U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Nfil3 nuclear factor, interleukin 3 regulated [ Rattus norvegicus (Norway rat) ]

    Gene ID: 114519, updated on 3-Apr-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Nfil3provided by RGD
    Official Full Name
    nuclear factor, interleukin 3 regulatedprovided by RGD
    Primary source
    RGD:620972
    See related
    Ensembl:ENSRNOG00000011668 AllianceGenome:RGD:620972
    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
    E4BP4
    Summary
    The protein encoded by this gene is a transcriptional regulator that binds as a homodimer to activating transcription factor (ATF) sites in many cellular and viral promoters. The encoded protein represses Per1 and Per2 expression and therefore plays a role in the regulation of circadian rhythm. [provided by RefSeq, Feb 2014]
    Expression
    Biased expression in Liver (RPKM 77.6), Adrenal (RPKM 45.5) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Location:
    17p14
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (12432376..12447605)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (12280499..12295728)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (12261102..12276316)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC108353155 Neighboring gene uncharacterized LOC120097877 Neighboring gene AU RNA binding methylglutaconyl-CoA hydratase Neighboring gene uncharacterized LOC134482816

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. A role for nuclear factor interleukin-3 (NFIL3), a critical transcriptional repressor, in down-regulation of periovulatory gene expression. Li F, et al. Mol Endocrinol, 2011 Mar. PMID 21212137, Free PMC Article
    2. Genome-wide gene expression and promoter binding analysis identifies NFIL3 as a repressor of C/EBP target genes in neuronal outgrowth. MacGillavry HD, et al. Mol Cell Neurosci, 2011 Feb. PMID 21112399
    3. Genetic Deletion of the Transcriptional Repressor NFIL3 Enhances Axon Growth In Vitro but Not Axonal Repair In Vivo. van der Kallen LR, et al. PLoS One, 2015. PMID 25993115, Free PMC Article
    4. NFIL3 suppresses hypoxia-induced apoptotic cell death by targeting the insulin-like growth factor 2 receptor. Lin KH, et al. J Cell Biochem, 2015 Jun. PMID 25536374
    5. Cellular DBP and E4BP4 proteins are critical for determining the period length of the circadian oscillator. Yamajuku D, et al. FEBS Lett, 2011 Jul 21. PMID 21635892

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. removal of NFIL3 in vivo does not recapitulate the regeneration-promoting effects that were previously observed in vitro.
      Title: Genetic Deletion of the Transcriptional Repressor NFIL3 Enhances Axon Growth In Vitro but Not Axonal Repair In Vivo.
    2. results demonstrate that NFIL3 is an important negative transcription factor, which through binding to the promoter of IGF2R, suppresses the apoptosis induced by IGF2R signaling in H9c2 cardiomyoblast cells under hypoxic conditions.
      Title: NFIL3 suppresses hypoxia-induced apoptotic cell death by targeting the insulin-like growth factor 2 receptor.
    3. Data show that knockdown of DBP, D-box positive regulator, led to a short-period phenotype, and overexpression of DBP produced a long-period rhythm, while knockdown and overexpression of E4BP4, D-box negative regulator, had the opposite effect of DBP.
      Title: Cellular DBP and E4BP4 proteins are critical for determining the period length of the circadian oscillator.
    4. hCG induction of NFIL3 expression may modulate the process of ovulation and theca-interstitial and granulosa cell differentiation.
      Title: A role for nuclear factor interleukin-3 (NFIL3), a critical transcriptional repressor, in down-regulation of periovulatory gene expression.
    5. NFIL3 is a general feed-forward repressor of basic leucine zipper transcription factors that control neurite outgrowth.
      Title: Genome-wide gene expression and promoter binding analysis identifies NFIL3 as a repressor of C/EBP target genes in neuronal outgrowth.
    6. Pathways regulated by E4BP4 are of potential interest both for understanding neuromuscular development and for promoting neuronal survival and regeneration in pathological situations
      Title: The CES-2-related transcription factor E4BP4 is an intrinsic regulator of motoneuron growth and survival.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific 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 RNA polymerase II transcription regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within cellular response to interleukin-4 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in circadian rhythm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in natural killer cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in natural killer cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within positive regulation of gene expression 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 transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of RNA polymerase II transcription regulator complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    nuclear factor interleukin-3-regulated protein
    Names
    E4 promoter-binding protein 4

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_053727.2 → NP_446179.2  nuclear factor interleukin-3-regulated protein

      See identical proteins and their annotated locations for NP_446179.2

      Status: VALIDATED

      Source sequence(s)
      BC072527
      UniProtKB/Swiss-Prot
      Q6IMZ0, Q923M2
      UniProtKB/TrEMBL
      A6J6R4
      Related
      ENSRNOP00000015525.3, ENSRNOT00000015525.7
      Conserved Domains (2) summary
      cd14694
      Location:72 → 131
      bZIP_NFIL3; Basic leucine zipper (bZIP) domain of Nuclear factor interleukin-3-regulated protein (NFIL3): a DNA-binding and dimerization domain
      pfam06529
      Location:130 → 461
      Vert_IL3-reg_TF; Vertebrate interleukin-3 regulated transcription factor

    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_086035.1 Reference GRCr8

      Range
      12432376..12447605
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063276018.1 → XP_063132088.1  nuclear factor interleukin-3-regulated protein isoform X1

      UniProtKB/Swiss-Prot
      Q6IMZ0, Q923M2
      UniProtKB/TrEMBL
      A6J6R4

    2. XM_039095285.2 → XP_038951213.1  nuclear factor interleukin-3-regulated protein isoform X1

      UniProtKB/Swiss-Prot
      Q6IMZ0, Q923M2
      UniProtKB/TrEMBL
      A6J6R4
      Related
      ENSRNOP00000089110.1
      Conserved Domains (2) summary
      cd14694
      Location:72 → 131
      bZIP_NFIL3; Basic leucine zipper (bZIP) domain of Nuclear factor interleukin-3-regulated protein (NFIL3): a DNA-binding and dimerization domain
      pfam06529
      Location:130 → 461
      Vert_IL3-reg_TF; Vertebrate interleukin-3 regulated transcription factor

    3. XM_006253669.4 → XP_006253731.1  nuclear factor interleukin-3-regulated protein isoform X1

      See identical proteins and their annotated locations for XP_006253731.1

      UniProtKB/Swiss-Prot
      Q6IMZ0, Q923M2
      UniProtKB/TrEMBL
      A6J6R4
      Related
      ENSRNOP00000090522.1
      Conserved Domains (2) summary
      cd14694
      Location:72 → 131
      bZIP_NFIL3; Basic leucine zipper (bZIP) domain of Nuclear factor interleukin-3-regulated protein (NFIL3): a DNA-binding and dimerization domain
      pfam06529
      Location:130 → 461
      Vert_IL3-reg_TF; Vertebrate interleukin-3 regulated transcription factor

    4. XM_006253670.5 → XP_006253732.1  nuclear factor interleukin-3-regulated protein isoform X1

      See identical proteins and their annotated locations for XP_006253732.1

      UniProtKB/Swiss-Prot
      Q6IMZ0, Q923M2
      UniProtKB/TrEMBL
      A6J6R4
      Conserved Domains (2) summary
      cd14694
      Location:72 → 131
      bZIP_NFIL3; Basic leucine zipper (bZIP) domain of Nuclear factor interleukin-3-regulated protein (NFIL3): a DNA-binding and dimerization domain
      pfam06529
      Location:130 → 461
      Vert_IL3-reg_TF; Vertebrate interleukin-3 regulated transcription factor

    5. XM_006253667.4 → XP_006253729.1  nuclear factor interleukin-3-regulated protein isoform X1

      See identical proteins and their annotated locations for XP_006253729.1

      UniProtKB/Swiss-Prot
      Q6IMZ0, Q923M2
      UniProtKB/TrEMBL
      A6J6R4
      Related
      ENSRNOP00000093138.1, ENSRNOT00000096237.1
      Conserved Domains (2) summary
      cd14694
      Location:72 → 131
      bZIP_NFIL3; Basic leucine zipper (bZIP) domain of Nuclear factor interleukin-3-regulated protein (NFIL3): a DNA-binding and dimerization domain
      pfam06529
      Location:130 → 461
      Vert_IL3-reg_TF; Vertebrate interleukin-3 regulated transcription factor
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6IMZ0.1 GenPept UniProtKB/Swiss-Prot:Q6IMZ0

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous