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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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