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Aliases for NPAS4 Gene

Aliases for NPAS4 Gene

  • Neuronal PAS Domain Protein 4 2 3
  • NXF 3 4 6
  • Class E Basic Helix-Loop-Helix Protein 79 3 4
  • HLH-PAS Transcription Factor NXF 3 4
  • PAS Domain-Containing Protein 10 3 4
  • Neuronal PAS4 3 4
  • BHLHe79 3 4
  • PASD10 3 4
  • Neuronal PAS Domain-Containing Protein 4 3
  • Le-PAS 3

External Ids for NPAS4 Gene

Summaries for NPAS4 Gene

Entrez Gene Summary for NPAS4 Gene

  • NXF is a member of the basic helix-loop-helix-PER (MIM 602260)-ARNT (MIM 126110)-SIM (see SIM2; MIM 600892) (bHLH-PAS) class of transcriptional regulators, which are involved in a wide range of physiologic and developmental events (Ooe et al., 2004 [PubMed 14701734]).[supplied by OMIM, Mar 2008]

GeneCards Summary for NPAS4 Gene

NPAS4 (Neuronal PAS Domain Protein 4) is a Protein Coding gene. GO annotations related to this gene include protein heterodimerization activity and signal transducer activity.

UniProtKB/Swiss-Prot for NPAS4 Gene

  • Acts as a transcriptional activator in the presence of ARNT. Can activate the CME (CNS midline enhancer) element and the expression of the drebrin gene.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NPAS4 Gene

Genomics for NPAS4 Gene

Genomic Location for NPAS4 Gene

66,421,004 bp from pter
66,426,707 bp from pter
5,704 bases
Plus strand

Genomic View for NPAS4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for NPAS4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NPAS4 Gene

Regulatory Elements for NPAS4 Gene

Proteins for NPAS4 Gene

  • Protein details for NPAS4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Neuronal PAS domain-containing protein 4
    Protein Accession:
    Secondary Accessions:
    • B7ZL81
    • Q8N8S5
    • Q8N9Q9

    Protein attributes for NPAS4 Gene

    802 amino acids
    Molecular mass:
    87117 Da
    Quaternary structure:
    • Efficient DNA binding requires dimerization with another bHLH protein. Forms a heterodimer with ARNT.
    • Sequence=BAC04271.1; Type=Frameshift; Positions=681; Evidence={ECO:0000305};

    Alternative splice isoforms for NPAS4 Gene


neXtProt entry for NPAS4 Gene

Proteomics data for NPAS4 Gene at MOPED

Post-translational modifications for NPAS4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for NPAS4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for NPAS4 Gene

Domains for NPAS4 Gene

Gene Families for NPAS4 Gene

  • bHLH :Basic helix-loop-helix proteins

Protein Domains for NPAS4 Gene



  • Contains 1 bHLH (basic helix-loop-helix) domain.:
    • Q8IUM7
  • Contains 1 PAC (PAS-associated C-terminal) domain.:
    • Q8IUM7
  • Contains 2 PAS (PER-ARNT-SIM) domains.:
    • Q8IUM7
genes like me logo Genes that share domains with NPAS4: view

Function for NPAS4 Gene

Molecular function for NPAS4 Gene

UniProtKB/Swiss-Prot Function: Acts as a transcriptional activator in the presence of ARNT. Can activate the CME (CNS midline enhancer) element and the expression of the drebrin gene.

Gene Ontology (GO) - Molecular Function for NPAS4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding IDA 14701734
GO:0001077 RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription IDA 14701734
GO:0003677 DNA binding --
GO:0004871 signal transducer activity IEA --
GO:0005515 protein binding --
genes like me logo Genes that share ontologies with NPAS4: view
genes like me logo Genes that share phenotypes with NPAS4: view

Animal Models for NPAS4 Gene

MGI Knock Outs for NPAS4:

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for NPAS4 Gene

Localization for NPAS4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for NPAS4 Gene

Subcellular locations from

Jensen Localization Image for NPAS4 Gene COMPARTMENTS Subcellular localization image for NPAS4 gene
Compartment Confidence
nucleus 5
cytosol 2
mitochondrion 1

Gene Ontology (GO) - Cellular Components for NPAS4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005667 transcription factor complex IEA --
genes like me logo Genes that share ontologies with NPAS4: view

Pathways for NPAS4 Gene

SuperPathways for NPAS4 Gene

No Data Available

Interacting Proteins for NPAS4 Gene

Gene Ontology (GO) - Biological Process for NPAS4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0007165 signal transduction IEA --
GO:0045893 positive regulation of transcription, DNA-templated --
GO:0045944 positive regulation of transcription from RNA polymerase II promoter IDA 14701734
genes like me logo Genes that share ontologies with NPAS4: view

No data available for Pathways by source for NPAS4 Gene

Transcripts for NPAS4 Gene

mRNA/cDNA for NPAS4 Gene

(2) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(13) Selected AceView cDNA sequences:
(3) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for NPAS4 Gene

Neuronal PAS domain protein 4:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for NPAS4 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b ^ 8
SP2: -

Relevant External Links for NPAS4 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for NPAS4 Gene

mRNA expression in normal human tissues for NPAS4 Gene

mRNA differential expression in normal tissues according to GTEx for NPAS4 Gene

This gene is overexpressed in Brain - Cerebellum (13.1), Brain - Cerebellar Hemisphere (10.9), and Pituitary (6.5).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for NPAS4 Gene

SOURCE GeneReport for Unigene cluster for NPAS4 Gene Hs.256036

mRNA Expression by UniProt/SwissProt for NPAS4 Gene

Tissue specificity: Brain.
genes like me logo Genes that share expressions with NPAS4: view

Orthologs for NPAS4 Gene

This gene was present in the common ancestor of animals.

Orthologs for NPAS4 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia NPAS4 36
  • 99.88 (n)
  • 99.88 (a)
NPAS4 37
  • 100 (a)
(Bos Taurus)
Mammalia NPAS4 36
  • 91.71 (n)
  • 93.47 (a)
NPAS4 37
  • 93 (a)
(Canis familiaris)
Mammalia NPAS4 36
  • 92.46 (n)
  • 95.75 (a)
NPAS4 37
  • 96 (a)
(Mus musculus)
Mammalia Npas4 36
  • 90.25 (n)
  • 93.12 (a)
Npas4 16
Npas4 37
  • 93 (a)
(Monodelphis domestica)
Mammalia NPAS4 37
  • 79 (a)
(Rattus norvegicus)
Mammalia Npas4 36
  • 90.21 (n)
  • 93.37 (a)
(Gallus gallus)
Aves LOC101750093 36
  • 53.43 (n)
  • 44.25 (a)
(Anolis carolinensis)
Reptilia NPAS4 37
  • 34 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia npas4 36
  • 55.71 (n)
  • 52.19 (a)
(Danio rerio)
Actinopterygii NPAS4 (2 of 3) 37
  • 46 (a)
npas4a 36
  • 59.53 (n)
  • 61.58 (a)
npas4a 37
  • 39 (a)
npas4b 37
  • 38 (a)
fruit fly
(Drosophila melanogaster)
Insecta dys 37
  • 19 (a)
(Caenorhabditis elegans)
Secernentea cky-1 37
  • 24 (a)
Species with no ortholog for NPAS4:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for NPAS4 Gene

Gene Tree for NPAS4 (if available)
Gene Tree for NPAS4 (if available)

Paralogs for NPAS4 Gene

Selected SIMAP similar genes for NPAS4 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with NPAS4: view

No data available for Paralogs for NPAS4 Gene

Variants for NPAS4 Gene

Sequence variations from dbSNP and Humsavar for NPAS4 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type MAF
rs7947391 -- 66,419,411(+) AGCGG(A/G)GAGTT upstream-variant-2KB
rs11227481 -- 66,419,273(+) ATGGC(C/T)CCAAC upstream-variant-2KB
rs34347343 -- 66,420,070(+) CCCCG(-/C)CCCCG upstream-variant-2KB
rs58752760 -- 66,419,526(+) CCAGC(C/T)ACTTA upstream-variant-2KB
rs61890361 -- 66,423,335(+) GATAA(C/T)AGAGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for NPAS4 Gene

Variant ID Type Subtype PubMed ID
dgv1187n71 CNV Loss 21882294
nsv897772 CNV Loss 21882294
nsv832193 CNV Loss 17160897

Relevant External Links for NPAS4 Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

Disorders for NPAS4 Gene

No disorders were found for NPAS4 Gene.

No data available for UniProtKB/Swiss-Prot for NPAS4 Gene

Publications for NPAS4 Gene

  1. Identification of a novel basic helix-loop-helix-PAS factor, NXF, reveals a Sim2 competitive, positive regulatory role in dendritic- cytoskeleton modulator drebrin gene expression. (PMID: 14701734) Ooe N. … Kaneko H. (Mol. Cell. Biol. 2004) 2 3 4
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  4. Large-scale genome-wide association analysis of bipolar disorder identifies a new susceptibility locus near ODZ4. (PMID: 21926972) (Nat. Genet. 2011) 3
  5. Human variants in the neuronal basic helix-loop-helix/Per-Arnt-Sim (bHLH/PAS) transcription factor complex NPAS4/ARNT2 disrupt function. (PMID: 24465693) Bersten D.C. … Whitelaw M.L. (PLoS ONE 2014) 3

Products for NPAS4 Gene

Sources for NPAS4 Gene

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