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    Hcfc2 host cell factor C2 [ Mus musculus (house mouse) ]

    Gene ID: 67933, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Hcfc2provided by MGI
    Official Full Name
    host cell factor C2provided by MGI
    Primary source
    MGI:MGI:1915183
    See related
    Ensembl:ENSMUSG00000020246 AllianceGenome:MGI:1915183
    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
    fkls; 1700129L13Rik
    Summary
    Predicted to enable transcription coactivator activity. Predicted to be involved in chromatin remodeling and 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. Is expressed in central nervous system; gonad; and retina. Orthologous to human HCFC2 (host cell factor C2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in testis adult (RPKM 12.3), limb E14.5 (RPKM 4.9) and 26 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Hcfc2 in Genome Data Viewer
    Location:
    10 C1; 10 39.93 cM
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (82534841..82631699)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (82699007..82795865)

    Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E10632 Neighboring gene STARR-positive B cell enhancer ABC_E6890 Neighboring gene STARR-positive B cell enhancer ABC_E578 Neighboring gene ubiquinol-cytochrome c reductase complex assembly factor 6 Neighboring gene STARR-seq mESC enhancer starr_27366 Neighboring gene thymine DNA glycosylase Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:82129373-82129482 Neighboring gene glycosyltransferase 8 domain containing 2 Neighboring gene STARR-positive B cell enhancer ABC_E8353 Neighboring gene STARR-seq mESC enhancer starr_27367 Neighboring gene STARR-seq mESC enhancer starr_27368 Neighboring gene STARR-positive B cell enhancer ABC_E6891 Neighboring gene nuclear transcription factor-Y beta Neighboring gene STARR-seq mESC enhancer starr_27374 Neighboring gene RIKEN cDNA 1700028I16 gene Neighboring gene STARR-seq mESC enhancer starr_27375 Neighboring gene STARR-seq mESC enhancer starr_27376 Neighboring gene STARR-positive B cell enhancer ABC_E9798 Neighboring gene STARR-seq mESC enhancer starr_27377 Neighboring gene thioredoxin reductase 1 Neighboring gene STARR-seq mESC enhancer starr_27378 Neighboring gene predicted gene, 38560

    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. HCF-2 inhibits cell proliferation and activates differentiation-gene expression programs. Gudkova D, et al. Nucleic Acids Res, 2019 Jun 20. PMID 31049581, Free PMC Article
    2. HCFC2 is needed for IRF1- and IRF2-dependent Tlr3 transcription and for survival during viral infections. Sun L, et al. J Exp Med, 2017 Nov 6. PMID 28970238, Free PMC Article
    3. Dual role of Fam208a during zygotic cleavage and early embryonic development. Gresakova V, et al. Exp Cell Res, 2021 Sep 15. PMID 34216590
    4. The TRIM9/TRIM67 neuronal interactome reveals novel activators of morphogenesis. Menon S, et al. Mol Biol Cell, 2021 Feb 15. PMID 33378226, Free PMC Article
    5. GenePaint.org: an atlas of gene expression patterns in the mouse embryo. Visel A, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681479, Free PMC Article

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. HCF-2 is broadly present in human and mouse cells, and possesses activities distinct from HCF-1
      Title: HCF-2 inhibits cell proliferation and activates differentiation-gene expression programs.
    2. Data show that HCFC2 is a critical component of the IRF1 and IRF2 transcriptional machinery that regulates Tlr3 gene expression.
      Title: HCFC2 is needed for IRF1- and IRF2-dependent Tlr3 transcription and for survival during viral infections.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    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 transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription coregulator activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within antiviral innate immune response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within immune response involved in response to exogenous dsRNA IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of RNA polymerase II regulatory region sequence-specific DNA binding IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of toll-like receptor 3 signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    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_001081218.1 → NP_001074687.1  host cell factor 2 isoform 1

      See identical proteins and their annotated locations for NP_001074687.1

      Status: VALIDATED

      Source sequence(s)
      AC152980, AC155709
      Consensus CDS
      CCDS36014.1
      UniProtKB/Swiss-Prot
      G5E837, Q9D968
      Related
      ENSMUSP00000020478.8, ENSMUST00000020478.14
      Conserved Domains (3) summary
      PLN02193
      Location:2 → 262
      PLN02193; nitrile-specifier protein
      cd00063
      Location:547 → 601
      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:245 → 312
      Kelch; KELCH repeat [structural motif]

    2. NM_001368720.1 → NP_001355649.1  host cell factor 2 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC152980, AC155709
      Conserved Domains (3) summary
      PLN02193
      Location:2 → 262
      PLN02193; nitrile-specifier protein
      cd00063
      Location:547 → 601
      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:245 → 312
      Kelch; KELCH repeat [structural 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_000076.7 Reference GRCm39 C57BL/6J

      Range
      82534841..82631699
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030245241.1 → XP_030101101.1  host cell factor 2 isoform X1

      Conserved Domains (3) summary
      PLN02193
      Location:2 → 262
      PLN02193; nitrile-specifier protein
      cd00063
      Location:547 → 601
      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:245 → 312
      Kelch; KELCH repeat [structural motif]

    2. XM_030245242.1 → XP_030101102.1  host cell factor 2 isoform X2

      Conserved Domains (3) summary
      PLN02193
      Location:2 → 262
      PLN02193; nitrile-specifier protein
      cd00063
      Location:547 → 601
      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:245 → 312
      Kelch; KELCH repeat [structural motif]

    3. XM_011243545.4 → XP_011241847.1  host cell factor 2 isoform X5

      Conserved Domains (3) summary
      PLN02193
      Location:2 → 262
      PLN02193; nitrile-specifier protein
      cd00063
      Location:547 → 601
      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:245 → 312
      Kelch; KELCH repeat [structural motif]

    4. XM_030245243.1 → XP_030101103.1  host cell factor 2 isoform X3

      Conserved Domains (3) summary
      PLN02193
      Location:2 → 262
      PLN02193; nitrile-specifier protein
      cd00063
      Location:547 → 601
      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:245 → 312
      Kelch; KELCH repeat [structural motif]

    5. XM_011243544.3 → XP_011241846.1  host cell factor 2 isoform X4

      Conserved Domains (3) summary
      PLN02193
      Location:2 → 262
      PLN02193; nitrile-specifier protein
      cd00063
      Location:547 → 601
      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:245 → 312
      Kelch; KELCH repeat [structural motif]

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_026462.1: Suppressed sequence

      Description
      NM_026462.1: This RefSeq was removed because the CDS was partial.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D968.2 GenPept UniProtKB/Swiss-Prot:Q9D968

    Gene LinkOut

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