PCDHA2 Gene
protein-coding GIFtS: 40
GCID: GC05P140160
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protocadherin alpha 2
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Aliases
for PCDHA2 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Protocadherin Alpha 21 2 | | PCDH-Alpha-21 | | PCDH-ALPHA22 | | KIAA0345-Like 122 | | Protocadherin Alpha-22 |
Export aliases for PCDHA2 gene to outside databasesPrevious GC identifers: GC05P139991 GC05P140749 GC05P140151 GC05P140206 GC05P140199 GC05P135319 |
Summaries
for PCDHA2 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for PCDHA2:
This gene is a member of the protocadherin alpha gene cluster, one of three related gene clusters tandemly linked onchromosome five that demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor geneclusters. The alpha gene cluster is composed of 15 cadherin superfamily genes related to the mouse CNR genes andconsists 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 inthe cluster. The large, uninterrupted N-terminal exons each encode six cadherin ectodomains while the C-terminal exonsencode the cytoplasmic domain. These neural cadherin-like cell adhesion proteins are integral plasma membrane proteinsthat most likely play a critical role in the establishment and function of specific cell-cell connections in thebrain. Alternative splicing has been observed and additional variants have been suggested but their full-length naturehas yet to be determined. (provided by RefSeq, Jul 2008)
UniProtKB/Swiss-Prot: PCDA2_HUMAN, Q9Y5H9Function: Potential calcium-dependent cell-adhesion protein. May be involved in the establishment and maintenance ofspecific neuronal connections in the brain
Gene Wiki entry for PCDHA2
|
Genomic Views
for PCDHA2 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the PCDHA2 gene promoter:
CUTL1 NF-AT NF-AT4 NF-AT2 COMP1 NF-AT3 c-Myb NF-kappaB1 NF-AT1
Other transcription factors
Search SABiosciences Chromatin IP Primers for PCDHA2
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat PCDHA2 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 5q31 Ensembl cytogenetic band: 5q31.3 HGNC cytogenetic band: 5q31PCDHA2 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 5 GeneLoc Exon Structure GeneLoc location for GC05P140160: view genomic region
(about GC identifiers)
Start:
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140,174,444 bp from pter |
End:
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140,391,929 bp from pter |
Size:
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217,486 bases |
Orientation:
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plus strand |
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Proteins
for PCDHA2 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: PCDA2_HUMAN, Q9Y5H9 (See
protein sequence)Recommended Name: Protocadherin alpha-2 precursor Size: 948 amino acids; 102063 Da
Subcellular location: Cell membrane; Single-pass type I membrane protein (By similarity)
Secondary accessions: O75287 Q9BTV3Alternative splicing: 3 isoforms: Q9Y5H9-1 Q9Y5H9-2 Q9Y5H9-3 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for PCDHA2: NX_Q9Y5H9
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9Y5H9
PCDHA2 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (2 alternative transcripts):
NP_061728.1 NP_113683.1
ENSEMBL proteins: ENSP00000430584 ENSP00000431748 ENSP00000367372
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table
PCDHA2 for ontologies About GeneDecksing
PCDHA2 Antibody Products:
Assay Products for PCDHA2: |
Protein
Domains /
Families
for PCDHA2 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
PCDHA2 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q9Y5H9ProtoNet protein and cluster: Q9Y5H9 1 Blocks protein family: IPB002126 Cadherin
UniProtKB/Swiss-Prot: PCDA2_HUMAN, Q9Y5H9Similarity: Contains 6 cadherin domains |
Function
for PCDHA2 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: PCDA2_HUMAN, Q9Y5H9Function: Potential calcium-dependent cell-adhesion protein. May be involved in the establishment and maintenance ofspecific neuronal connections in the brain
Clone
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PCDHA2 |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005509 | calcium ion binding |
IEA | -- |
PCDHA2 for ontologies About GeneDecksing
|
Pathways & Interactions
for PCDHA2 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for PCDHA2
STRING Interaction
Network Preview (showing 1 interactants - click image to see more details)
1 Interacting protein for PCDHA2 (Q9Y5H93 ENSP000003673724) via UniProtKB, MINT, STRING, and/or I2DAbout this table
Gene Ontology (GO): 3 biological process terms (GO ID links to tree view): About this table
PCDHA2 for ontologies About GeneDecksing
|
Drugs & Compounds
for PCDHA2 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for PCDHA2
1 HMDB Compound for PCDHA2 About this table
Search CenterWatch for drugs/clinical trials and news about PCDHA2 / PCDA2
|
Transcripts
for PCDHA2 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for PCDHA2 gene (3 alternative transcripts): NM_018905.2 NM_031495.1 NM_031496.1 3 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000520672(uc011czy.2) ENST00000526136(uc003lhd.2) ENST00000378132(uc003lhc.1)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for PCDHA2 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for PCDHA2 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 2): PCDHA2 (NM_031495) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for PCDHA2 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PCDHA2 |
24/261 AceView cDNA sequences (see all 261): NM_031857 NM_031864 AI969295 NM_018904 AF152486 NM_031501 AF152309 NM_031856 AF152312 NM_031496 BC033735 AW572498 AF152306 AA757839 NM_031410 NM_031852 NM_031848 AF169695 AF152314 F05011 BM719606 NM_018909 AF152305 NM_031865
GeneLoc Exon Structure
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Expression
for PCDHA2 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| PCDHA2 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See PCDHA2 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for PCDHA2
SABiosciences Custom PCR Arrays for PCDHA2
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for PCDHA2
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat PCDHA2 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat PCDHA2 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PCDHA2 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PCDHA2 |
Orthologs
for PCDHA2 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of animals.
Orthologs for PCDHA2 gene from 4/14 species (see all 14) About this table
ENSEMBL Gene Tree for PCDHA2 (if available)
TreeFam Gene Tree for PCDHA2 (if available) |
Paralogs
for PCDHA2 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for PCDHA2 gene
- PCDHAC12 PCDHB162 PCDHB22 PCDHAC22 PCDHB72 PCDHB152 PCDHGA102 PCDHGA122
- PCDHGB22 PCDHGA82 PCDHGA92 PCDHGB32 PCDHGC32 PCDHGB62 PCDHA62 PCDHGA52
- PCDHA82 PCDHA132 PCDHB52 PCDHB132 PCDHA32 PCDHGA42 PCDHGA72 PCDHA42
- PCDHB42 PCDHB112 ENSG000002556222 PCDHB142 PCDHB122 PCDHA122 PCDHB82 PCDHA52
- PCDHGB12 PCDHGB42 PCDHA12 PCDHGA22 PCDHA112 PCDHA72 PCDHGA112 PCDHGA62
- PCDHB32 PCDHB62 PCDHGC52 PCDHGC42 PCDHA102 PCDHA92 PCDHGA12 PCDHB102
- PCDHB12 PCDHGA32 PCDHGB72
18/61 SIMAP similar genes for PCDHA2 using alignment to 1 protein entry: PCDA2_HUMAN(see all similar genes):PCDHA4 PCDHA1 PCDHA11 PCDHA5 PCDHA6 PCDHA7
PCDHA9 PCDHA13 PCDHA3 PCDHA10 PCDHA8 PCDHA12
PCDHB17 PCDHAC2 PCDHB1 PCDHB14 PCDHGA3 DKFZp586I1919
PCDHA2 for paralogs About GeneDecksing
|
Genomic Variants
for PCDHA2 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 23 variations for PCDHA2
15/22 CNVs (see all 22): 93255 32748 1701 64320 53833 59240 3578 31248 31250 81058 31249 64319 6449 62437 51579
1 Indel: 64317 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing PCDHA2 |
|
Disorders
/ Diseases
for PCDHA2 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
PCDHA2 for disorders About GeneDecksing
OMIM gene information: 606308
OMIM disorders: --
1  disease for PCDHA2: About MalaCardsneuronitis
Export disorders for PCDHA2 gene to outside databases
|
Publications
for PCDHA2 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for PCDHA2 gene, integrated from 9 sources (see all 13):
(articles sorted by number of sources associating them with PCDHA2) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- A striking organization of a large family of human neural cadherin- like cell adhesion genes. (PubMed id 10380929)1, 2, 3 Wu Q. and Maniatis T. (1999)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- The DNA sequence and comparative analysis of human chromosome 5. (PubMed id 15372022)1, 2 Schmutz J.... Rubin E.M. (2004)
- Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptides. (PubMed id 12665801)1, 2 Gevaert K.... Vandekerckhove J. (2003)
- A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
- Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women. (PubMed id 22589738)1 Fox C.S....Borecki I.B. (2012)
- Systematic identification of SH3 domain-mediated human protein-protein interactions by peptide array target screening. (PubMed id 17474147)1 Wu C....Li S.S. (2007)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
- Comparative DNA sequence analysis of mouse and human protocadherin gene clusters. (PubMed id 11230163)1 Wu Q.... Maniatis T. (2001)
- Phylogenetic analysis of the cadherin superfamily allows identification of six major subfamilies besides several solitary members. (PubMed id 10835267)1 Nollet F....van Roy F. (2000)
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External Searches for PCDHA2 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing PCDHA2 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing PCDHA2 gene
(According to HUGE)
About This Section
| |
Specialized Databases showing PCDHA2 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for PCDHA2 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for PCDHA2 gene:
Search GeneIP for patents involving PCDHA2
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for PCDHA2 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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variant library, vector shuttling | | | OriGene Custom Antibody Services for PCDHA2 | | OriGene Custom Protein Services for PCDHA2 | | | OriGene Custom Immunoassay Development | | |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat PCDHA2 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing PCDHA2 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat PCDHA2 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat PCDHA2 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PCDHA2 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat PCDHA2 |
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| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PCDHA2 |
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