion 20811451
nsv442962 CNV CNV 18776908
dgv724n27 CNV Loss 19166990
nsv437955 CNV Loss 16468122
nsv515909 CNV Loss 19592680
esv2657537 CNV Deletion 23128226
nsv823262 CNV Gain 20364138
nsv823263 CNV Gain 20364138
nsv823264 CNV Gain 20364138
nsv882970 CNV Loss 21882294
nsv10754 CNV Gain 18304495
esv2505753 CNV Deletion 19546169

Relevant External Links for PCDHA2 Gene

HapMap Linkage Disequilibrium report

Disorders for PCDHA2 Gene

Relevant External Links for PCDHA2

Genetic Association Database (GAD)
genes like me logo Genes that share disorders with PCDHA2: view

No data available for UniProtKB/Swiss-Prot for PCDHA2 Gene

Publications for PCDHA2 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. Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptides. (PMID: 12665801) Gevaert K. … Vandekerckhove J. (Nat. Biotechnol. 2003) 3 4
  3. The DNA sequence and comparative analysis of human chromosome 5. (PMID: 15372022) Schmutz J. … Rubin E.M. (Nature 2004) 3 4
  4. 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) 3 4
  5. Systematic identification of SH3 domain-mediated human protein-protein interactions by peptide array target screening. (PMID: 17474147) Wu C. … Li S.S. (Proteomics 2007) 3

Products for PCDHA2 Gene

Sources for PCDHA2 Gene

Back to Top