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Pcgf6 polycomb group ring finger 6 [ Rattus norvegicus (Norway rat) ]

Gene ID: 309457, updated on 11-Apr-2024

Summary

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Official Symbol
Pcgf6provided by RGD
Official Full Name
polycomb group ring finger 6provided by RGD
Primary source
RGD:1306904
See related
Ensembl:ENSRNOG00000020250 AllianceGenome:RGD:1306904
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Rnf134
Summary
Predicted to enable metal ion binding activity. Predicted to be involved in histone H2A-K119 monoubiquitination and negative regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of PRC1 complex. Orthologous to human PCGF6 (polycomb group ring finger 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Testes (RPKM 86.8), Thymus (RPKM 47.8) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Pcgf6 in Genome Data Viewer
Location:
1q54
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (255866709..255886306, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (245925354..245944964, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (266811418..266831022, complement)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene 5'-nucleotidase, cytosolic II Neighboring gene transfer RNA arginine (anticodon UCU) 2 Neighboring gene internexin neuronal intermediate filament protein, alpha Neighboring gene TATA-box binding protein associated factor 5 Neighboring gene ATP synthase membrane subunit K Neighboring gene programmed cell death 11

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. mel-18, a Polycomb group-related mammalian gene, encodes a transcriptional negative regulator with tumor suppressive activity. Kanno M, et al. EMBO J, 1995 Nov 15. PMID 8521824, Free PMC Article
  2. MBLR, a new RING finger protein resembling mammalian Polycomb gene products, is regulated by cell cycle-dependent phosphorylation. Akasaka T, et al. Genes Cells, 2002 Aug. PMID 12167161
  3. BMI1-RING1B is an autoinhibited RING E3 ubiquitin ligase. Taherbhoy AM, et al. Nat Commun, 2015 Jul 7. PMID 26151332
  4. PCGF3/5-PRC1 initiates Polycomb recruitment in X chromosome inactivation. Almeida M, et al. Science, 2017 Jun 9. PMID 28596365, Free PMC Article
  5. PRC1 complex diversity: where is it taking us? Gil J, et al. Trends Cell Biol, 2014 Nov. PMID 25065329

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in chromatin remodeling ISO
Inferred from Sequence Orthology
more info
  
involved_in chromatin remodeling ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of PRC1 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of PRC1 complex ISO
Inferred from Sequence Orthology
more info
  
part_of PRC1 complex ISS
Inferred from Sequence or Structural Similarity
more info
  
part_of PcG protein complex ISO
Inferred from Sequence Orthology
more info
  
part_of PcG protein complex ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
polycomb group RING finger protein 6
Names
ring finger protein 134

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_001013154.1 → NP_001013172.1  polycomb group RING finger protein 6

    See identical proteins and their annotated locations for NP_001013172.1

    Status: PROVISIONAL

    Source sequence(s)
    BC083820
    UniProtKB/Swiss-Prot
    Q5XI70
    Conserved Domains (2) summary
    cd16738
    Location:131 → 175
    RING-HC_PCGF6; RING finger found in polycomb group RING finger protein 6 (PCGF6) and similar proteins
    cd17085
    Location:253 → 342
    RAWUL_PCGF6; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 6 (PCGF6) and similar proteins

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086019.1 Reference GRCr8

    Range
    255866709..255886306 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008760438.4 → XP_008758660.1  polycomb group RING finger protein 6 isoform X1

    UniProtKB/TrEMBL
    A0A8I5XW83
    Related
    ENSRNOP00000077535.1
    Conserved Domains (3) summary
    COG5222
    Location:135 → 258
    COG5222; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
    cd16738
    Location:131 → 175
    RING-HC_PCGF6; RING finger found in polycomb group RING finger protein 6 (PCGF6) and similar proteins
    cd17085
    Location:261 → 356
    RAWUL_PCGF6; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 6 (PCGF6) and similar proteins

  2. XM_006231509.5 → XP_006231571.1  polycomb group RING finger protein 6 isoform X3

    Conserved Domains (2) summary
    cd16738
    Location:131 → 175
    RING-HC_PCGF6; RING finger found in polycomb group RING finger protein 6 (PCGF6) and similar proteins
    cd17085
    Location:253 → 348
    RAWUL_PCGF6; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 6 (PCGF6) and similar proteins

  3. XM_008760437.4 → XP_008758659.1  polycomb group RING finger protein 6 isoform X2

    UniProtKB/TrEMBL
    A0A8L2QF06
    Related
    ENSRNOP00000027450.4
    Conserved Domains (3) summary
    COG5222
    Location:135 → 258
    COG5222; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
    cd16738
    Location:131 → 175
    RING-HC_PCGF6; RING finger found in polycomb group RING finger protein 6 (PCGF6) and similar proteins
    cd17085
    Location:261 → 350
    RAWUL_PCGF6; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 6 (PCGF6) and similar proteins

RNA

  1. XR_005487580.2 RNA Sequence

  2. XR_005487581.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5XI70.1 GenPept UniProtKB/Swiss-Prot:Q5XI70

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