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    Npas4 neuronal PAS domain protein 4 [ Mus musculus (house mouse) ]

    Gene ID: 225872, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Npas4provided by MGI
    Official Full Name
    neuronal PAS domain protein 4provided by MGI
    Primary source
    MGI:MGI:2664186
    See related
    Ensembl:ENSMUSG00000045903 AllianceGenome:MGI:2664186
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Nxf; LE-PAS
    Summary
    Enables DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and protein heterodimerization activity. Involved in several processes, including chemical postsynaptic transmission; learning or memory; and modulation of chemical synaptic transmission. Acts upstream of or within cellular response to corticosterone stimulus and positive regulation of transcription by RNA polymerase II. Located in nucleus. Part of transcription regulator complex. Is expressed in several structures, including central nervous system; future forebrain; and urinary system. Orthologous to human NPAS4 (neuronal PAS domain protein 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in frontal lobe adult (RPKM 3.6), cortex adult (RPKM 2.3) and 17 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Npas4 in Genome Data Viewer
    Location:
    19 A; 19 4.2 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (5034381..5053467, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (4984353..5003439, complement)

    Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene pellino 3 Neighboring gene STARR-seq mESC enhancer starr_45369 Neighboring gene STARR-seq mESC enhancer starr_45370 Neighboring gene mitochondrial ribosomal protein L11 Neighboring gene solute carrier family 29 (nucleoside transporters), member 2 Neighboring gene nuclear encoded tRNA serine 6 (anticodon GCT) Neighboring gene predicted gene, 30581

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Stress increases DNA methylation of the neuronal PAS domain 4 (Npas4) gene. Furukawa-Hibi Y, et al. Neuroreport, 2015 Sep 30. PMID 26222956
    2. Phosphorylation of Npas4 by MAPK Regulates Reward-Related Gene Expression and Behaviors. Funahashi Y, et al. Cell Rep, 2019 Dec 3. PMID 31801086
    3. Cell-Type-Specific Regulation of Nucleus Accumbens Synaptic Plasticity and Cocaine Reward Sensitivity by the Circadian Protein, NPAS2. Parekh PK, et al. J Neurosci, 2019 Jun 12. PMID 30962277, Free PMC Article
    4. Environmental enrichment improves pain sensitivity, depression-like phenotype, and memory deficit in mice with neuropathic pain: role of NPAS4. Wang XM, et al. Psychopharmacology (Berl), 2019 Jul. PMID 30798405
    5. NPAS4 recruits CCK basket cell synapses and enhances cannabinoid-sensitive inhibition in the mouse hippocampus. Hartzell AL, et al. Elife, 2018 Jul 27. PMID 30052197, Free PMC Article

    See all (80) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Brain regions differences in amyloid-beta and gene expression in early APP/PS1 mice and identification of Npas4 as a key molecule in Alzheimer's disease.
      Title: Brain regions differences in amyloid-β and gene expression in early APP/PS1 mice and identification of Npas4 as a key molecule in Alzheimer's disease.
    2. NPAS4 Exacerbates Pyroptosis via Transcriptionally Regulating NLRP6 in the Acute Phase of Intracerebral Hemorrhage in Mice.
      Title: NPAS4 Exacerbates Pyroptosis via Transcriptionally Regulating NLRP6 in the Acute Phase of Intracerebral Hemorrhage in Mice.
    3. NPAS4 in the medial prefrontal cortex mediates chronic social defeat stress-induced anhedonia-like behavior and reductions in excitatory synapses.
      Title: NPAS4 in the medial prefrontal cortex mediates chronic social defeat stress-induced anhedonia-like behavior and reductions in excitatory synapses.
    4. Functionally distinct NPAS4-expressing somatostatin interneuron ensembles critical for motor skill learning.
      Title: Functionally distinct NPAS4-expressing somatostatin interneuron ensembles critical for motor skill learning.
    5. Npas4 regulates medium spiny neuron physiology and gates cocaine-induced hyperlocomotion.
      Title: Npas4 regulates medium spiny neuron physiology and gates cocaine-induced hyperlocomotion.
    6. Npas4 regulates IQSEC3 expression in hippocampal somatostatin interneurons to mediate anxiety-like behavior.
      Title: Npas4 regulates IQSEC3 expression in hippocampal somatostatin interneurons to mediate anxiety-like behavior.
    7. Dysregulation of Npas4 and Inhba expression and an altered excitation-inhibition balance are associated with cognitive deficits in DBA/2 mice.
      Title: Dysregulation of Npas4 and Inhba expression and an altered excitation-inhibition balance are associated with cognitive deficits in DBA/2 mice.
    8. Ras-like Gem GTPase induced by Npas4 promotes activity-dependent neuronal tolerance for ischemic stroke.
      Title: Ras-like Gem GTPase induced by Npas4 promotes activity-dependent neuronal tolerance for ischemic stroke.
    9. NPAS4 suppresses propofol-induced neurotoxicity by inhibiting autophagy in hippocampal neuronal cells.
      Title: NPAS4 suppresses propofol-induced neurotoxicity by inhibiting autophagy in hippocampal neuronal cells.
    10. NPAS4 regulates the transcriptional response of the suprachiasmatic nucleus to light and circadian behavior.
      Title: NPAS4 regulates the transcriptional response of the suprachiasmatic nucleus to light and circadian behavior.
    Submit: New GeneRIF Correction See all GeneRIFs (47)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (5)  1 citation

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription activator activity, RNA polymerase II-specific 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 DNA-binding transcription factor activity, RNA polymerase II-specific IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein heterodimerization activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein heterodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein-containing complex binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein-containing complex binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within cellular response to acid chemical IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within cellular response to corticosterone stimulus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within cellular response to stress IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in excitatory postsynaptic potential IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within inhibitory postsynaptic potential IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in inhibitory postsynaptic potential IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in inhibitory synapse assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in learning IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in long-term memory IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of synaptic plasticity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of synaptic transmission, GABAergic IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in short-term memory IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in social behavior IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in postsynapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of transcription regulator complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    neuronal PAS domain-containing protein 4
    Names
    HLH-PAS transcription factor NXF
    bHLH-PAS type transcription factor NXF
    limbic-enhanced PAS protein
    neuronal PAS4

    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_153553.5 → NP_705781.1  neuronal PAS domain-containing protein 4

      See identical proteins and their annotated locations for NP_705781.1

      Status: VALIDATED

      Source sequence(s)
      AC124502
      Consensus CDS
      CCDS29445.1
      UniProtKB/Swiss-Prot
      Q3V3U3, Q8BGD7
      UniProtKB/TrEMBL
      A1L327
      Related
      ENSMUSP00000062992.8, ENSMUST00000056129.9
      Conserved Domains (3) summary
      smart00091
      Location:72 → 135
      PAS; PAS domain
      pfam08447
      Location:230 → 298
      PAS_3; PAS fold
      cd19697
      Location:2 → 57
      bHLH-PAS_NPAS4_PASD10; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in neuronal PAS domain-containing protein 4 (NPAS4) and similar proteins

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000085.7 Reference GRCm39 C57BL/6J

      Range
      5034381..5053467 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036161526.1 → XP_036017419.1  neuronal PAS domain-containing protein 4 isoform X1

      UniProtKB/Swiss-Prot
      Q3V3U3, Q8BGD7
      UniProtKB/TrEMBL
      A1L327
      Conserved Domains (3) summary
      smart00091
      Location:72 → 135
      PAS; PAS domain
      pfam08447
      Location:230 → 298
      PAS_3; PAS fold
      cd19697
      Location:2 → 57
      bHLH-PAS_NPAS4_PASD10; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in neuronal PAS domain-containing protein 4 (NPAS4) and similar proteins

    2. XM_011248619.3 → XP_011246921.1  neuronal PAS domain-containing protein 4 isoform X1

      See identical proteins and their annotated locations for XP_011246921.1

      UniProtKB/Swiss-Prot
      Q3V3U3, Q8BGD7
      UniProtKB/TrEMBL
      A1L327
      Conserved Domains (3) summary
      smart00091
      Location:72 → 135
      PAS; PAS domain
      pfam08447
      Location:230 → 298
      PAS_3; PAS fold
      cd19697
      Location:2 → 57
      bHLH-PAS_NPAS4_PASD10; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in neuronal PAS domain-containing protein 4 (NPAS4) and similar proteins

    3. XM_030250872.2 → XP_030106732.1  neuronal PAS domain-containing protein 4 isoform X1

      UniProtKB/Swiss-Prot
      Q3V3U3, Q8BGD7
      UniProtKB/TrEMBL
      A1L327
      Conserved Domains (3) summary
      smart00091
      Location:72 → 135
      PAS; PAS domain
      pfam08447
      Location:230 → 298
      PAS_3; PAS fold
      cd19697
      Location:2 → 57
      bHLH-PAS_NPAS4_PASD10; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in neuronal PAS domain-containing protein 4 (NPAS4) and similar proteins
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BGD7.1 GenPept UniProtKB/Swiss-Prot:Q8BGD7

    Gene LinkOut

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

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