PCDHG@ Cluster
gene cluster GIFtS: 13
GCID: GC05U990121
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protocadherin gamma cluster
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Aliases
for PCDHG@ gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
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| Aliases |
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| Protocadherin Gamma Cluster1 2 | | PCDH21 2 | | PCDH41 2 | | PCDHG2 5 |
Export aliases for PCDHG@ gene to outside databasesPrevious GC identifers: GC05P141095 GC05P141129 |
Summaries
for PCDHG@ 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 PCDHG@:
The protocadherin gamma gene cluster is one of three related clusters tandemly linked on chromosome five. The clustershave an immunoglobulin-like organization, suggesting that a novel mechanism may be involved in their regulation andexpression. The gamma cluster includes 22 genes divided into 3 subfamilies, all part of the cadherin superfamily.Subfamily A contains 12 genes, subfamily B contains 7 genes and 2 pseudogenes, and the more distantly relatedsubfamily C contains 3 genes. In addition, ORNT2 and TAF2F are included in the cluster due to their localizationbetween protocadherin clusters beta and gamma on chromosome five. The protocadherin genes are organized in a tandemarray of 22 large, variable region exons followed by a constant region, which contains 3 exons shared by allprotocadherin genes in the cluster. Each variable region exon encodes an extracellular domain comprised of 6 cadherinectodomains and a transmembrane region. The constant region exons encode a common cytoplasmic tail. These neuraladhesion proteins most likely play a critical role in the establishment and function of specific cell-cell connectionsin the brain. Alternative splicing has been described for the gamma cluster genes. (provided by RefSeq, Jul 2008)
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Genomic Views
for PCDHG@ 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:
 Search SABiosciences Regulatory transcription factor binding sites for PCDHG@
Other transcription factors
Search SABiosciences Chromatin IP Primers for PCDHG@
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat PCDHG@ |
Genomic Location:
Chromosome:5
Entrez Gene cytogenetic band: 5q31 HGNC cytogenetic band: 5q31GeneLoc information about chromosome 5 |
Proteins
for PCDHG@ 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)
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UniProtKB: --
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Protein
Domains /
Families
for PCDHG@ gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
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Function
for PCDHG@ 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.)
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|
Pathways & Interactions
for PCDHG@ 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
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Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for PCDHG@
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Drugs & Compounds
for PCDHG@ 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 PCDHG@
Search CenterWatch for drugs/clinical trials and news about PCDHG@ 
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Transcripts
for PCDHG@ 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
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Expression
for PCDHG@ 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
| See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --
SABiosciences Custom PCR Arrays for PCDHG@
Primer
Products: |  | Browse OriGene genome-wide validated SYBR primer pairs
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat PCDHG@ | | | Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat PCDHG@ | | | Search QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PCDHG@ |
Orthologs
for PCDHG@ 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
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Paralogs
for PCDHG@ gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
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Genomic Variants
for PCDHG@ 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
| | SABiosciences Cancer Mutation PCR Assays |
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Disorders
/ Diseases
for PCDHG@ 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
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PCDHG@ for disorders About GeneDecksing
OMIM gene information: 604968
OMIM disorders: --
3  diseases for PCDHG@: About MalaCardspineoblastoma wilms tumor neuronitis
Export disorders for PCDHG@ gene to outside databases
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Publications
for PCDHG@ 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
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PubMed articles for PCDHG@ gene, integrated from 9 sources (see all 11):
(articles sorted by number of sources associating them with PCDHG@) | |  | 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, 3 Wu Q. and Maniatis T. (1999)
- Frequent long-range epigenetic silencing of protocadh erin gene clusters on chromosome 5q31 in Wilms' tumor. (PubMed id 19956686)1, 9 Dallosso A.R....Malik K. (2009)
- 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)
- Large exons encoding multiple ectodomains are a characteristic feature of protocadherin genes. (PubMed id 10716726)1 Wu Q. and Maniatis T. (2000)
- Cadherin superfamily genes: functions, genomic organization, and neurologic diversity. (PubMed id 10817752)1 Yagi T. and Takeichi M. (2000)
- Differential expression of individual gamma-protocadh erins during mouse brain development. (PubMed id 15964765)9 Frank M....Kemler R. (2005)
- The b1 isoform of protocadherin-gamma (Pcdhgamma) interacts with the microtubule-destabilizing protein SCG10. (PubMed id 15581637)9 Gayet O....Kallenbach S. (2004)
- Control of CNS synapse development by {gamma}-protoca dherin-mediated astrocyte-neuron contact. (PubMed id 19776259)9 Garrett A.M. and Weiner J.A. (2009)
- Gamma protocadherin expression in the embryonic chick nervous system. (PubMed id 17200686)9 Cronin K.D. and Capehart A.A. (2007)
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External Searches for PCDHG@ gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
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Genome Databases showing PCDHG@ gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
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Other Databases showing PCDHG@ gene
(According to HUGE)
About This Section
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Specialized Databases showing PCDHG@ 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 PCDHG@ | Pharmacogenomics, SNPs, Pathways |
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About This Section
| Patent Information for PCDHG@ gene:
Search GeneIP for patents involving PCDHG@
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
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Products
for PCDHG@ 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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|  | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat PCDHG@ | | | Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing PCDHG@ | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat PCDHG@ | | | Search QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat PCDHG@ | | | Search QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PCDHG@ | | | Search QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat PCDHG@ |
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| | | | Search Tocris compounds for PCDHG@ |
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 | | | | |  |  |  | | | | Search ThermoFisher Antibodies for PCDHG@ |
| | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat PCDHG@ |
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