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Phc3 polyhomeotic homolog 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 310258, updated on 4-Jan-2025

Summary

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Official Symbol
Phc3provided by RGD
Official Full Name
polyhomeotic homolog 3provided by RGD
Primary source
RGD:1307998
See related
EnsemblRapid:ENSRNOG00000009491 AllianceGenome:RGD:1307998
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
Summary
Predicted to enable chromatin binding activity and histone binding activity. Predicted to be involved in negative regulation of DNA-templated transcription. Predicted to be located in nucleoplasm. Predicted to be part of PRC1 complex. Predicted to be active in nucleus. Orthologous to human PHC3 (polyhomeotic homolog 3). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Lung (RPKM 162.9), Spleen (RPKM 158.1) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Phc3 in Genome Data Viewer
Location:
2q24
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (114337180..114412132)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (112408709..112483719)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (116028735..116103227)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene protein kinase C, iota Neighboring gene uncharacterized LOC134485611 Neighboring gene uncharacterized LOC120100793 Neighboring gene G protein-coupled receptor 160 Neighboring gene uncharacterized LOC134485610 Neighboring gene SEC62 homolog, preprotein translocation factor

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. PHC3, a component of the hPRC-H complex, associates with E2F6 during G0 and is lost in osteosarcoma tumors. Deshpande AM, et al. Oncogene, 2007 Mar 15. PMID 17001316, Free PMC Article
  2. PRC1 complex diversity: where is it taking us? Gil J, et al. Trends Cell Biol, 2014 Nov. PMID 25065329
  3. Occupying chromatin: Polycomb mechanisms for getting to genomic targets, stopping transcriptional traffic, and staying put. Simon JA, et al. Mol Cell, 2013 Mar 7. PMID 23473600, Free PMC Article
  4. Several distinct polycomb complexes regulate and co-localize on the INK4a tumor suppressor locus. Maertens GN, et al. PLoS One, 2009 Jul 28. PMID 19636380, Free PMC Article
  5. The core of the polycomb repressive complex is compositionally and functionally conserved in flies and humans. Levine SS, et al. Mol Cell Biol, 2002 Sep. PMID 12167701, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables zinc 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 negative regulation of DNA-templated transcription 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 PcG protein complex ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
polyhomeotic-like protein 3
Names
polyhomeotic like 3

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_001107662.1 → NP_001101132.1  polyhomeotic-like protein 3

    See identical proteins and their annotated locations for NP_001101132.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473961
    UniProtKB/TrEMBL
    A6IHK6, D3ZS50
    Conserved Domains (2) summary
    cd09577
    Location:761 → 829
    SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
    smart00454
    Location:763 → 830
    SAM; Sterile alpha motif

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_086020.1 Reference GRCr8

    Range
    114337180..114412132
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006232226.5 → XP_006232288.1  polyhomeotic-like protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A0G2K2B0, D3ZS50
    Related
    ENSRNOP00000072169.2, ENSRNOT00000089477.3
    Conserved Domains (2) summary
    cd09577
    Location:942 → 1010
    SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
    smart00454
    Location:944 → 1011
    SAM; Sterile alpha motif

  2. XM_006232227.5 → XP_006232289.1  polyhomeotic-like protein 3 isoform X3

    UniProtKB/TrEMBL
    D3ZS50
    Related
    ENSRNOP00000078977.2, ENSRNOT00000110653.2
    Conserved Domains (2) summary
    cd09577
    Location:926 → 994
    SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
    smart00454
    Location:928 → 995
    SAM; Sterile alpha motif

  3. XM_039102233.2 → XP_038958161.1  polyhomeotic-like protein 3 isoform X5

    UniProtKB/TrEMBL
    D3ZS50
    Related
    ENSRNOP00000063002.3, ENSRNOT00000066495.3
    Conserved Domains (2) summary
    cd09577
    Location:909 → 977
    SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
    pfam03154
    Location:286 → 562
    Atrophin-1; Atrophin-1 family

  4. XM_006232230.5 → XP_006232292.1  polyhomeotic-like protein 3 isoform X7

    UniProtKB/TrEMBL
    D3ZS50
    Conserved Domains (2) summary
    cd09577
    Location:893 → 961
    SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
    smart00454
    Location:895 → 962
    SAM; Sterile alpha motif

  5. XM_039102232.2 → XP_038958160.1  polyhomeotic-like protein 3 isoform X4

    UniProtKB/TrEMBL
    D3ZS50
    Conserved Domains (2) summary
    cd09577
    Location:916 → 984
    SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
    pfam03154
    Location:111 → 514
    Atrophin-1; Atrophin-1 family

  6. XM_063281761.1 → XP_063137831.1  polyhomeotic-like protein 3 isoform X6

    UniProtKB/TrEMBL
    D3ZS50

  7. XM_063281762.1 → XP_063137832.1  polyhomeotic-like protein 3 isoform X8

    UniProtKB/TrEMBL
    D3ZS50

  8. XM_063281763.1 → XP_063137833.1  polyhomeotic-like protein 3 isoform X9

    UniProtKB/TrEMBL
    D3ZS50

  9. XM_039102231.2 → XP_038958159.1  polyhomeotic-like protein 3 isoform X2

    UniProtKB/TrEMBL
    D3ZS50
    Conserved Domains (2) summary
    cd09577
    Location:930 → 998
    SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
    pfam03154
    Location:90 → 528
    Atrophin-1; Atrophin-1 family

RNA

  1. XR_005500282.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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