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Npas2 neuronal PAS domain protein 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 316351, updated on 28-Oct-2024

Summary

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Official Symbol
Npas2provided by RGD
Official Full Name
neuronal PAS domain protein 2provided by RGD
Primary source
RGD:1309681
See related
EnsemblRapid:ENSRNOG00000013408 AllianceGenome:RGD:1309681
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
The protein encoded by this gene is a member of the basic helix-loop-helix (bHLH)-PAS family of transcription factors. A similar mouse protein may play a regulatory role in the acquisition of specific types of memory. It also may function as a part of a molecular clock operative in the mammalian forebrain. [provided by RefSeq, Feb 2014]
Expression
Biased expression in Brain (RPKM 40.2), Adrenal (RPKM 33.0) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Npas2 in Genome Data Viewer
Location:
9q22
Exon count:
26
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (48959225..49138036)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (41463361..41642322)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (45901262..46081880)

Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108352023 Neighboring gene uncharacterized LOC134480360 Neighboring gene uncharacterized LOC120094670 Neighboring gene uncharacterized LOC134480570 Neighboring gene uncharacterized LOC120094671 Neighboring gene uncharacterized LOC134480361 Neighboring gene TBC1 domain family, member 8 Neighboring gene ribosomal protein L31 Neighboring gene uncharacterized LOC134480362

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 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. Prefrontal cortex and dorsomedial hypothalamus mediate food reward-induced effects via npas2 and egr1 expression in rat. Herichová I, et al. Physiol Res, 2017 Dec 30. PMID 29355377
  2. NPAS2 Regulation of Anxiety-Like Behavior and GABAA Receptors. Ozburn AR, et al. Front Mol Neurosci, 2017. PMID 29163035, Free PMC Article
  3. The circadian gene NPAS2, a putative tumor suppressor, is involved in DNA damage response. Hoffman AE, et al. Mol Cancer Res, 2008 Sep. PMID 18819933, Free PMC Article
  4. Effect of streptozotocin-induced diabetes on clock gene expression in tissues inside and outside the blood-brain barrier in rat. Šoltésová D, et al. Exp Clin Endocrinol Diabetes, 2013 Aug. PMID 23864491
  5. Effects of NAD(P)H and its derivatives on the DNA-binding activity of NPAS2, a mammalian circadian transcription factor. Yoshii K, et al. Biochem Biophys Res Commun, 2013 Aug 2. PMID 23831463

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. In the prefrontal cortex, food reward induced rhythm in the expression of npas2.
    Title: Prefrontal cortex and dorsomedial hypothalamus mediate food reward-induced effects via npas2 and egr1 expression in rat.
  2. Possible role of npas2 in locomotor activity regulation in diabetic animals. The most pronounced changes were observed in the frontal cortex, which displayed up-regulation of npas2 expression.
    Title: Effect of streptozotocin-induced diabetes on clock gene expression in tissues inside and outside the blood-brain barrier in rat.
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 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 Hsp90 protein binding ISO
Inferred from Sequence Orthology
more info
  
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein dimerization activity IEA
Inferred from Electronic Annotation
more info
  
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
  
involved_in circadian regulation of gene expression IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in circadian regulation of gene expression ISO
Inferred from Sequence Orthology
more info
  
involved_in circadian rhythm ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within circadian sleep/wake cycle ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within locomotor rhythm ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of DNA repair 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 behavioral fear response ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of circadian rhythm ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in response to redox state ISO
Inferred from Sequence Orthology
more info
  
involved_in response to xenobiotic stimulus ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of CLOCK-BMAL transcription complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
neuronal PAS domain-containing protein 2

NCBI Reference Sequences (RefSeq)

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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_001108214.3 → NP_001101684.2  neuronal PAS domain-containing protein 2

    See identical proteins and their annotated locations for NP_001101684.2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009
    UniProtKB/TrEMBL
    F1MAG2
    Related
    ENSRNOP00000056327.3, ENSRNOT00000059571.4
    Conserved Domains (5) summary
    smart00091
    Location:84 → 149
    PAS; PAS domain
    cd00083
    Location:7 → 61
    HLH; Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, ...
    cd00130
    Location:250 → 350
    PAS; PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in ...
    pfam13426
    Location:97 → 195
    PAS_9; PAS domain
    pfam14598
    Location:249 → 352
    PAS_11; PAS 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_086027.1 Reference GRCr8

    Range
    48959225..49138036
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039083584.2 → XP_038939512.1  neuronal PAS domain-containing protein 2 isoform X1

    Conserved Domains (3) summary
    cd19737
    Location:1 → 77
    bHLH-PAS_NPAS2_PASD4; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in neuronal PAS domain-containing protein 2 (NPAS2) and similar proteins
    pfam00989
    Location:84 → 234
    PAS; PAS fold
    pfam14598
    Location:288 → 391
    PAS_11; PAS domain

  2. XM_063267162.1 → XP_063123232.1  neuronal PAS domain-containing protein 2 isoform X3

    UniProtKB/TrEMBL
    F1MAG2

  3. XM_039083582.2 → XP_038939510.1  neuronal PAS domain-containing protein 2 isoform X1

    Related
    ENSRNOP00000104984.1, ENSRNOT00000156568.1
    Conserved Domains (3) summary
    cd19737
    Location:1 → 77
    bHLH-PAS_NPAS2_PASD4; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in neuronal PAS domain-containing protein 2 (NPAS2) and similar proteins
    pfam00989
    Location:84 → 234
    PAS; PAS fold
    pfam14598
    Location:288 → 391
    PAS_11; PAS domain

  4. XM_039083586.2 → XP_038939514.1  neuronal PAS domain-containing protein 2 isoform X2

    Conserved Domains (4) summary
    PHA03247
    Location:601 → 739
    PHA03247; large tegument protein UL36; Provisional
    cd19737
    Location:1 → 77
    bHLH-PAS_NPAS2_PASD4; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in neuronal PAS domain-containing protein 2 (NPAS2) and similar proteins
    pfam00989
    Location:84 → 234
    PAS; PAS fold
    pfam14598
    Location:288 → 391
    PAS_11; PAS domain

  5. XM_008767031.4 → XP_008765253.1  neuronal PAS domain-containing protein 2 isoform X3

    See identical proteins and their annotated locations for XP_008765253.1

    UniProtKB/TrEMBL
    F1MAG2
    Related
    ENSRNOP00000099765.1, ENSRNOT00000156354.1
    Conserved Domains (5) summary
    smart00091
    Location:84 → 149
    PAS; PAS domain
    cd00083
    Location:7 → 61
    HLH; Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, ...
    cd00130
    Location:250 → 350
    PAS; PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in ...
    pfam13426
    Location:97 → 195
    PAS_9; PAS domain
    pfam14598
    Location:249 → 352
    PAS_11; PAS domain

  6. XM_039083583.2 → XP_038939511.1  neuronal PAS domain-containing protein 2 isoform X1

    Conserved Domains (3) summary
    cd19737
    Location:1 → 77
    bHLH-PAS_NPAS2_PASD4; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in neuronal PAS domain-containing protein 2 (NPAS2) and similar proteins
    pfam00989
    Location:84 → 234
    PAS; PAS fold
    pfam14598
    Location:288 → 391
    PAS_11; PAS domain

  7. XM_039083585.2 → XP_038939513.1  neuronal PAS domain-containing protein 2 isoform X1

    Conserved Domains (3) summary
    cd19737
    Location:1 → 77
    bHLH-PAS_NPAS2_PASD4; basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in neuronal PAS domain-containing protein 2 (NPAS2) and similar proteins
    pfam00989
    Location:84 → 234
    PAS; PAS fold
    pfam14598
    Location:288 → 391
    PAS_11; PAS domain

  8. XM_039083587.2 → XP_038939515.1  neuronal PAS domain-containing protein 2 isoform X4

    UniProtKB/TrEMBL
    B5DFA7
    Conserved Domains (1) summary
    pfam14598
    Location:9 → 112
    PAS_11; PAS domain

RNA

  1. XR_010054596.1 RNA Sequence

  2. XR_010054597.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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