Pou3f3 POU class 3 homeobox 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pou3f3provided by RGD
Official Full Name: POU class 3 homeobox 3provided by RGD
Primary source: RGD:619768
See related: EnsemblRapid:ENSRNOG00000074419 AllianceGenome:RGD:619768
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: Brn1; RHS1
Summary: Enables DNA-binding transcription factor activity, RNA polymerase II-specific. Involved in positive regulation of gene expression and positive regulation of transcription by RNA polymerase II. Acts upstream of or within negative regulation of transcription by RNA polymerase II. Located in nucleus. Orthologous to human POU3F3 (POU class 3 homeobox 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 166.4) and Brain (RPKM 66.4) See more
Orthologs: human mouse all
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Genomic context

Location:: 9q22

Exon count:: 1

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (52438026..52441152)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (44945872..44948998)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (49479148..49482246)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pou3f3 may be important for the maintenance or functional development of the postnatal cochlea. This is the first report to study involvement of an epigenetic regulatory mechanism in the developing mammalian auditory epithelium.
Title: Expression of Pou3f3/Brn-1 and its genomic methylation in developing auditory epithelium.
Collectively, overall results suggest that the expression of Sox11 and Brn1 may be modulated by the cell-type specific machinery.
Title: Expression of Sox11 and Brn transcription factors during development and following transient forebrain ischemia in the rat.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Pou3f1 (e-PCR), detects polymorphism
- UniSTS:530696

D1Mit228 (e-PCR), detects polymorphism
- UniSTS:128571

D9M1Mit228 (e-PCR)
- UniSTS:128572

D1Mit228.1 (e-PCR), detects polymorphism
- UniSTS:128572

NoName (e-PCR)
- UniSTS:484977

Pou3f3 (e-PCR), detects polymorphism
- UniSTS:547295

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	IDA Inferred from Direct Assay 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	IEA Inferred from Electronic Annotation more info
enables HMG box domain binding	IEA Inferred from Electronic Annotation more info
enables HMG box domain 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 homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISS Inferred from Sequence or Structural Similarity more info
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation 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

Process	Evidence Code	Pubs
involved_in cerebral cortex radially oriented cell migration	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cerebral cortex radially oriented cell migration	ISO Inferred from Sequence Orthology more info
involved_in chemical homeostasis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chemical homeostasis	ISO Inferred from Sequence Orthology more info
involved_in forebrain ventricular zone progenitor cell division	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within forebrain ventricular zone progenitor cell division	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within kidney development	ISO Inferred from Sequence Orthology more info
involved_in metanephric DCT cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in metanephric DCT cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in metanephric DCT cell differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in metanephric ascending thin limb development	IEA Inferred from Electronic Annotation more info
involved_in metanephric ascending thin limb development	ISO Inferred from Sequence Orthology more info
involved_in metanephric ascending thin limb development	ISS Inferred from Sequence or Structural Similarity more info
involved_in metanephric loop of Henle development	ISO Inferred from Sequence Orthology more info
involved_in metanephric loop of Henle development	ISS Inferred from Sequence or Structural Similarity more info
involved_in metanephric macula densa development	IEA Inferred from Electronic Annotation more info
involved_in metanephric macula densa development	ISO Inferred from Sequence Orthology more info
involved_in metanephric macula densa development	ISS Inferred from Sequence or Structural Similarity more info
involved_in metanephric thick ascending limb development	IEA Inferred from Electronic Annotation more info
involved_in metanephric thick ascending limb development	ISO Inferred from Sequence Orthology more info
involved_in metanephric thick ascending limb development	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of cell population proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of gene expression	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	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 regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in urea transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within urea transmembrane transport	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IMP Inferred from Mutant Phenotype more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: POU domain, class 3, transcription factor 3

Names: brain-1; brain-specific homeobox/POU domain protein 1; brn-1 protein; class III POU protein POU-domain

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.

mRNA and Protein(s)

NM_138837.2 → NP_620192.2 POU domain, class 3, transcription factor 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/Swiss-Prot

Q63262

UniProtKB/TrEMBL

F1M7A3

Related

ENSRNOP00000111784.1, ENSRNOT00000151788.1

Conserved Domains (2) summary

smart00352
Location:311 → 385

POU; Found in Pit-Oct-Unc transcription factors

pfam00046
Location:406 → 460

Homeobox; Homeobox domain