U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    Phc2 polyhomeotic 2 [ Mus musculus (house mouse) ]

    Gene ID: 54383, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Phc2provided by MGI
    Official Full Name
    polyhomeotic 2provided by MGI
    Primary source
    MGI:MGI:1860454
    See related
    Ensembl:ENSMUSG00000028796 AllianceGenome:MGI:1860454
    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
    p36; Edr2; Mph2; A3galt2; D4Ertd810e; D130050K19Rik
    Summary
    Predicted to enable chromatin binding activity; histone binding activity; and identical protein binding activity. Acts upstream of or within spermatogenesis. Located in heterochromatin and nucleus. Part of PRC1 complex. Is expressed in several structures, including central nervous system and retina nuclear layer. Orthologous to human PHC2 (polyhomeotic homolog 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 25.0), ovary adult (RPKM 24.8) and 28 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Phc2 in Genome Data Viewer
    Location:
    4 D2.2; 4 62.12 cM
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (128548448..128646674)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (128654655..128752881)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_11454 Neighboring gene toll-like receptor 12 Neighboring gene STARR-seq mESC enhancer starr_11455 Neighboring gene predicted gene 12958 Neighboring gene STARR-positive B cell enhancer ABC_E9239 Neighboring gene STARR-positive B cell enhancer ABC_E6219 Neighboring gene VISTA enhancer mm1684 Neighboring gene predicted gene, 33712 Neighboring gene STARR-seq mESC enhancer starr_11460 Neighboring gene STARR-positive B cell enhancer ABC_E9595 Neighboring gene alpha 1,3-galactosyltransferase 2 Neighboring gene STARR-positive B cell enhancer ABC_E3514 Neighboring gene zinc finger protein 362 Neighboring gene predicted gene, 52679

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Expression pattern and functional role of Phc2 during activation of helper T cells after antigenic stimulation. Cho KW, et al. In Vitro Cell Dev Biol Anim, 2013 May. PMID 23605804
    2. Phc2 controls hematopoietic stem and progenitor cell mobilization from bone marrow by repressing Vcam1 expression. Bae J, et al. Nat Commun, 2019 Aug 2. PMID 31375680, Free PMC Article
    3. Functional analysis of Samd11, a retinal photoreceptor PRC1 component, in establishing rod photoreceptor identity. Kubo S, et al. Sci Rep, 2021 Feb 18. PMID 33603070, Free PMC Article
    4. The Bmi-1 oncoprotein interacts with dinG and MPh2: the role of RING finger domains. Hemenway CS, et al. Oncogene, 1998 May 14. PMID 9627119
    5. Mph2 expression in germinal zones of the mouse brain. Kim MH, et al. Dev Dyn, 2005 Jan. PMID 15580621

    See all (53) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Study demonstrates that Phc2 regulates hematopoietic stem and progenitor cells mobilization through the repression of Vcam1 expression by enhancing both H3K27me3 and H2AK119ub in bone marrow stromal cells.
      Title: Phc2 controls hematopoietic stem and progenitor cell mobilization from bone marrow by repressing Vcam1 expression.
    2. polymerization of the Phc2 SAM domain is required for PRC1 clustering, chromatin condensation and gene silencing.
      Title: SAM domain polymerization links subnuclear clustering of PRC1 to gene silencing.
    3. Phc2 may act as a negative regulator that inhibits the activity of Th cells.
      Title: Expression pattern and functional role of Phc2 during activation of helper T cells after antigenic stimulation.
    4. functional overlap between Phc2 and Phc1 along with a strict dose-dependent requirement during anterior-posterior (A-P) patterning
      Title: Mammalian polyhomeotic homologues Phc2 and Phc1 act in synergy to mediate polycomb repression of Hox genes.
    5. Mph2 is expressed in the ventricular zones of the cortex and ganglionic eminences as well as in mature structures such as the granule cell layer of the adult dentate gyrus and cerebellum; it has roles in both the developing and adult brain
      Title: Mph2 expression in germinal zones of the mouse brain.
    Submit: New GeneRIF Correction

    Variation

    Go to the top of the page Help

    Alleles

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

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    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 identical protein binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within spermatogenesis IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of PRC1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of PRC1 complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 heterochromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    polyhomeotic-like protein 2
    Names
    early development regulator 2
    early development regulatory protein 2
    polyhomeotic 2 protein
    polyhomeotic-like 2

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001195083.1 → NP_001182012.1  polyhomeotic-like protein 2 isoform B

      See identical proteins and their annotated locations for NP_001182012.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, lacks 8 coding exons in the 5' region, and initiates translation at a downstream AUG, compared to variant 1. The resulting protein (isoform B) has a shorter N-terminus, compared to isoform A.
      Source sequence(s)
      AL611983
      Consensus CDS
      CCDS57297.1
      UniProtKB/Swiss-Prot
      Q9QWH1
      Related
      ENSMUSP00000101689.4, ENSMUST00000106079.10
      Conserved Domains (2) summary
      cd09577
      Location:254 → 322
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      pfam16616
      Location:135 → 254
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

    2. NM_001195130.1 → NP_001182059.1  polyhomeotic-like protein 2 isoform A

      See identical proteins and their annotated locations for NP_001182059.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein (isoform A).
      Source sequence(s)
      AL611969, AL611983
      Consensus CDS
      CCDS18674.1
      UniProtKB/Swiss-Prot
      B1AS98, B1ASA4, O88463, Q8K5D9, Q9QWH1
      UniProtKB/TrEMBL
      B2KFW6
      Related
      ENSMUSP00000030588.7, ENSMUST00000030588.13
      Conserved Domains (3) summary
      cd09577
      Location:781 → 849
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      PHA03247
      Location:216 → 540
      PHA03247; large tegument protein UL36; Provisional
      pfam16616
      Location:662 → 780
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

    3. NM_018774.4 → NP_061244.1  polyhomeotic-like protein 2 isoform A

      See identical proteins and their annotated locations for NP_061244.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (A). Both variants 1 and 2 encode the same protein (isoform A).
      Source sequence(s)
      AL611969, BC057571, BE995150
      Consensus CDS
      CCDS18674.1
      UniProtKB/Swiss-Prot
      B1AS98, B1ASA4, O88463, Q8K5D9, Q9QWH1
      UniProtKB/TrEMBL
      B2KFW6
      Related
      ENSMUSP00000101690.2, ENSMUST00000106080.8
      Conserved Domains (3) summary
      cd09577
      Location:781 → 849
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      PHA03247
      Location:216 → 540
      PHA03247; large tegument protein UL36; Provisional
      pfam16616
      Location:662 → 780
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

    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_000070.7 Reference GRCm39 C57BL/6J

      Range
      128548448..128646674
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011240576.4 → XP_011238878.1  polyhomeotic-like protein 2 isoform X3

      Conserved Domains (1) summary
      PHA03247
      Location:216 → 499
      PHA03247; large tegument protein UL36; Provisional

    2. XM_006503234.3 → XP_006503297.1  polyhomeotic-like protein 2 isoform X2

      UniProtKB/TrEMBL
      B2KFW6
      Conserved Domains (3) summary
      cd09577
      Location:752 → 820
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      PHA03247
      Location:219 → 511
      PHA03247; large tegument protein UL36; Provisional
      pfam16616
      Location:633 → 751
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

    3. XM_017320320.1 → XP_017175809.1  polyhomeotic-like protein 2 isoform X1

      UniProtKB/Swiss-Prot
      B1AS98, B1ASA4, O88463, Q8K5D9, Q9QWH1
      UniProtKB/TrEMBL
      B2KFW6
      Conserved Domains (3) summary
      cd09577
      Location:781 → 849
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      PHA03247
      Location:216 → 540
      PHA03247; large tegument protein UL36; Provisional
      pfam16616
      Location:662 → 780
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

    4. XM_036164241.1 → XP_036020134.1  polyhomeotic-like protein 2 isoform X5

      Conserved Domains (2) summary
      cd09577
      Location:254 → 322
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      pfam16616
      Location:135 → 254
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

    5. XM_006503236.1 → XP_006503299.1  polyhomeotic-like protein 2 isoform X4

      Conserved Domains (2) summary
      cd09577
      Location:296 → 364
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      pfam16616
      Location:177 → 295
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

    6. XM_006503238.1 → XP_006503301.1  polyhomeotic-like protein 2 isoform X5

      See identical proteins and their annotated locations for XP_006503301.1

      UniProtKB/Swiss-Prot
      Q9QWH1
      Conserved Domains (2) summary
      cd09577
      Location:254 → 322
      SAM_Ph1,2,3; SAM domain of Ph (polyhomeotic) proteins of Polycomb group
      pfam16616
      Location:135 → 254
      PHC2_SAM_assoc; Unstructured region on Polyhomeotic-like protein 1 and 2

    RNA

    1. XR_376334.4 RNA Sequence

    2. XR_004941936.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9QWH1.1 GenPept UniProtKB/Swiss-Prot:Q9QWH1

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous