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

Gene ID: 225872, updated on 16-Oct-2021

Summary

Official Symbol
Npas4provided by MGI
Official Full Name
neuronal PAS domain protein 4provided by MGI
Primary source
MGI:MGI:2664186
See related
Ensembl:ENSMUSG00000045903
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
Expression
Broad expression in frontal lobe adult (RPKM 3.6), cortex adult (RPKM 2.3) and 17 other tissues See more
Orthologs
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Genomic context

See Npas4 in Genome Data Viewer
Location:
19; 19 A
Exon count:
10
Annotation release Status Assembly Chr Location
109 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)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 19 NC_000085.5 (4984355..4989971, complement)

Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene pellino 3 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

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4)  1 citation
  • Endonuclease-mediated (2) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding 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
PubMed 
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
PubMed 
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 dimerization activity IEA
Inferred from Electronic Annotation
more info
 
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 ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within 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 nervous system development IEA
Inferred from Electronic Annotation
more info
 
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
 
acts_upstream_of_or_within positive regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of transcription, DNA-templated IMP
Inferred from Mutant Phenotype
more info
PubMed 
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
PubMed 
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 nucleus IDA
Inferred from Direct Assay
more info
PubMed 
part_of transcription regulator complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

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_153553.5NP_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
    Q8BGD7
    Related
    ENSMUSP00000062992.8, ENSMUST00000056129.9
    Conserved Domains (3) summary
    smart00091
    Location:72135
    PAS; PAS domain
    pfam08447
    Location:230298
    PAS_3; PAS fold
    cd19697
    Location:257
    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: Mus musculus Annotation Release 109 details...Open this link in a new tab

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_036161526.1XP_036017419.1  neuronal PAS domain-containing protein 4 isoform X1

    Conserved Domains (3) summary
    smart00091
    Location:72135
    PAS; PAS domain
    pfam08447
    Location:230298
    PAS_3; PAS fold
    cd19697
    Location:257
    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_011248619.3XP_011246921.1  neuronal PAS domain-containing protein 4 isoform X1

    See identical proteins and their annotated locations for XP_011246921.1

    UniProtKB/Swiss-Prot
    Q8BGD7
    Conserved Domains (3) summary
    smart00091
    Location:72135
    PAS; PAS domain
    pfam08447
    Location:230298
    PAS_3; PAS fold
    cd19697
    Location:257
    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_030250872.2XP_030106732.1  neuronal PAS domain-containing protein 4 isoform X1

    Conserved Domains (3) summary
    smart00091
    Location:72135
    PAS; PAS domain
    pfam08447
    Location:230298
    PAS_3; PAS fold
    cd19697
    Location:257
    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
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