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

    Gene ID: 310258, updated on 9-Dec-2024

    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, Dec 2024]
    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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