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PCGF5 polycomb group ring finger 5 [ Homo sapiens (human) ]

Gene ID: 84333, updated on 2-Nov-2024

Summary

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Official Symbol
PCGF5provided by HGNC
Official Full Name
polycomb group ring finger 5provided by HGNC
Primary source
HGNC:HGNC:28264
See related
Ensembl:ENSG00000180628 MIM:617407; AllianceGenome:HGNC:28264
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RNF159
Summary
Predicted to enable histone H2AK119 ubiquitin ligase activity. Acts upstream of or within positive regulation of transcription by RNA polymerase II. Located in Golgi apparatus; centrosome; and nucleoplasm. Part of PcG protein complex. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in thyroid (RPKM 14.7), adrenal (RPKM 12.4) and 25 other tissues See more
Orthologs
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Genomic context

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See PCGF5 in Genome Data Viewer
Location:
10q23.32
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (91156219..91284337)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (92039909..92167660)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (92922750..93044094)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124902481 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2602 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2603 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2604 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:92923911-92924447 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:92932029-92932262 Neighboring gene uncharacterized LOC124902480 Neighboring gene nudix hydrolase 9 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2605 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3762 Neighboring gene Sharpr-MPRA regulatory region 216 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:93007586-93007768 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:93044145-93044720 Neighboring gene HECTD2 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3763 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2607 Neighboring gene MPRA-validated peak1048 silencer Neighboring gene HECT domain E3 ubiquitin protein ligase 2 Neighboring gene ribosomal protein S27 pseudogene 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Ehrlichia chaffeensis TRP120 interacts with a diverse array of eukaryotic proteins involved in transcription, signaling, and cytoskeleton organization. Luo T, et al. Infect Immun, 2011 Nov. PMID 21859857, Free PMC Article
  2. An Ehrlichia chaffeensis tandem repeat protein interacts with multiple host targets involved in cell signaling, transcriptional regulation, and vesicle trafficking. Wakeel A, et al. Infect Immun, 2009 May. PMID 19273555, Free PMC Article
  3. Functional redundancy among Polycomb complexes in maintaining the pluripotent state of embryonic stem cells. Zhu Y, et al. Stem Cell Reports, 2022 May 10. PMID 35364009, Free PMC Article
  4. hnRNPK Recruits PCGF3/5-PRC1 to the Xist RNA B-Repeat to Establish Polycomb-Mediated Chromosomal Silencing. Pintacuda G, et al. Mol Cell, 2017 Dec 7. PMID 29220657, Free PMC Article
  5. UbE2E1/UBCH6 Is a Critical in Vivo E2 for the PRC1-catalyzed Ubiquitination of H2A at Lys-119. Wheaton K, et al. J Biol Chem, 2017 Feb 17. PMID 28073915, Free PMC Article

See all (47) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Observational study of gene-disease association. (HuGE Navigator)
    Title: A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC16202

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables histone H2AK119 ubiquitin ligase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in random inactivation of X chromosome ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in Golgi apparatus IDA
Inferred from Direct Assay
more info
  
part_of PRC1 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of PcG protein complex IDA
Inferred from Direct Assay
more info
 PubMed 
colocalizes_with X chromosome ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in centrosome IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
polycomb group RING finger protein 5
Names
RING finger protein 159
ring finger protein (C3HC4 type) 159

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001256549.2 → NP_001243478.1  polycomb group RING finger protein 5

    See identical proteins and their annotated locations for NP_001243478.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 4 all encode the same protein.
    Source sequence(s)
    AC026227, AK303014, BQ420347
    Consensus CDS
    CCDS7413.1
    UniProtKB/Swiss-Prot
    B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0
    Related
    ENSP00000445704.1, ENST00000543648.5
    Conserved Domains (3) summary
    TIGR00599
    Location:8 → 116
    rad18; DNA repair protein rad18
    cd16737
    Location:16 → 57
    RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
    cd17084
    Location:136 → 256
    RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

  2. NM_001257101.2 → NP_001244030.1  polycomb group RING finger protein 5

    See identical proteins and their annotated locations for NP_001244030.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 4 all encode the same protein.
    Source sequence(s)
    AC026227, AL731553, BC051845, BQ420347
    Consensus CDS
    CCDS7413.1
    UniProtKB/Swiss-Prot
    B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0
    Related
    ENSP00000479492.1, ENST00000614189.4
    Conserved Domains (3) summary
    TIGR00599
    Location:8 → 116
    rad18; DNA repair protein rad18
    cd16737
    Location:16 → 57
    RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
    cd17084
    Location:136 → 256
    RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

  3. NM_032373.5 → NP_115749.2  polycomb group RING finger protein 5

    See identical proteins and their annotated locations for NP_115749.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2 and 4 all encode the same protein.
    Source sequence(s)
    AC026227, AL832496, BI464238, BQ420347
    Consensus CDS
    CCDS7413.1
    UniProtKB/Swiss-Prot
    B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0
    Related
    ENSP00000337500.5, ENST00000336126.6
    Conserved Domains (3) summary
    TIGR00599
    Location:8 → 116
    rad18; DNA repair protein rad18
    cd16737
    Location:16 → 57
    RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
    cd17084
    Location:136 → 256
    RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

RNA

  1. NR_046310.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has an alternate 3' exon, and lacks all but the first two exons, compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region, as found in variant 1.
    Source sequence(s)
    BC007377, BI464238, BY994354
    Related
    ENST00000490164.1

  2. NR_046435.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL731553, BC007377

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    91156219..91284337
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017016776.3 → XP_016872265.1  polycomb group RING finger protein 5 isoform X1

    UniProtKB/Swiss-Prot
    B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0
    Conserved Domains (3) summary
    TIGR00599
    Location:8 → 116
    rad18; DNA repair protein rad18
    cd16737
    Location:16 → 57
    RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
    cd17084
    Location:136 → 256
    RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

  2. XM_017016777.3 → XP_016872266.1  polycomb group RING finger protein 5 isoform X2

    Conserved Domains (3) summary
    TIGR00599
    Location:8 → 116
    rad18; DNA repair protein rad18
    cd16737
    Location:16 → 57
    RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
    cd17084
    Location:136 → 236
    RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

  3. XM_047425843.1 → XP_047281799.1  polycomb group RING finger protein 5 isoform X2

  4. XM_047425846.1 → XP_047281802.1  polycomb group RING finger protein 5 isoform X3

  5. XM_047425849.1 → XP_047281805.1  polycomb group RING finger protein 5 isoform X4

  6. XM_047425845.1 → XP_047281801.1  polycomb group RING finger protein 5 isoform X2

  7. XM_047425848.1 → XP_047281804.1  polycomb group RING finger protein 5 isoform X3

  8. XM_011540271.4 → XP_011538573.1  polycomb group RING finger protein 5 isoform X1

    See identical proteins and their annotated locations for XP_011538573.1

    UniProtKB/Swiss-Prot
    B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0
    Conserved Domains (3) summary
    TIGR00599
    Location:8 → 116
    rad18; DNA repair protein rad18
    cd16737
    Location:16 → 57
    RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
    cd17084
    Location:136 → 256
    RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

  9. XM_047425844.1 → XP_047281800.1  polycomb group RING finger protein 5 isoform X2

  10. XM_047425847.1 → XP_047281803.1  polycomb group RING finger protein 5 isoform X3

  11. XM_011540272.3 → XP_011538574.1  polycomb group RING finger protein 5 isoform X2

    See identical proteins and their annotated locations for XP_011538574.1

    Conserved Domains (3) summary
    TIGR00599
    Location:8 → 116
    rad18; DNA repair protein rad18
    cd16737
    Location:16 → 57
    RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
    cd17084
    Location:136 → 236
    RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

  12. XM_006718030.2 → XP_006718093.1  polycomb group RING finger protein 5 isoform X3

    Conserved Domains (1) summary
    pfam16207
    Location:89 → 185
    RAWUL; RAWUL domain RING finger- and WD40-associated ubiquitin-like

  13. XM_017016778.2 → XP_016872267.1  polycomb group RING finger protein 5 isoform X4

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    92039909..92167660
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054366934.1 → XP_054222909.1  polycomb group RING finger protein 5 isoform X1

    UniProtKB/Swiss-Prot
    B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0

  2. XM_054366937.1 → XP_054222912.1  polycomb group RING finger protein 5 isoform X2

  3. XM_054366936.1 → XP_054222911.1  polycomb group RING finger protein 5 isoform X2

  4. XM_054366940.1 → XP_054222915.1  polycomb group RING finger protein 5 isoform X3

  5. XM_054366945.1 → XP_054222920.1  polycomb group RING finger protein 5 isoform X4

  6. XM_054366939.1 → XP_054222914.1  polycomb group RING finger protein 5 isoform X2

  7. XM_054366943.1 → XP_054222918.1  polycomb group RING finger protein 5 isoform X3

  8. XM_054366935.1 → XP_054222910.1  polycomb group RING finger protein 5 isoform X2

  9. XM_054366941.1 → XP_054222916.1  polycomb group RING finger protein 5 isoform X3

  10. XM_054366944.1 → XP_054222919.1  polycomb group RING finger protein 5 isoform X4

  11. XM_054366933.1 → XP_054222908.1  polycomb group RING finger protein 5 isoform X1

    UniProtKB/Swiss-Prot
    B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0

  12. XM_054366938.1 → XP_054222913.1  polycomb group RING finger protein 5 isoform X2

  13. XM_054366942.1 → XP_054222917.1  polycomb group RING finger protein 5 isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q86SE9.1 GenPept UniProtKB/Swiss-Prot:Q86SE9

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