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

Gene ID: 114519, updated on 10-Jul-2024

Summary

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Official Symbol
Nfil3provided by RGD
Official Full Name
nuclear factor, interleukin 3 regulatedprovided by RGD
Primary source
RGD:620972
See related
EnsemblRapid: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
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Genomic context

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See Nfil3 in Genome Data Viewer
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

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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. 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

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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

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Preferred Names
nuclear factor interleukin-3-regulated protein
Names
E4 promoter-binding protein 4

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_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
    ENSRNOP00000093138.1, ENSRNOT00000096237.2
    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
    Related
    ENSRNOP00000090522.1, ENSRNOT00000096697.2

  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, ENSRNOT00000112357.2
    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
    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
    Related
    ENSRNOP00000104717.1, ENSRNOT00000144491.1
    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

  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
    ENSRNOP00000099686.1, ENSRNOT00000140464.1
    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

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