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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

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