PCDHGB5 Gene
protein-coding GIFtS: 32
GCID: GC05P141244
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protocadherin gamma subfamily B, 5
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Aliases
for PCDHGB5 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Protocadherin Gamma Subfamily B, 51 2 | | PCDH-GAMMA-B51 2 | | Protocadherin Gamma-B52 | | PCDH-Gamma-B51 |
Export aliases for PCDHGB5 gene to outside databasesPrevious GC identifers: GC05P140594 GC05P141311 GC05P140713 GC05P140771 GC05P140792 GC05P140731 GC05P140808 GC05P140828 GC05P140845 GC05P140870 GC05P140877 GC05P140897 GC05P140930 GC05P140952 GC05P140973 GC05P140995 GC05P141025 GC05P141043 GC05P141070 GC05P141090 GC05P141109 GC05P141151 GC05P141168 GC05P141204 |
Summaries
for PCDHGB5 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 PCDHGB5:
This gene is a member of the protocadherin gamma gene cluster, one of three related clusters tandemly linked onchromosome five. These gene clusters have an immunoglobulin-like organization, suggesting that a novel mechanism maybe 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 relatedsubfamily 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 commoncytoplasmic region. These neural cadherin-like cell adhesion proteins most likely play a critical role in theestablishment and function of specific cell-cell connections in the brain. Alternative splicing has been described forthe gamma cluster genes. (provided by RefSeq, Jul 2008)
UniProtKB/Swiss-Prot: PCDGH_HUMAN, Q9Y5G0Function: Potential calcium-dependent cell-adhesion protein. May be involved in the establishment and maintenance ofspecific neuronal connections in the brain
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Genomic Views
for PCDHGB5 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 PCDHGB5 gene promoter:
p300 Pax-2 FOXD3 Pax-2a FOXL1 Max Egr-2 COMP1 c-Myc
Other transcription factors
Search SABiosciences Chromatin IP Primers for PCDHGB5
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat PCDHGB5 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 5q31 HGNC cytogenetic band: 5q31PCDHGB5 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 GC05P141244: view genomic region
(about GC identifiers)
Start:
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140,777,695 bp from pter |
End:
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140,892,546 bp from pter |
Size:
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114,852 bases |
Orientation:
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plus strand |
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Proteins
for PCDHGB5 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: PCDGH_HUMAN, Q9Y5G0 (See
protein sequence)Recommended Name: Protocadherin gamma-B5 precursor Size: 923 amino acids; 99875 Da
Subcellular location: Cell membrane; Single-pass type I membrane protein (By similarity)
Secondary accessions: Q52LK8 Q9Y5C6Alternative splicing: 2 isoforms: Q9Y5G0-1 Q9Y5G0-2 Explore the universe of human proteins at neXtProt for PCDHGB5: NX_Q9Y5G0
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9Y5G0
PCDHGB5 Protein expression data from MOPED and PaxDb: --
REFSEQ proteins (2 alternative transcripts):
NP_061748.1 NP_115270.1
Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005886 | plasma membrane |
IEA | -- | | GO:0016021 | integral to membrane |
IEA | -- |
PCDHGB5 for ontologies About GeneDecksing
PCDHGB5 Antibody Products:
Assay Products for PCDHGB5: |
Protein
Domains /
Families
for PCDHGB5 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
PCDHGB5 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q9Y5G0ProtoNet protein and cluster: Q9Y5G0 1 Blocks protein family: IPB002126 Cadherin
UniProtKB/Swiss-Prot: PCDGH_HUMAN, Q9Y5G0Similarity: Contains 6 cadherin domains |
Function
for PCDHGB5 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: PCDGH_HUMAN, Q9Y5G0Function: 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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OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for PCDHGB5 (see all 2)
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PCDHGB5 |
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 | -- |
PCDHGB5 for ontologies About GeneDecksing
|
Pathways & Interactions
for PCDHGB5 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 PCDHGB5
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0007156 | homophilic cell adhesion |
IEA | -- |
PCDHGB5 for ontologies About GeneDecksing
|
Drugs & Compounds
for PCDHGB5 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 PCDHGB5
1 HMDB Compound for PCDHGB5 About this table
Search CenterWatch for drugs/clinical trials and news about PCDHGB5 / PCDGH
|
Transcripts
for PCDHGB5 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 PCDHGB5 gene (2 alternative transcripts): NM_018925.2 NM_032099.1
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for PCDHGB5 (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for PCDHGB5 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
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Synthesis Service for PCDHGB5 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PCDHGB5 |
24/737 AceView cDNA sequences (see all 737): AB011160 AA338834 CD672598 BM742071 NM_002588 NM_018914 NM_032403 BM702196 BQ877616 NM_018917 CR612895 NM_018922 AF152524 BQ023871 CR606761 NM_032092 AW297057 AL536915 CF243141 NM_003736 H96219 CD672597 AW517238 AF152320
GeneLoc Exon Structure
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Expression
for PCDHGB5 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
| PCDHGB5 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
Genevestigator expression for PCDHGB5
SABiosciences Custom PCR Arrays for PCDHGB5
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for PCDHGB5
Browse OriGene validated miRNA SYBR primer pairs
| | | Search SABiosciences RT2 qPCR
Primer Assays in human, mouse, rat PCDHGB5 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat PCDHGB5 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PCDHGB5 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PCDHGB5 |
Orthologs
for PCDHGB5 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 human and mouse.
Orthologs for PCDHGB5 gene from 1/4 species (see all 4) About this table
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Paralogs
for PCDHGB5 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for PCDHGB5 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): 3 variations for PCDHGB5
3 CNVs: 3578 69211 6450 | SABiosciences Cancer Mutation PCR Assays |
|
Disorders
/ Diseases
for PCDHGB5 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
|
PCDHGB5 for disorders About GeneDecksing
OMIM gene information: 606302
OMIM disorders: --
1  disease for PCDHGB5: About MalaCardsneuronitis
Export disorders for PCDHGB5 gene to outside databases
|
Publications
for PCDHGB5 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 PCDHGB5 gene integrated from 9 sources:
(articles sorted by number of sources associating them with PCDHGB5) | |  | 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)2 Gerhard D.S....Malek J. (2004)
- 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)
- 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)
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External Searches for PCDHGB5 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
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Genome Databases showing PCDHGB5 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing PCDHGB5 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing PCDHGB5 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 PCDHGB5 | Pharmacogenomics, SNPs, Pathways |
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| | |
About This Section
| Patent Information for PCDHGB5 gene:
Search GeneIP for patents involving PCDHGB5
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for PCDHGB5 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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 | |
 |
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