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    Phc3 polyhomeotic 3 [ Mus musculus (house mouse) ]

    Gene ID: 241915, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Phc3provided by MGI
    Official Full Name
    polyhomeotic 3provided by MGI
    Primary source
    MGI:MGI:2181434
    See related
    Ensembl:ENSMUSG00000037652 AllianceGenome:MGI:2181434
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Edr3; Hph3; E030046K01Rik
    Summary
    Predicted to enable chromatin binding activity and histone binding activity. Predicted to be involved in negative regulation of transcription, DNA-templated. Part of PcG protein complex. Is expressed in several structures, including adipose tissue; alimentary system; brain; genitourinary system; and hemolymphoid system gland. Orthologous to human PHC3 (polyhomeotic homolog 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in thymus adult (RPKM 7.9), genital fat pad adult (RPKM 7.0) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    3 A3; 3 14.36 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (30953444..31023628, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (30899295..30969479, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 42198 Neighboring gene predicted gene, 42199 Neighboring gene G protein-coupled receptor 160 Neighboring gene STARR-seq mESC enhancer starr_07303 Neighboring gene STARR-positive B cell enhancer ABC_E4537 Neighboring gene predicted gene 2979 Neighboring gene STARR-positive B cell enhancer ABC_E4538 Neighboring gene STARR-seq mESC enhancer starr_07307 Neighboring gene STARR-seq mESC enhancer starr_07308 Neighboring gene protein kinase C, iota Neighboring gene microRNA 7008

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Identification and characterisation of novel mammalian homologues of Drosophila polyhomeoticpermits new insights into relationships between members of the polyhomeotic family. Tonkin E, et al. Hum Genet, 2002 Oct. PMID 12384788
    2. Differential expression of polycomb repression complex 1 (PRC1) members in the developing mouse brain reveals multiple complexes. Vogel T, et al. Dev Dyn, 2006 Sep. PMID 16786585
    3. 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
    4. PRC1 and Suv39h specify parental asymmetry at constitutive heterochromatin in early mouse embryos. Puschendorf M, et al. Nat Genet, 2008 Apr. PMID 18311137
    5. Proteomics analysis of Ring1B/Rnf2 interactors identifies a novel complex with the Fbxl10/Jhdm1B histone demethylase and the Bcl6 interacting corepressor. Sánchez C, et al. Mol Cell Proteomics, 2007 May. PMID 17296600

    See all (22) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (4) 

    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

    Gene Ontology Provided by MGI

    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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within multicellular organism development IEA
    Inferred from Electronic Annotation
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of PcG protein complex ISO
    Inferred from Sequence Orthology
    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_001165954.1 → NP_001159426.1  polyhomeotic-like protein 3 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC111093, BC132533
      UniProtKB/Swiss-Prot
      Q8CHP6
      Conserved Domains (2) summary
      cd09577
      Location:924 → 992
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      smart00454
      Location:926 → 993
      SAM; Sterile alpha motif

    2. NM_001165955.1 → NP_001159427.1  polyhomeotic-like protein 3 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, uses a downstream translational start codon, and lacks an alternate in-frame exon in the central coding region, compared to variant 1. The encoded isoform (3) is shorter than isoform 1.
      Source sequence(s)
      AC111093, AK087339
      Consensus CDS
      CCDS50884.1
      UniProtKB/TrEMBL
      D3YY34
      Related
      ENSMUSP00000103890.2, ENSMUST00000108255.8
      Conserved Domains (2) summary
      cd09577
      Location:879 → 947
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      smart00454
      Location:881 → 948
      SAM; Sterile alpha motif

    3. NM_001165956.1 → NP_001159428.1  polyhomeotic-like protein 3 isoform 4

      See identical proteins and their annotated locations for NP_001159428.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an alternate in-frame segment in the central coding region, compared to variant 1, resulting in an isoform (4) that is shorter than isoform 1.
      Source sequence(s)
      AC111093, BC145123
      Consensus CDS
      CCDS50885.1
      UniProtKB/TrEMBL
      B7ZNA5
      Related
      ENSMUSP00000065617.6, ENSMUST00000064718.12
      Conserved Domains (2) summary
      cd09577
      Location:882 → 950
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      smart00454
      Location:884 → 951
      SAM; Sterile alpha motif

    4. NM_153421.2 → NP_700470.2  polyhomeotic-like protein 3 isoform 2

      See identical proteins and their annotated locations for NP_700470.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and uses a downstream translational start codon, compared to variant 1. The encoded isoform (2) is shorter at the N-terminus, compared to isoform 1.
      Source sequence(s)
      AC111093, AJ414610, BC132533
      Consensus CDS
      CCDS17288.1
      UniProtKB/Swiss-Prot
      A2RTJ9, Q3TLV5, Q8CHP6
      Related
      ENSMUSP00000130142.2, ENSMUST00000168645.8
      Conserved Domains (2) summary
      cd09577
      Location:912 → 980
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      smart00454
      Location:914 → 981
      SAM; Sterile alpha motif

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000069.7 Reference GRCm39 C57BL/6J

      Range
      30953444..31023628 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030252612.2 → XP_030108472.1  polyhomeotic-like protein 3 isoform X5

      Conserved Domains (2) summary
      cd09577
      Location:881 → 949
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      pfam03154
      Location:145 → 536
      Atrophin-1; Atrophin-1 family

    2. XM_006535468.4 → XP_006535531.1  polyhomeotic-like protein 3 isoform X2

      Conserved Domains (3) summary
      cd09577
      Location:914 → 982
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      pfam03154
      Location:198 → 569
      Atrophin-1; Atrophin-1 family
      pfam09770
      Location:326 → 490
      PAT1; Topoisomerase II-associated protein PAT1

    3. XM_006535470.2 → XP_006535533.1  polyhomeotic-like protein 3 isoform X4

      Conserved Domains (3) summary
      cd09577
      Location:891 → 959
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      pfam03154
      Location:171 → 544
      Atrophin-1; Atrophin-1 family
      pfam09770
      Location:319 → 483
      PAT1; Topoisomerase II-associated protein PAT1

    4. XM_006535469.4 → XP_006535532.1  polyhomeotic-like protein 3 isoform X3

      Conserved Domains (3) summary
      cd09577
      Location:907 → 975
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      pfam03154
      Location:171 → 562
      Atrophin-1; Atrophin-1 family
      pfam09770
      Location:319 → 483
      PAT1; Topoisomerase II-associated protein PAT1

    5. XM_006535467.3 → XP_006535530.1  polyhomeotic-like protein 3 isoform X1

      Conserved Domains (3) summary
      cd09577
      Location:940 → 1008
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      pfam03154
      Location:224 → 595
      Atrophin-1; Atrophin-1 family
      pfam09770
      Location:352 → 516
      PAT1; Topoisomerase II-associated protein PAT1

    6. XM_036163096.1 → XP_036018989.1  polyhomeotic-like protein 3 isoform X6

      Conserved Domains (1) summary
      pfam09770
      Location:352 → 516
      PAT1; Topoisomerase II-associated protein PAT1

    RNA

    1. XR_389590.2 RNA Sequence

    2. XR_004941320.1 RNA Sequence

    3. XR_004941321.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8CHP6.2 GenPept UniProtKB/Swiss-Prot:Q8CHP6

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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