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

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, Apr 2022]
Expression: Biased expression in Brain (RPKM 4.8), Muscle (RPKM 2.2) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

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_086033.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

phenotypic and molecular changes that may represent an effort to resist degeneration and/or preferential survival of m+RGCs capable of synthesizing Brn3a.
Title: Inherited Photoreceptor Degeneration Causes the Death of Melanopsin-Positive Retinal Ganglion Cells and Increases Their Coexpression of Brn3a.
Brn3a is a reliable retinal ganglion cell marker that can be used to accurately measure the potential effect of a given neuroprotective therapy.
Title: Brain derived neurotrophic factor maintains Brn3a expression in axotomized rat retinal ganglion cells.
Prenatal lead exposure caused a significant decrease in Brn-3a mRNA transcription in neural cells from cerebral hippocampus.
Title: [Effect of prenatal lead exposure on the gene transcription and protein expression level of POU-domain protein Brn-3a in different regions of offspring rat brain].
Brn-3a mRNA transcription level significantly decreased in neural cells from cerebral hippocampus in all lead treatment groups compared with the control group.
Title: [Effect of rat prenatal lead exposure on the gene transcription level of POU-domain protein Brn-3a of offspring brain].
data define AR as a direct Brn-3a interactor and verify a simple interacting protein prediction methodology that is likely to be useful for many other proteins
Title: A simple technique for the prediction of interacting proteins reveals a direct Brn-3a-androgen receptor interaction.
Brn-3a activates transcription of anti-apoptotic genes in retinal ganglion cells.
Title: Axotomy-induced early down-regulation of POU-IV class transcription factors Brn-3a and Brn-3b in retinal ganglion cells.

Submit: New GeneRIF Correction

General gene information

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Markers

Pou4f1 (e-PCR), detects polymorphism
- UniSTS:254228

UniSTS:465489 (e-PCR)
- UniSTS:465489

Pou4f1 (e-PCR), detects polymorphism
- UniSTS:465489

Pou4f1 (e-PCR), detects polymorphism
- UniSTS:144245

UniSTS:470675 (e-PCR)
- UniSTS:470675

Pou4f1 (e-PCR), detects polymorphism
- UniSTS:470675

PMC125354P1 (e-PCR)
- UniSTS:270492

UniSTS:276144 (e-PCR)
- UniSTS:276144

Pou4f1 (e-PCR), detects polymorphism
- UniSTS:276144

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
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
part_of chromatin	IEA Inferred from Electronic Annotation more info
part_of 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

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Preferred Names: POU domain, class 4, transcription factor 1

Names: brain-3A; brain-specific homeobox/POU domain protein 3A

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.