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

Gene ID: 363519, updated on 11-Apr-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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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 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/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

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