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    Pou4f1 POU class 4 homeobox 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 114503, updated on 28-Oct-2024

    Summary

    Official Symbol
    Pou4f1provided by RGD
    Official Full Name
    POU class 4 homeobox 1provided by RGD
    Primary source
    RGD:620074
    See related
    EnsemblRapid:ENSRNOG00000089245 AllianceGenome:RGD:620074
    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
    Also known as
    Brn3a; brn-3A
    Summary
    Enables RNA polymerase II-specific DNA-binding transcription factor binding activity. Involved in negative regulation of neuron apoptotic process and spermatogenesis. Predicted to be located in several cellular components, including chromatin; neuron projection; and nucleus. Predicted to be part of RNA polymerase II transcription regulator complex. Orthologous to human POU4F1 (POU class 4 homeobox 1). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Brain (RPKM 4.8), Muscle (RPKM 2.2) and 7 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Pou4f1 in Genome Data Viewer
    Location:
    15q22
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (87668328..87674643, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (81253714..81260057, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (88618255..88622712, complement)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORD113/SNORD114 family Neighboring gene uncharacterized LOC102550315 Neighboring gene ORC ubiquitin ligase 1 Neighboring gene ribosomal protein S18, pseudogene 8

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA binding TAS
    Traceable Author Statement
    more info
    PubMed 
    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 activator activity, RNA polymerase II-specific ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA-binding transcription factor activity TAS
    Traceable Author Statement
    more info
    PubMed 
    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 ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
     
    enables GTPase binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables GTPase 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 RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA polymerase II-specific DNA-binding transcription factor binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA polymerase II-specific DNA-binding transcription factor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables RNA polymerase II-specific DNA-binding transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chromatin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables sequence-specific DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables sequence-specific double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables single-stranded DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables single-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables single-stranded DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    involved_in cell migration in hindbrain IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cell migration in hindbrain ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to cytokine stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to cytokine stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to cytokine stimulus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cellular response to estradiol stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to estradiol stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to estradiol stimulus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in central nervous system neuron differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within central nervous system neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in habenula development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within habenula development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in heart development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in innervation IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within innervation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in intrinsic apoptotic signaling pathway by p53 class mediator IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in intrinsic apoptotic signaling pathway by p53 class mediator ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in intrinsic apoptotic signaling pathway by p53 class mediator ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in mesoderm development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within mesoderm development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of negative regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of apoptotic process TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in negative regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of neuron apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of neuron apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of neuron apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of programmed cell death ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of programmed cell death ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within nervous system development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neuron apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of neuron apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neuron fate specification IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in neuron fate specification ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neuron migration IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within neuron migration ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neuron projection development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in neuron projection development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neuron projection development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in peripheral nervous system neuron development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within peripheral nervous system neuron development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in peripheral nervous system neuron development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within peripheral nervous system neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of gene expression ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of neuron apoptotic process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of neuron apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of osteoclast differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of osteoclast differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of osteoclast differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in proprioception involved in equilibrioception IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within proprioception involved in equilibrioception ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of DNA-binding transcription factor activity IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_negative_effect regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of cell cycle ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of neurogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of neurogenesis 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 sensory system development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in sensory system development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in spermatogenesis IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in suckling behavior IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within suckling behavior ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in transcription by RNA polymerase II TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in trigeminal nerve development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in trigeminal nerve development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in ventricular compact myocardium morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in ventricular compact myocardium morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of RNA polymerase II transcription regulator complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of RNA polymerase II transcription regulator complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in chromatin IEA
    Inferred from Electronic Annotation
    more info
     
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in neuron projection IEA
    Inferred from Electronic Annotation
    more info
     
    located_in neuron projection ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    POU domain, class 4, transcription factor 1
    Names
    brain-3A
    brain-specific homeobox/POU domain protein 3A

    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_001419538.1NP_001406467.1  POU domain, class 4, transcription factor 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      Related
      ENSRNOP00000108265.1, ENSRNOT00000157082.1

    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_086033.1 Reference GRCr8

      Range
      87668328..87674643 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)