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    Nfic nuclear factor I/C [ Rattus norvegicus (Norway rat) ]

    Gene ID: 29228, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Nficprovided by RGD
    Official Full Name
    nuclear factor I/Cprovided by RGD
    Primary source
    RGD:62016
    See related
    EnsemblRapid:ENSRNOG00000004505 AllianceGenome:RGD:62016
    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
    Enables cis-regulatory region sequence-specific DNA binding activity. Involved in negative regulation of DNA-templated transcription. Predicted to be located in fibrillar center and nucleoplasm. Predicted to be active in nucleus. Orthologous to human NFIC (nuclear factor I C). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Muscle (RPKM 108.3), Heart (RPKM 61.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Nfic in Genome Data Viewer
    Location:
    7q11
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (8928423..8963455)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (8278210..8309936)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (11151941..11179544)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene nicalin Neighboring gene CUGBP, Elav-like family member 5 Neighboring gene uncharacterized LOC120093769 Neighboring gene small integral membrane protein 24 Neighboring gene small integral membrane protein 44

    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 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. NFIC promotes the vitality and osteogenic differentiation of rat dental follicle cells. Zhang F, et al. J Mol Histol, 2019 Oct. PMID 31432308
    2. Expression of Nfic during root formation in first mandibular molar of rat. Chen X, et al. J Mol Histol, 2014 Dec. PMID 25074584
    3. Essential role for NFI-C/CTF transcription-replication factor in tooth root development. Steele-Perkins G, et al. Mol Cell Biol, 2003 Feb. PMID 12529411, Free PMC Article
    4. Nuclear factor I-C (NFIC) regulates dentin sialophosphoprotein (DSPP) and E-cadherin via control of Krüppel-like factor 4 (KLF4) during dentinogenesis. Lee HK, et al. J Biol Chem, 2014 Oct 10. PMID 25138274, Free PMC Article
    5. Organization of gene structure and expression of nuclear factor 1 family in rat. Osada S, et al. DNA Seq, 2005 Apr. PMID 16147868

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. pregulation of NFIC may promote the proliferation and osteogenic/cementogenic differentiation of dental follicle cells.
      Title: NFIC promotes the vitality and osteogenic differentiation of rat dental follicle cells.
    2. Nfic mRNA expression in dental papilla cells is elevated by the presence of Hertwig's epithelial root sheath cells.
      Title: Expression of Nfic during root formation in first mandibular molar of rat.
    3. NFIC regulates DSPP and E-cadherin via control of KLF4 during dentinogenesis.
      Title: Nuclear factor I-C (NFIC) regulates dentin sialophosphoprotein (DSPP) and E-cadherin via control of Krüppel-like factor 4 (KLF4) during dentinogenesis.
    4. gene structure and expression analysis of nuclear factor 1 family in rat
      Title: Organization of gene structure and expression of nuclear factor 1 family in rat.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables cis-regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables sequence-specific double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA replication IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within 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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within odontogenesis of dentin-containing tooth ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in fibrillar center IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in fibrillar center ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    nuclear factor 1 C-type
    Names
    olfactory epithelium nuclear factor I-C

    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_031567.1 → NP_113755.1  nuclear factor 1 C-type

      See identical proteins and their annotated locations for NP_113755.1

      Status: PROVISIONAL

      Source sequence(s)
      AB012233
      UniProtKB/TrEMBL
      A0A8I5ZTI5, O70188
      Related
      ENSRNOP00000006168.6, ENSRNOT00000006168.9
      Conserved Domains (3) summary
      pfam10524
      Location:10 → 47
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      pfam00859
      Location:217 → 424
      CTF_NFI; CTF/NF-I family transcription modulation region
      cl00055
      Location:68 → 169
      MH1; N-terminal Mad Homology 1 (MH1) domain

    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
      8928423..8963455
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039078560.2 → XP_038934488.1  nuclear factor 1 C-type isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZYT8, A0A8I6AMP4
      Related
      ENSRNOP00000077960.2, ENSRNOT00000093863.2
      Conserved Domains (3) summary
      pfam10524
      Location:83 → 119
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      pfam00859
      Location:289 → 496
      CTF_NFI; CTF/NF-I family transcription modulation region
      cl00055
      Location:140 → 241
      MH1; N-terminal Mad Homology 1 (MH1) domain

    2. XM_039078561.2 → XP_038934489.1  nuclear factor 1 C-type isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZTI5
      Related
      ENSRNOP00000090255.2, ENSRNOT00000103665.2
      Conserved Domains (3) summary
      pfam10524
      Location:83 → 119
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      pfam00859
      Location:289 → 495
      CTF_NFI; CTF/NF-I family transcription modulation region
      cl00055
      Location:140 → 241
      MH1; N-terminal Mad Homology 1 (MH1) domain

    3. XM_006240850.5 → XP_006240912.1  nuclear factor 1 C-type isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZTI5, A0A8I5ZZR6
      Related
      ENSRNOP00000083709.2, ENSRNOT00000097025.2
      Conserved Domains (3) summary
      pfam10524
      Location:10 → 47
      NfI_DNAbd_pre-N; Nuclear factor I protein pre-N-terminus
      pfam00859
      Location:217 → 423
      CTF_NFI; CTF/NF-I family transcription modulation region
      cl00055
      Location:68 → 169
      MH1; N-terminal Mad Homology 1 (MH1) domain
    Nucleotide Protein Strain
    Heading Accession and Version

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