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

Gene ID: 67933, updated on 2-Nov-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
Enables transcription coregulator activity. Involved in regulation of transcription by RNA polymerase II. Acts upstream of or within antiviral innate immune response; immune response involved in response to exogenous dsRNA; and regulation of toll-like receptor 3 signaling pathway. Predicted to be located in cytosol; nuclear body; and plasma membrane. Predicted to be part of MLL1 complex and Set1C/COMPASS complex. Is expressed in central nervous system and retina. Orthologous to human HCFC2 (host cell factor C2). [provided by Alliance of Genome Resources, Nov 2024]
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 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 negative regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
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 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 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_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

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