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    Hcfc1 host cell factor C1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 363519, updated on 6-Jun-2024

    Summary

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    Symbol
    Hcfc1provided by RGD
    Full Name
    host cell factor C1provided by RGD
    Primary source
    RGD:1563804
    See related
    Ensembl:ENSRNOG00000051948 AllianceGenome:RGD:1563804
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    HCF; HCF-1; RGD1563804
    Summary
    Predicted to enable several functions, including RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; identical protein binding activity; and transcription coactivator activity. Involved in cellular response to organic cyclic compound and negative regulation of transcription by RNA polymerase II. Located in several cellular components, including axon; dendrite; and nucleus. Human ortholog(s) of this gene implicated in methylmalonic acidemia and homocysteinemia cblX type. Orthologous to human HCFC1 (host cell factor C1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 140.5), Spleen (RPKM 110.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Hcfc1 in Genome Data Viewer
    Location:
    Xq37
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (156839100..156864132, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (151687779..151712688, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (156812012..156837227)

    Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene N(alpha)-acetyltransferase 10, NatA catalytic subunit Neighboring gene renin binding protein Neighboring gene small nucleolar RNA SNORA61 Neighboring gene interleukin-1 receptor-associated kinase 1 Neighboring gene microRNA 5132

    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. Transient reversal of episome silencing precedes VP16-dependent transcription during reactivation of latent HSV-1 in neurons. Kim JY, et al. PLoS Pathog, 2012 Feb. PMID 22383875, Free PMC Article
    2. Nuclear localization of the C1 factor (host cell factor) in sensory neurons correlates with reactivation of herpes simplex virus from latency. Kristie TM, et al. Proc Natl Acad Sci U S A, 1999 Feb 16. PMID 9990006, Free PMC Article
    3. The cellular C1 factor of the herpes simplex virus enhancer complex is a family of polypeptides. Kristie TM, et al. J Biol Chem, 1995 Mar 3. PMID 7876203
    4. The transcriptional co-regulator HCF-1 is required for INS-1 β-cell glucose-stimulated insulin secretion. Iwata TN, et al. PLoS One, 2013. PMID 24250814, Free PMC Article
    5. Cell death of chondrocytes is a combination between apoptosis and autophagy during the pathogenesis of Osteoarthritis within an experimental model. Almonte-Becerril M, et al. Apoptosis, 2010 May. PMID 20091349

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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 RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables chromatin binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    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-macromolecule adaptor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription coactivator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coactivator activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within blastocyst hatching ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cellular response to organic cyclic compound IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of insulin secretion involved in cellular response to glucose stimulus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein stabilization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of protein-containing complex assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of protein-containing complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in release from viral latency 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 NSL complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of NSL 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 axon IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in dendrite IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of histone acetyltransferase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of histone methyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in neuronal cell body IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in neuronal cell body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear chromosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    host cell factor 1
    Names
    C1 factor
    host cell factor 1-like

    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_001414734.2 → NP_001401663.1  host cell factor 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000021
      UniProtKB/Swiss-Prot
      D3ZN95
      UniProtKB/TrEMBL
      A6KRT1

    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_086039.1 Reference GRCr8

      Range
      156839100..156864132 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006229596.5 → XP_006229658.1  host cell factor 1 isoform X3

      UniProtKB/Swiss-Prot
      D3ZN95
      Related
      ENSRNOP00000073793.2
      Conserved Domains (6) summary
      PLN02153
      Location:12 → 330
      PLN02153; epithiospecifier protein
      cd00063
      Location:1868 → 1897
      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:200 → 253
      Kelch; KELCH repeat [structural motif]
      pfam01344
      Location:32 → 69
      Kelch_1; Kelch motif
      pfam13415
      Location:215 → 263
      Kelch_3; Galactose oxidase, central domain
      pfam13854
      Location:134 → 179
      Kelch_5; Kelch motif

    2. XM_006229594.5 → XP_006229656.1  host cell factor 1 isoform X2

      UniProtKB/Swiss-Prot
      D3ZN95
      Related
      ENSRNOP00000084541.1
      Conserved Domains (6) summary
      PLN02153
      Location:12 → 330
      PLN02153; epithiospecifier protein
      cd00063
      Location:1911 → 1940
      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:200 → 253
      Kelch; KELCH repeat [structural motif]
      pfam01344
      Location:32 → 69
      Kelch_1; Kelch motif
      pfam13415
      Location:215 → 263
      Kelch_3; Galactose oxidase, central domain
      pfam13854
      Location:134 → 179
      Kelch_5; Kelch motif

    3. XM_006229593.5 → XP_006229655.1  host cell factor 1 isoform X1

      UniProtKB/Swiss-Prot
      D3ZN95
      UniProtKB/TrEMBL
      A0A8I5ZS53
      Related
      ENSRNOP00000081395.1
      Conserved Domains (6) summary
      PLN02153
      Location:12 → 330
      PLN02153; epithiospecifier protein
      cd00063
      Location:1912 → 1941
      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:200 → 253
      Kelch; KELCH repeat [structural motif]
      pfam01344
      Location:32 → 69
      Kelch_1; Kelch motif
      pfam13415
      Location:215 → 263
      Kelch_3; Galactose oxidase, central domain
      pfam13854
      Location:134 → 179
      Kelch_5; Kelch motif

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001139507.2: Suppressed sequence

      Description
      NM_001139507.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    D3ZN95.1 GenPept UniProtKB/Swiss-Prot:D3ZN95

    Gene LinkOut

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

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