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    Atf4 activating transcription factor 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 79255, updated on 9-Dec-2024

    Summary

    Official Symbol
    Atf4provided by RGD
    Official Full Name
    activating transcription factor 4provided by RGD
    Primary source
    RGD:621863
    See related
    EnsemblRapid:ENSRNOG00000017801 AllianceGenome:RGD:621863
    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
    Summary
    Enables DNA-binding transcription factor binding activity and general transcription initiation factor binding activity. Involved in several processes, including gamma-aminobutyric acid signaling pathway; negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway; and response to manganese-induced endoplasmic reticulum stress. Located in dendrite membrane. Biomarker of borna disease and pulmonary venoocclusive disease. Human ortholog(s) of this gene implicated in prostate carcinoma. Orthologous to human ATF4 (activating transcription factor 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Muscle (RPKM 892.6), Lung (RPKM 714.1) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Atf4 in Genome Data Viewer
    Location:
    7q34
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (113684681..113686739)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (111804135..111806457)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (121480723..121482781)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene beta-1,4-mannosyl-glycoprotein 4-beta-N-acetylglucosaminyltransferase Neighboring gene mitochondrial ribosome and complex I assembly factor AltMIEF1 Neighboring gene mitochondrial elongation factor 1 Neighboring gene ribosomal protein S19 binding protein 1 Neighboring gene calcium voltage-gated channel subunit alpha1 I Neighboring gene uncharacterized LOC134479941

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Items 1 - 25 of 28
    Function Evidence Code Pubs
    enables DNA binding  
    enables DNA binding  
    enables DNA-binding transcription activator activity, RNA polymerase II-specific  
    enables DNA-binding transcription activator activity, RNA polymerase II-specific  
    enables DNA-binding transcription factor activity  
    enables DNA-binding transcription factor activity  
    contributes_to DNA-binding transcription factor activity, RNA polymerase II-specific  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific  
    enables DNA-binding transcription factor binding PubMed 
    contributes_to RNA polymerase II cis-regulatory region sequence-specific DNA binding  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding  
    enables RNA polymerase II-specific DNA-binding transcription factor binding  
    enables cAMP response element binding protein binding  
    enables cAMP response element binding protein binding  
    enables general transcription initiation factor binding PubMed 
    enables identical protein binding  
    enables leucine zipper domain binding  
    enables promoter-specific chromatin binding  
    enables protein binding PubMed 
    enables protein heterodimerization activity  
    enables protein heterodimerization activity  
    enables protein kinase binding  
    enables sequence-specific DNA binding  
    enables sequence-specific double-stranded DNA binding  
    contributes_to transcription cis-regulatory region binding  
    enables transcription cis-regulatory region binding  
    Items 1 - 25 of 28
    Items 1 - 25 of 74
    Process Evidence Code Pubs
    involved_in HRI-mediated signaling  
    involved_in HRI-mediated signaling  
    involved_in L-asparagine metabolic process  
    involved_in PERK-mediated unfolded protein response  
    involved_in PERK-mediated unfolded protein response  
    involved_in bone mineralization  
    involved_in bone mineralization  
    involved_in cellular response to UV  
    involved_in cellular response to amino acid starvation  
    involved_in cellular response to amino acid starvation  
    involved_in cellular response to glucose starvation  
    involved_in cellular response to hypoxia PubMed 
    involved_in cellular response to leucine starvation  
    involved_in cellular response to oxidative stress PubMed 
    involved_in cellular response to oxidative stress  
    involved_in cellular response to oxidative stress  
    involved_in circadian regulation of gene expression  
    involved_in circadian regulation of gene expression  
    involved_in circadian rhythm  
    involved_in embryonic hemopoiesis  
    involved_in embryonic hemopoiesis  
    involved_in endoplasmic reticulum unfolded protein response  
    involved_in endoplasmic reticulum unfolded protein response  
    involved_in gamma-aminobutyric acid signaling pathway PubMed 
    acts_upstream_of_or_within gluconeogenesis  
    involved_in integrated stress response signaling  
    involved_in integrated stress response signaling  
    acts_upstream_of_or_within intracellular calcium ion homeostasis  
    involved_in intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress  
    involved_in intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress  
    involved_in lens fiber cell morphogenesis  
    involved_in lens fiber cell morphogenesis  
    involved_in mRNA transcription by RNA polymerase II  
    involved_in mRNA transcription by RNA polymerase II  
    involved_in negative regulation of cold-induced thermogenesis  
    involved_in negative regulation of cold-induced thermogenesis PubMed 
    involved_in negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway PubMed 
    involved_in negative regulation of oxidative stress-induced neuron intrinsic apoptotic signaling pathway  
    involved_in negative regulation of potassium ion transport PubMed 
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of translational initiation in response to stress  
    involved_in neuron differentiation PubMed 
    involved_in positive regulation of DNA-templated transcription  
    involved_in positive regulation of DNA-templated transcription  
    acts_upstream_of_or_within positive regulation of biomineral tissue development  
    acts_upstream_of_or_within positive regulation of gene expression  
    involved_in positive regulation of gene expression  
    involved_in positive regulation of neuron apoptotic process  
    involved_in positive regulation of neuron apoptotic process  
    acts_upstream_of_or_within positive regulation of sodium-dependent phosphate transport  
    involved_in positive regulation of transcription by RNA polymerase I  
    involved_in positive regulation of transcription by RNA polymerase II PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II  
    involved_in positive regulation of transcription by RNA polymerase II  
    involved_in positive regulation of transcription by RNA polymerase II  
    acts_upstream_of_or_within positive regulation of vascular associated smooth muscle cell apoptotic process  
    involved_in positive regulation of vascular endothelial growth factor production  
    acts_upstream_of_or_within regulation of DNA-templated transcription  
    involved_in regulation of DNA-templated transcription  
    involved_in regulation of DNA-templated transcription  
    involved_in regulation of osteoblast differentiation  
    involved_in regulation of osteoblast differentiation  
    involved_in regulation of synaptic plasticity  
    involved_in regulation of synaptic plasticity  
    involved_in regulation of transcription by RNA polymerase II  
    acts_upstream_of_or_within regulation of transcription by RNA polymerase II  
    involved_in regulation of transcription by RNA polymerase II  
    involved_in response to endoplasmic reticulum stress  
    involved_in response to endoplasmic reticulum stress  
    involved_in response to manganese-induced endoplasmic reticulum stress PubMed 
    involved_in response to nutrient levels  
    involved_in response to toxic substance PubMed 
    acts_upstream_of transcription by RNA polymerase II  
    Items 1 - 25 of 74
    Component Evidence Code Pubs
    part_of ATF1-ATF4 transcription factor complex  
    part_of ATF1-ATF4 transcription factor complex  
    part_of ATF4-CREB1 transcription factor complex  
    part_of ATF4-CREB1 transcription factor complex  
    part_of CHOP-ATF4 complex  
    located_in Lewy body core  
    part_of RNA polymerase II transcription regulator complex  
    located_in centrosome  
    located_in cytoplasm  
    located_in dendrite membrane PubMed 
    located_in neuron projection  
    located_in nuclear periphery  
    located_in nuclear speck  
    located_in nucleoplasm  
    located_in nucleoplasm  
    is_active_in nucleus  
    located_in nucleus  
    part_of protein-containing complex  
    part_of transcription regulator complex  

    General protein information

    Preferred Names
    cyclic AMP-dependent transcription factor ATF-4
    Names
    activating transcription factor 4 (tax-responsive enhancer element B67)
    activating transcription factor ATF-4
    cAMP-dependent transcription factor ATF-4
    rATF-4

    NCBI Reference Sequences (RefSeq)

    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_024403.2NP_077379.1  cyclic AMP-dependent transcription factor ATF-4

      See identical proteins and their annotated locations for NP_077379.1

      Status: VALIDATED

      Source sequence(s)
      BC158588, JAXUCZ010000007
      UniProtKB/Swiss-Prot
      Q9ES19
      UniProtKB/TrEMBL
      B0BMW3
      Related
      ENSRNOP00000060302.1, ENSRNOT00000065304.6
      Conserved Domains (1) summary
      cd14692
      Location:275337
      bZIP_ATF4; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-4 (ATF-4) and similar proteins: a DNA-binding and dimerization 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
      113684681..113686739
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039079942.2XP_038935870.1  cyclic AMP-dependent transcription factor ATF-4 isoform X1

      Conserved Domains (1) summary
      cd14692
      Location:229291
      bZIP_ATF4; Basic leucine zipper (bZIP) domain of Activating Transcription Factor-4 (ATF-4) and similar proteins: a DNA-binding and dimerization domain
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