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    Hcfc2 host cell factor C2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 314704, updated on 2-May-2024

    Summary

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    Official Symbol
    Hcfc2provided by RGD
    Official Full Name
    host cell factor C2provided by RGD
    Primary source
    RGD:1307385
    See related
    Ensembl:ENSRNOG00000053510 AllianceGenome:RGD:1307385
    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 transcription coactivator activity. Involved in negative regulation of transcription by RNA polymerase II. Predicted to be located in cytosol; nuclear body; and plasma membrane. Predicted to be part of histone methyltransferase complex. Orthologous to human HCFC2 (host cell factor C2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 138.8), Heart (RPKM 114.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Hcfc2 in Genome Data Viewer
    Location:
    7q13
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (22875440..22907391, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (20983986..21019826, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (27107931..27136658, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC103692815 Neighboring gene nuclear transcription factor Y subunit beta Neighboring gene glycosyltransferase 8 domain containing 2 Neighboring gene thymine-DNA glycosylase Neighboring gene ubiquinol-cytochrome c reductase complex assembly factor 6

    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. Herpes simplex virus transactivator VP16 discriminates between HCF-1 and a novel family member, HCF-2. Johnson KM, et al. J Virol, 1999 May. PMID 10196288, Free PMC Article
    2. The evolutionarily conserved longevity determinants HCF-1 and SIR-2.1/SIRT1 collaborate to regulate DAF-16/FOXO. Rizki G, et al. PLoS Genet, 2011 Sep. PMID 21909281, Free PMC Article
    3. ATAC-king the complexity of SAGA during evolution. Spedale G, et al. Genes Dev, 2012 Mar 15. PMID 22426530, Free PMC Article
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC95223

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription coregulator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coregulator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in antiviral innate immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within antiviral innate immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in immune response involved in response to exogenous dsRNA IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within immune response involved in response to exogenous dsRNA ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of toll-like receptor 3 signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of toll-like receptor 3 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of MLL1 complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of MLL1 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of MLL1/2 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of Set1C/COMPASS complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of Set1C/COMPASS complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of histone methyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nuclear body IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    host cell factor 2
    Names
    C2 factor
    HCF-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_001008357.1 → NP_001008358.1  host cell factor 2

      See identical proteins and their annotated locations for NP_001008358.1

      Status: PROVISIONAL

      Source sequence(s)
      BC085951
      UniProtKB/Swiss-Prot
      Q5RKG2
      UniProtKB/TrEMBL
      A0A0G2JXF9, A6IFI3
      Related
      ENSRNOP00000070255.2, ENSRNOT00000086905.2
      Conserved Domains (6) summary
      PLN02193
      Location:2 → 262
      PLN02193; nitrile-specifier protein
      cd00063
      Location:549 → 603
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      sd00038
      Location:190 → 241
      Kelch; KELCH repeat [structural motif]
      pfam01344
      Location:22 → 59
      Kelch_1; Kelch motif
      pfam13415
      Location:207 → 253
      Kelch_3; Galactose oxidase, central domain
      pfam13854
      Location:312 → 354
      Kelch_5; Kelch 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_086025.1 Reference GRCr8

      Range
      22875440..22907391 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039079037.2 → XP_038934965.1  host cell factor 2 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JXF9, A0A8I5Y755
      Related
      ENSRNOP00000078223.1
      Conserved Domains (2) summary
      PLN02193
      Location:2 → 262
      PLN02193; nitrile-specifier protein
      sd00038
      Location:190 → 241
      Kelch; KELCH repeat [structural motif]

    2. XM_039079039.2 → XP_038934967.1  host cell factor 2 isoform X2

      Conserved Domains (2) summary
      PLN02193
      Location:2 → 262
      PLN02193; nitrile-specifier protein
      sd00038
      Location:190 → 241
      Kelch; KELCH repeat [structural motif]

    RNA

    1. XR_005486622.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5RKG2.1 GenPept UniProtKB/Swiss-Prot:Q5RKG2

    Gene LinkOut

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

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