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

Aliases for PCDHB10 Gene

Aliases for PCDHB10 Gene

  • Protocadherin Beta 10 2 3 5
  • PCDH-Beta-10 3 4
  • Protocadherin Beta-10 3
  • PCDH-BETA10 3
  • PCHB10 3

External Ids for PCDHB10 Gene

Previous GeneCards Identifiers for PCDHB10 Gene

  • GC05P140388
  • GC05P141154
  • GC05P140555
  • GC05P140600
  • GC05P140552
  • GC05P140572
  • GC05P135717
  • GC05P140574
  • GC05P140577
  • GC05P140688
  • GC05P141281
  • GC05P141363
  • GC05P141423
  • GC05P141508
  • GC05P141614
  • GC05P141717
  • GC05P141816
  • GC05P141915
  • GC05P142023
  • GC05P142129

Summaries for PCDHB10 Gene

Entrez Gene Summary for PCDHB10 Gene

  • This gene is a member of the protocadherin beta gene cluster, one of three related gene clusters tandemly linked on chromosome five. The gene clusters demonstrate an unusual genomic organization similar to that of B-cell and T-cell receptor gene clusters. The beta cluster contains 16 genes and 3 pseudogenes, each encoding 6 extracellular cadherin domains and a cytoplasmic tail that deviates from others in the cadherin superfamily. The extracellular domains interact in a homophilic manner to specify differential cell-cell connections. Unlike the alpha and gamma clusters, the transcripts from these genes are made up of only one large exon, not sharing common 3' exons as expected. These neural cadherin-like cell adhesion proteins are integral plasma membrane proteins. Their specific functions are unknown but they most likely play a critical role in the establishment and function of specific cell-cell neural connections. [provided by RefSeq, Jul 2008]

GeneCards Summary for PCDHB10 Gene

PCDHB10 (Protocadherin Beta 10) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include calcium ion binding. An important paralog of this gene is PCDHB9.

UniProtKB/Swiss-Prot for PCDHB10 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 PCDHB10 Gene

Additional gene information for PCDHB10 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PCDHB10 Gene

Genomics for PCDHB10 Gene

GeneHancer (GH) Regulatory Elements for PCDHB10 Gene

Promoters and enhancers for PCDHB10 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
GH05J141968 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 16 +777.2 777214 3 CLOCK DMAP1 YY1 SLC30A9 ZNF143 ZNF548 ZNF263 SP3 NFYC GLIS1 RNF14 PCDH12 LOC102723915 HDAC3 PCDHB18P PCDHGA6 PCDHGA7 DELE1 PCDHGA5 ENSG00000271871
GH05J140717 Promoter/Enhancer 1.6 Ensembl ENCODE 12.5 -473.2 -473217 2.7 MLX IRF4 YY1 ZNF213 E2F8 ZNF416 ZNF143 SP3 PPARGC1A MEF2D GC05P142304 VTRNA1-2 ANKHD1 PURA HARS2 PCDHB18P PCDHB19P HDAC3 WDR55 PCDHGA6
GH05J141563 Enhancer 1.4 Ensembl ENCODE dbSUPER 12.5 +372.1 372060 1.4 FOXA2 PKNOX1 ARNT SIN3A DMAP1 ZNF2 IRF4 YY1 ZNF213 ZNF207 HARS2 IK PCDHB8 PCDHB3 PCDHA6 PCDHB9 PCDHB7 ENSG00000272108 PCDHB15 PCDHGC3
GH05J141084 Enhancer 1.2 FANTOM5 Ensembl ENCODE 11.6 -107.6 -107608 1.4 CTCF SAP130 RAD21 YY1 ZNF335 E2F1 ZNF23 GATA3 POLR2A ZNF143 PCDHAC2 PCDHB17P PCDHB1 MALINC1 IGIP PCDHGC4 PCDHB3 PCDHB10 PCDHAC1 PCDHA12
GH05J141039 Enhancer 1.4 FANTOM5 Ensembl ENCODE 9.5 -151.8 -151819 2.6 PKNOX1 CLOCK ATF1 ARID4B SIN3A ZNF48 YY1 CBX5 ELK1 ZNF143 ANKHD1 PCDHB16 HDAC3 WDR55 LOC102723915 TMCO6 HARS2 PCDHA4 PCDHA9 DELE1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PCDHB10 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PCDHB10 gene promoter:
  • LCR-F1
  • AREB6
  • Egr-1
  • Pax-2a
  • Pax-2
  • Arnt
  • AhR
  • NF-AT1

Genomic Locations for PCDHB10 Gene

Genomic Locations for PCDHB10 Gene
chr5:141,192,353-141,195,642
(GRCh38/hg38)
Size:
3,290 bases
Orientation:
Plus strand
chr5:140,571,942-140,575,215
(GRCh37/hg19)
Size:
3,274 bases
Orientation:
Plus strand

Genomic View for PCDHB10 Gene

Genes around PCDHB10 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PCDHB10 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PCDHB10 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCDHB10 Gene

Proteins for PCDHB10 Gene

  • Protein details for PCDHB10 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UN67-PCDBA_HUMAN
    Recommended name:
    Protocadherin beta-10
    Protein Accession:
    Q9UN67
    Secondary Accessions:
    • Q96T99

    Protein attributes for PCDHB10 Gene

    Size:
    800 amino acids
    Molecular mass:
    87621 Da
    Quaternary structure:
    No Data Available

neXtProt entry for PCDHB10 Gene

Post-translational modifications for PCDHB10 Gene

  • Glycosylation at Asn567, isoforms=436, Asn418, Asn181, and Asn169
  • Modification sites at PhosphoSitePlus

Other Protein References for PCDHB10 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PCDHB10 Gene

Domains & Families for PCDHB10 Gene

Gene Families for PCDHB10 Gene

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

Protein Domains for PCDHB10 Gene

Suggested Antigen Peptide Sequences for PCDHB10 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with PCDHB10: view

No data available for UniProtKB/Swiss-Prot for PCDHB10 Gene

Function for PCDHB10 Gene

Molecular function for PCDHB10 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 PCDHB10 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IEA --
genes like me logo Genes that share ontologies with PCDHB10: view
genes like me logo Genes that share phenotypes with PCDHB10: view

Animal Model Products

miRNA for PCDHB10 Gene

miRTarBase miRNAs that target PCDHB10

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 PCDHB10 Gene

Localization for PCDHB10 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCDHB10 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 PCDHB10 gene
Compartment Confidence
plasma membrane 4
extracellular 1
endoplasmic reticulum 1
lysosome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for PCDHB10 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 NAS 11322959
genes like me logo Genes that share ontologies with PCDHB10: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for PCDHB10 Gene

Pathways & Interactions for PCDHB10 Gene

SuperPathways for PCDHB10 Gene

No Data Available

Interacting Proteins for PCDHB10 Gene

Gene Ontology (GO) - Biological Process for PCDHB10 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:0007268 chemical synaptic transmission TAS 12231349
GO:0007416 synapse assembly TAS 12231349
genes like me logo Genes that share ontologies with PCDHB10: view

No data available for Pathways by source and SIGNOR curated interactions for PCDHB10 Gene

Drugs & Compounds for PCDHB10 Gene

(1) Drugs for PCDHB10 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 PCDHB10: view

Transcripts for PCDHB10 Gene

mRNA/cDNA for PCDHB10 Gene

(1) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(17) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PCDHB10 Gene

Protocadherin beta 10:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for PCDHB10 Gene

No ASD Table

Relevant External Links for PCDHB10 Gene

GeneLoc Exon Structure for
PCDHB10
ECgene alternative splicing isoforms for
PCDHB10

Expression for PCDHB10 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PCDHB10 Gene

Protein differential expression in normal tissues from HIPED for PCDHB10 Gene

This gene is overexpressed in Lung (68.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PCDHB10 Gene



Protein tissue co-expression partners for PCDHB10 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PCDHB10 Gene:

PCDHB10

SOURCE GeneReport for Unigene cluster for PCDHB10 Gene:

Hs.657953

Evidence on tissue expression from TISSUES for PCDHB10 Gene

  • Nervous system(4.8)
genes like me logo Genes that share expression patterns with PCDHB10: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PCDHB10 Gene

Orthologs for PCDHB10 Gene

This gene was present in the common ancestor of mammals.

Orthologs for PCDHB10 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PCDHB10 34 33
  • 98.5 (n)
OneToOne
cow
(Bos Taurus)
Mammalia PCDHB12 33
  • 85.86 (n)
PCDHB10 34
  • 82 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Pcdhb18 34
  • 77 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 65 (a)
ManyToMany
-- 34
  • 63 (a)
ManyToMany
-- 34
  • 63 (a)
ManyToMany
-- 34
  • 63 (a)
ManyToMany
-- 34
  • 62 (a)
ManyToMany
-- 34
  • 62 (a)
ManyToMany
-- 34
  • 60 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 62 (a)
ManyToMany
-- 34
  • 61 (a)
ManyToMany
-- 34
  • 59 (a)
ManyToMany
Species where no ortholog for PCDHB10 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • 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)
  • lizard (Anolis carolinensis)
  • 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)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for PCDHB10 Gene

ENSEMBL:
Gene Tree for PCDHB10 (if available)
TreeFam:
Gene Tree for PCDHB10 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PCDHB10: view image

Paralogs for PCDHB10 Gene

genes like me logo Genes that share paralogs with PCDHB10: view

Variants for PCDHB10 Gene

Sequence variations from dbSNP and Humsavar for PCDHB10 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1001120297 -- 141,191,202(+) C/T upstream_transcript_variant
rs1002301962 -- 141,190,540(+) C/G upstream_transcript_variant
rs1003969848 -- 141,195,268(+) T/A 3_prime_UTR_variant
rs1005739521 -- 141,192,722(+) G/A coding_sequence_variant, missense_variant
rs1005980006 -- 141,191,907(+) A/C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for PCDHB10 Gene

Variant ID Type Subtype PubMed ID
dgv958e201 CNV deletion 23290073
esv2664767 CNV deletion 23128226
esv2730844 CNV deletion 23290073
esv2730845 CNV deletion 23290073
esv2730846 CNV deletion 23290073
esv2759382 CNV gain 17122850
esv3606971 CNV loss 21293372
esv3606972 CNV gain 21293372
nsv1024594 CNV loss 25217958
nsv1031792 CNV loss 25217958
nsv428127 CNV loss 18775914
nsv471634 CNV gain+loss 15918152
nsv499084 CNV gain 21111241
nsv5031 CNV insertion 18451855
nsv599908 CNV loss 21841781
nsv599919 CNV loss 21841781
nsv823266 CNV gain 20364138
nsv968256 CNV duplication 23825009

Variation tolerance for PCDHB10 Gene

Residual Variation Intolerance Score: 99.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.29; 81.33% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PCDHB10 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PCDHB10

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCDHB10 Gene

Disorders for PCDHB10 Gene

Additional Disease Information for PCDHB10

No disorders were found for PCDHB10 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PCDHB10 Gene

Publications for PCDHB10 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. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PMID: 15340161) Zhang Z … Henzel WJ (Protein science : a publication of the Protein Society 2004) 3 4 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 3 4 58
  5. The human and murine protocadherin-beta one-exon gene families show high evolutionary conservation, despite the difference in gene number. (PMID: 11322959) Vanhalst K … van Roy F (FEBS letters 2001) 3 4 58

Products for PCDHB10 Gene

Sources for PCDHB10 Gene

Content
Loading form....