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    Phc2 polyhomeotic homolog 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313038, updated on 9-Dec-2024

    Summary

    Official Symbol
    Phc2provided by RGD
    Official Full Name
    polyhomeotic homolog 2provided by RGD
    Primary source
    RGD:1307912
    See related
    EnsemblRapid:ENSRNOG00000006004 AllianceGenome:RGD:1307912
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    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; histone binding activity; and identical protein binding activity. Predicted to be involved in negative regulation of DNA-templated transcription. Predicted to act upstream of or within spermatogenesis. Predicted to be located in heterochromatin and nucleoplasm. Predicted to be part of PRC1 complex. Predicted to be active in nucleus. Orthologous to human PHC2 (polyhomeotic homolog 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Lung (RPKM 134.7), Spleen (RPKM 99.3) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Phc2 in Genome Data Viewer
    Location:
    5q36
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (146285000..146383664)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (141000604..141099268)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (146832552..146931444)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene zinc finger and SCAN domain containing 20 Neighboring gene toll-like receptor 12 Neighboring gene alpha 1,3-galactosyltransferase 2 Neighboring gene zinc finger protein 362

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Clone Names

    • MGC105958

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding  
    enables chromatin binding  
    enables histone binding  
    enables identical protein binding  
    enables zinc ion binding  
    Component Evidence Code Pubs
    part_of PRC1 complex  
    part_of PRC1 complex  
    part_of PcG protein complex  
    located_in heterochromatin  
    located_in nucleoplasm  
    located_in nucleoplasm  
    is_active_in nucleus  
    located_in nucleus  

    General protein information

    Preferred Names
    polyhomeotic-like protein 2
    Names
    polyhomeotic-like 2

    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_001013169.2NP_001013187.2  polyhomeotic-like protein 2

      See identical proteins and their annotated locations for NP_001013187.2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A6ISF6, D4A0M3
      Conserved Domains (3) summary
      cd09577
      Location:781849
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      smart00454
      Location:783850
      SAM; Sterile alpha motif
      pfam16616
      Location:662780
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

    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_086023.1 Reference GRCr8

      Range
      146285000..146383664
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006238926.4XP_006238988.1  polyhomeotic-like protein 2 isoform X1

      See identical proteins and their annotated locations for XP_006238988.1

      UniProtKB/TrEMBL
      A6ISF6, D4A0M3
      Related
      ENSRNOP00000059238.1, ENSRNOT00000067912.3
      Conserved Domains (3) summary
      cd09577
      Location:781849
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      smart00454
      Location:783850
      SAM; Sterile alpha motif
      pfam16616
      Location:662780
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2
    2. XM_039109792.2XP_038965720.1  polyhomeotic-like protein 2 isoform X4

      Conserved Domains (3) summary
      pfam05109
      Location:141559
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      pfam16616
      Location:662781
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2
      cl15755
      Location:781800
      SAM_superfamily; SAM (Sterile alpha motif )
    3. XM_039109791.2XP_038965719.1  polyhomeotic-like protein 2 isoform X3

      Conserved Domains (3) summary
      PHA03247
      Location:197530
      PHA03247; large tegument protein UL36; Provisional
      pfam16616
      Location:662781
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2
      cl15755
      Location:781801
      SAM_superfamily; SAM (Sterile alpha motif )
    4. XM_017593333.3XP_017448822.1  polyhomeotic-like protein 2 isoform X2

      Related
      ENSRNOP00000107753.1, ENSRNOT00000132855.1
    5. XM_063287537.1XP_063143607.1  polyhomeotic-like protein 2 isoform X1

      UniProtKB/TrEMBL
      A6ISF6, D4A0M3
    6. XM_063287536.1XP_063143606.1  polyhomeotic-like protein 2 isoform X1

      UniProtKB/TrEMBL
      A6ISF6, D4A0M3
    7. XM_008764139.4XP_008762361.1  polyhomeotic-like protein 2 isoform X6

      Conserved Domains (3) summary
      cd09577
      Location:254322
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      smart00454
      Location:256323
      SAM; Sterile alpha motif
      pfam16616
      Location:135253
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2
    8. XM_039109793.2XP_038965721.1  polyhomeotic-like protein 2 isoform X5

      UniProtKB/TrEMBL
      B5DFL1
      Conserved Domains (2) summary
      cd09577
      Location:296364
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      pfam16616
      Location:177296
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

    RNA

    1. XR_005504429.2 RNA Sequence

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