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Aliases for PCGF5 Gene

Aliases for PCGF5 Gene

  • Polycomb Group Ring Finger 5 2 3 5
  • Ring Finger Protein (C3HC4 Type) 159 2 3
  • RING Finger Protein 159 3 4
  • RNF159 3 4
  • Polycomb Group RING Finger Protein 5 3

External Ids for PCGF5 Gene

Previous HGNC Symbols for PCGF5 Gene

  • RNF159

Previous GeneCards Identifiers for PCGF5 Gene

  • GC10P092913
  • GC10P086610
  • GC10P092979

Summaries for PCGF5 Gene

GeneCards Summary for PCGF5 Gene

PCGF5 (Polycomb Group Ring Finger 5) is a Protein Coding gene. Diseases associated with PCGF5 include Interleukin-7 Receptor Alpha Deficiency. Among its related pathways are Signaling pathways regulating pluripotency of stem cells. An important paralog of this gene is PCGF3.

UniProtKB/Swiss-Prot for PCGF5 Gene

  • Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A Lys-119, rendering chromatin heritably changed in its expressibility (PubMed:26151332). Within the PRC1-like complex, regulates RNF2 ubiquitin ligase activity (PubMed:26151332). Plays a redundant role with PCGF3 as part of a PRC1-like complex that mediates monoubiquitination of histone H2A Lys-119 on the X chromosome and is required for normal silencing of one copy of the X chromosome in XX females (By similarity).

Gene Wiki entry for PCGF5 Gene

Additional gene information for PCGF5 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PCGF5 Gene

Genomics for PCGF5 Gene

GeneHancer (GH) Regulatory Elements for PCGF5 Gene

Promoters and enhancers for PCGF5 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
GH10J091161 Promoter/Enhancer 2.2 EPDnew FANTOM5 Ensembl ENCODE 650.7 +0.5 533 3.7 ATF1 FOXA2 ARID4B SIN3A GLIS2 ZNF207 FOS RXRA SP5 JUNB PCGF5 ANKRD1 BTAF1 TNKS2 RPP30 NUDT9P1 HECTD2 PIR60971
GH10J091219 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 650.2 +57.8 57761 3.5 PKNOX1 FOXA2 ARID4B SIN3A DMAP1 POLR2B ZNF207 KLF13 SP5 ZC3H11A PCGF5 BTAF1 TNKS2 PIR60971 GC10P091282
GH10J091197 Enhancer 1 Ensembl ENCODE 0.3 +37.6 37590 5.4 HDGF STAT5A YBX1 BATF SCRT2 ZNF207 ATF7 BCLAF1 IKZF2 RUNX3 PIR60971 NUDT9P1 ANKRD1 PCGF5
GH10J091189 Enhancer 0.8 Ensembl ENCODE 0.3 +27.9 27887 1.9 PKNOX1 JUN JUNB EBF1 BATF FOSL1 JUND POLR2A HMBOX1 FOS PIR60971 PCGF5
GH10J091184 Enhancer 0.6 Ensembl ENCODE 0.3 +22.3 22291 1 JUND GLIS1 FOS PIR60971 PCGF5
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PCGF5 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PCGF5 gene promoter:
  • Meis-1b
  • Meis-1
  • HOXA9B
  • HOXA9
  • Spz1
  • AML1a
  • RSRFC4
  • Meis-1a

Genomic Locations for PCGF5 Gene

Genomic Locations for PCGF5 Gene
chr10:91,163,012-91,284,331
(GRCh38/hg38)
Size:
121,320 bases
Orientation:
Plus strand
chr10:92,979,908-93,044,088
(GRCh37/hg19)
Size:
64,181 bases
Orientation:
Plus strand

Genomic View for PCGF5 Gene

Genes around PCGF5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PCGF5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PCGF5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PCGF5 Gene

Proteins for PCGF5 Gene

  • Protein details for PCGF5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q86SE9-PCGF5_HUMAN
    Recommended name:
    Polycomb group RING finger protein 5
    Protein Accession:
    Q86SE9
    Secondary Accessions:
    • B7Z892
    • D3DR33
    • Q6PK47
    • Q86TD0

    Protein attributes for PCGF5 Gene

    Size:
    256 amino acids
    Molecular mass:
    29714 Da
    Quaternary structure:
    • Component of a PRC1-like complex that contains PCGF5, RNF2 and UBE2D3 (PubMed:21282530, PubMed:26151332). Interacts with RNF2; the interaction is direct (PubMed:26151332). Interacts with CBX6, CBX7 and CBX8 (PubMed:21282530). Interacts with AUTS2; the interaction is direct (PubMed:25519132). Identified in a complex that contains AUTS2, PCGF5, CSNK2B and RNF2 (PubMed:25519132).

    Three dimensional structures from OCA and Proteopedia for PCGF5 Gene

    Alternative splice isoforms for PCGF5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PCGF5 Gene

Post-translational modifications for PCGF5 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for PCGF5 Gene

Domains & Families for PCGF5 Gene

Gene Families for PCGF5 Gene

Protein Domains for PCGF5 Gene

Suggested Antigen Peptide Sequences for PCGF5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with PCGF5: view

No data available for UniProtKB/Swiss-Prot for PCGF5 Gene

Function for PCGF5 Gene

Molecular function for PCGF5 Gene

UniProtKB/Swiss-Prot Function:
Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A Lys-119, rendering chromatin heritably changed in its expressibility (PubMed:26151332). Within the PRC1-like complex, regulates RNF2 ubiquitin ligase activity (PubMed:26151332). Plays a redundant role with PCGF3 as part of a PRC1-like complex that mediates monoubiquitination of histone H2A Lys-119 on the X chromosome and is required for normal silencing of one copy of the X chromosome in XX females (By similarity).

Gene Ontology (GO) - Molecular Function for PCGF5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 21282530
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with PCGF5: view
genes like me logo Genes that share phenotypes with PCGF5: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PCGF5

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PCGF5 Gene

Localization for PCGF5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PCGF5 Gene

Nucleus. Nucleus, nucleoplasm. Note=Recruited by the non-coding RNA Xist to specific nuclear foci that probably correspond to the inactivated X chromosome. {ECO:0000250 UniProtKB:Q3UK78}.

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 PCGF5 gene
Compartment Confidence
nucleus 5
cytoskeleton 4
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for PCGF5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000805 colocalizes_with X chromosome ISS --
GO:0005634 nucleus IEA,IDA 21282530
GO:0005654 nucleoplasm IEA --
GO:0005730 nucleolus IDA --
GO:0005813 centrosome IDA --
genes like me logo Genes that share ontologies with PCGF5: view

Pathways & Interactions for PCGF5 Gene

genes like me logo Genes that share pathways with PCGF5: view

Pathways by source for PCGF5 Gene

Gene Ontology (GO) - Biological Process for PCGF5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0036353 histone H2A-K119 monoubiquitination ISS --
GO:0045944 positive regulation of transcription by RNA polymerase II IDA 25519132
GO:0060819 inactivation of X chromosome by genetic imprinting ISS --
genes like me logo Genes that share ontologies with PCGF5: view

No data available for SIGNOR curated interactions for PCGF5 Gene

Drugs & Compounds for PCGF5 Gene

No Compound Related Data Available

Transcripts for PCGF5 Gene

Unigene Clusters for PCGF5 Gene

Polycomb group ring finger 5:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PCGF5

Alternative Splicing Database (ASD) splice patterns (SP) for PCGF5 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12 ^ 13a · 13b
SP1: - - - - -
SP2: - -
SP3: - - -
SP4: - - - -
SP5: - - -
SP6:

Relevant External Links for PCGF5 Gene

GeneLoc Exon Structure for
PCGF5
ECgene alternative splicing isoforms for
PCGF5

Expression for PCGF5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PCGF5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for PCGF5 Gene

This gene is overexpressed in Pancreas (38.5) and Heart (24.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for PCGF5 Gene



NURSA nuclear receptor signaling pathways regulating expression of PCGF5 Gene:

PCGF5

SOURCE GeneReport for Unigene cluster for PCGF5 Gene:

Hs.500512

Evidence on tissue expression from TISSUES for PCGF5 Gene

  • Nervous system(4.6)
  • Muscle(4.3)
  • Pancreas(4.2)
genes like me logo Genes that share expression patterns with PCGF5: view

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PCGF5 Gene

Orthologs for PCGF5 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PCGF5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PCGF5 34 33
  • 99.61 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PCGF5 34
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PCGF5 34 33
  • 96.61 (n)
OneToOne
cow
(Bos Taurus)
Mammalia PCGF5 34 33
  • 95.03 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Pcgf5 16 34 33
  • 90.4 (n)
rat
(Rattus norvegicus)
Mammalia Pcgf5 33
  • 89.69 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PCGF5 34
  • 80 (a)
OneToOne
chicken
(Gallus gallus)
Aves PCGF5 34 33
  • 85.94 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PCGF5 34
  • 88 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pcgf5 33
  • 78.35 (n)
zebrafish
(Danio rerio)
Actinopterygii pcgf5a 34
  • 79 (a)
OneToMany
pcgf5b 34 33
  • 73.56 (n)
OneToMany
wufd20c05 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.4066 33
Species where no ortholog for PCGF5 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)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • 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)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PCGF5 Gene

ENSEMBL:
Gene Tree for PCGF5 (if available)
TreeFam:
Gene Tree for PCGF5 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PCGF5: view image

Paralogs for PCGF5 Gene

Paralogs for PCGF5 Gene

(7) SIMAP similar genes for PCGF5 Gene using alignment to 1 proteins:

  • PCGF5_HUMAN
genes like me logo Genes that share paralogs with PCGF5: view

Variants for PCGF5 Gene

Sequence variations from dbSNP and Humsavar for PCGF5 Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs780964655 uncertain-significance, not provided 91,251,422(+) AG/ coding_sequence_variant, frameshift, genic_downstream_transcript_variant
rs1000042029 -- 91,250,399(+) G/A genic_downstream_transcript_variant, intron_variant
rs1000044383 -- 91,202,441(+) G/A genic_upstream_transcript_variant, intron_variant
rs1000100806 -- 91,163,317(+) G/A/C genic_upstream_transcript_variant, intron_variant
rs1000102663 -- 91,253,485(+) G/A genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for PCGF5 Gene

Variant ID Type Subtype PubMed ID
dgv500n106 CNV deletion 24896259
esv1000225 CNV deletion 20482838
esv1188971 CNV deletion 17803354
esv2023184 CNV deletion 18987734
esv2568346 CNV deletion 19546169
esv2660717 CNV deletion 23128226
esv2739496 CNV deletion 23290073
esv2759776 CNV loss 17122850
esv29491 CNV loss 19812545
esv3261607 CNV deletion 24192839
esv3546674 CNV deletion 23714750
esv3624200 CNV loss 21293372
esv3624201 CNV loss 21293372
esv3624202 CNV loss 21293372
esv3751 CNV loss 18987735
esv6527 CNV loss 19470904
nsv1070880 CNV deletion 25765185
nsv1126263 CNV deletion 24896259
nsv24911 CNV deletion 16902084
nsv442203 CNV loss 18776908
nsv825512 CNV loss 20364138
nsv958245 CNV deletion 24416366

Variation tolerance for PCGF5 Gene

Residual Variation Intolerance Score: 56.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.18; 4.14% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PCGF5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PCGF5

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PCGF5 Gene

Disorders for PCGF5 Gene

MalaCards: The human disease database

(1) MalaCards diseases for PCGF5 Gene - From: DISEASES

Disorder Aliases PubMed IDs
interleukin-7 receptor alpha deficiency
  • il-7r
- elite association - COSMIC cancer census association via MalaCards
Search PCGF5 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for PCGF5

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with PCGF5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PCGF5 Gene

Publications for PCGF5 Gene

  1. BMI1-RING1B is an autoinhibited RING E3 ubiquitin ligase. (PMID: 26151332) Taherbhoy AM … Cochran AG (Nature communications 2015) 3 4 58
  2. An AUTS2-Polycomb complex activates gene expression in the CNS. (PMID: 25519132) Gao Z … Reinberg D (Nature 2014) 3 4 58
  3. Interaction proteomics analysis of polycomb proteins defines distinct PRC1 complexes in mammalian cells. (PMID: 21282530) Vandamme J … Angrand PO (Molecular & cellular proteomics : MCP 2011) 3 4 58
  4. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PMID: 16385451) Grupe A … Goate A (American journal of human genetics 2006) 3 44 58
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58

Products for PCGF5 Gene

Sources for PCGF5 Gene

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