Pou4f1 POU domain, class 4, transcription factor 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Pou4f1provided by MGI
Official Full Name: POU domain, class 4, transcription factor 1provided by MGI
Primary source: MGI:MGI:102525
See related: Ensembl:ENSMUSG00000048349 AllianceGenome:MGI:102525
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: Brn3; Brn-3; Brn3a; Brn3.0; Brn-3.0; E130119J07Rik
Summary: Enables several functions, including DNA binding activity; DNA-binding transcription factor activity, RNA polymerase II-specific; and GTPase binding activity. Involved in several processes, including cellular response to estradiol stimulus; nervous system development; and regulation of gene expression. Acts upstream of or within several processes, including nervous system development; proprioception involved in equilibrioception; and suckling behavior. Located in several cellular components, including chromatin; neuron projection; and nucleus. Part of RNA polymerase II transcription regulator complex. Is expressed in several structures, including branchial arch mesenchyme; central nervous system; future brain; ganglia; and sensory organ. Orthologous to human POU4F1 (POU class 4 homeobox 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in whole brain E14.5 (RPKM 5.1), CNS E14 (RPKM 4.6) and 3 other tissues See more
Orthologs: human all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 14 E2.3; 14 54.21 cM

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	14	NC_000080.7 (104699111..104705554, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	14	NC_000080.6 (104461675..104468118, complement)

Chromosome 14 - NC_000080.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: Mouse ENCODE transcriptome data 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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Comparison of Brn3a and RBPMS Labeling to Assess Retinal Ganglion Cell Loss During Aging and in a Model of Optic Neuropathy.
Title: Comparison of Brn3a and RBPMS Labeling to Assess Retinal Ganglion Cell Loss During Aging and in a Model of Optic Neuropathy.
ISL1 and POU4F1 Directly Interact to Regulate the Differentiation and Survival of Inner Ear Sensory Neurons.
Title: ISL1 and POU4F1 Directly Interact to Regulate the Differentiation and Survival of Inner Ear Sensory Neurons.
Brn3a controls the soma localization and axonal extension patterns of developing spinal dorsal horn neurons.
Title: Brn3a controls the soma localization and axonal extension patterns of developing spinal dorsal horn neurons.
Pou4f1 Defines a Subgroup of Type I Spiral Ganglion Neurons and Is Necessary for Normal Inner Hair Cell Presynaptic Ca(2+) Signaling.
Title: Pou4f1 Defines a Subgroup of Type I Spiral Ganglion Neurons and Is Necessary for Normal Inner Hair Cell Presynaptic Ca(2+) Signaling.
analyzed the morphology, number, and general architecture of various neuronal types presynaptic to ganglion cells(Brn3a and Brn3b knockout mice), searching for changes secondary to the decrement in the number of their postsynaptic partners
Title: Brn3a and Brn3b knockout mice display unvaried retinal fine structure despite major morphological and numerical alterations of ganglion cells.
This study showed that three genes were found to be consistently regulated by Brn3a throughout postnatal retina development - Mapk10, Tusc5 and Cdh4.
Title: Postnatal developmental dynamics of cell type specification genes in Brn3a/Pou4f1 Retinal Ganglion Cells.
Double morphant embryos targeted with morpholino oligonucleotides to both TFs develop significant cardiac defects (looping abnormalities and valve defects) suggesting essential roles for Brn-3a and Brn-3b in developing hearts.
Title: Essential but partially redundant roles for POU4F1/Brn-3a and POU4F2/Brn-3b transcription factors in the developing heart.
Study demonstrates a sequential expression order of NEUROD1>ISL1>POU4F1>POU4F2 during the inner ear neurogenesis.
Title: Comparative expression analysis of POU4F1, POU4F2 and ISL1 in developing mouse cochleovestibular ganglion neurons.
Pou4f1 and pou4f2 are dispensable for the long-term survival of adult retinal ganglion cells in mice.
Title: Pou4f1 and pou4f2 are dispensable for the long-term survival of adult retinal ganglion cells in mice.
The deficiency of Pou4f1 who perform poorly in motivation-based locomotor behaviors, such as voluntary wheel running and the accelerating rotarod, but show only minor abnormalities in gait and balance and exhibit normal levels of basal locomotion.
Title: Role of the dorsal medial habenula in the regulation of voluntary activity, motor function, hedonic state, and primary reinforcement.

Submit: New GeneRIF Correction See all GeneRIFs (44)

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (1)
Targeted (10) 1 citation

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

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

BB461119 (e-PCR)
- UniSTS:209049

PMC125354P1 (e-PCR)
- UniSTS:270492

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

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

NoName (e-PCR)
- UniSTS:237243

NoName (e-PCR)
- UniSTS:237244

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IGI Inferred from Genetic Interaction more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IMP Inferred from Mutant Phenotype more info	PubMed
enables DNA-binding transcription factor activity	IMP Inferred from Mutant Phenotype 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	IDA Inferred from Direct Assay more info	PubMed
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	IGI Inferred from Genetic Interaction more info	PubMed
enables GTPase binding	IPI Inferred from Physical Interaction more info	PubMed
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	IDA Inferred from Direct Assay more info	PubMed
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	IGI Inferred from Genetic Interaction more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables single-stranded DNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell migration in hindbrain	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to cytokine stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to estradiol stimulus	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within central nervous system neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within habenula development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in heart development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within innervation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intrinsic apoptotic signaling pathway by p53 class mediator	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within mesoderm development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of negative regulation of apoptotic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of apoptotic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in negative regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
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 neuron apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of programmed cell death	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within nervous system development	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of neuron apoptotic process	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron fate specification	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neuron migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron projection development	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within peripheral nervous system neuron development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in peripheral nervous system neuron development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within peripheral nervous system neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of gene expression	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of neuron apoptotic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of osteoclast differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in 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	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within 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	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
involved_in positive regulation of transcription regulatory region DNA binding	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within proprioception involved in equilibrioception	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of regulation of cell cycle	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_negative_effect regulation of cell cycle	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of cell cycle	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of neurogenesis	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
involved_in sensory system development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within suckling behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in trigeminal nerve development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in ventricular compact myocardium morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of RNA polymerase II transcription regulator complex	IDA Inferred from Direct Assay more info	PubMed
located_in chromatin	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in neuron projection	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

Go to the top of the page Help

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

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

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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)

NM_011143.4 → NP_035273.3 POU domain, class 4, transcription factor 1

See identical proteins and their annotated locations for NP_035273.3

Status: VALIDATED

Source sequence(s)

AC121997

Consensus CDS

CCDS27319.1

UniProtKB/Swiss-Prot

E9QPT6, P17208

UniProtKB/TrEMBL

Q78NA5

Related

ENSMUSP00000060798.8, ENSMUST00000053016.10

Conserved Domains (2) summary

smart00352
Location:262 → 339

POU; Found in Pit-Oct-Unc transcription factors

pfam00046
Location:360 → 414

Homeobox; Homeobox domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000080.7 Reference GRCm39 C57BL/6J

Range

104699111..104705554 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006518706.4 → XP_006518769.1 POU domain, class 4, transcription factor 1 isoform X1

See identical proteins and their annotated locations for XP_006518769.1

UniProtKB/Swiss-Prot

E9QPT6, P17208

UniProtKB/TrEMBL

Q78NA5

Conserved Domains (2) summary

smart00352
Location:262 → 339

POU; Found in Pit-Oct-Unc transcription factors

pfam00046
Location:360 → 414

Homeobox; Homeobox domain
XM_006518705.4 → XP_006518768.1 POU domain, class 4, transcription factor 1 isoform X1

See identical proteins and their annotated locations for XP_006518768.1

UniProtKB/Swiss-Prot

E9QPT6, P17208

UniProtKB/TrEMBL

Q78NA5

Conserved Domains (2) summary

smart00352
Location:262 → 339

POU; Found in Pit-Oct-Unc transcription factors

pfam00046
Location:360 → 414

Homeobox; Homeobox domain