pou5f3 POU domain, class 5, transcription factor 3 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: pou5f3provided by ZNC
Official Full Name: POU domain, class 5, transcription factor 3provided by ZNC
Primary source: ZFIN:ZDB-GENE-980526-485
See related: Ensembl:ENSDARG00000044774 AllianceGenome:ZFIN:ZDB-GENE-980526-485
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: gp9; spg; gp-9; oct4; pou2; POU-2; cb197; pou5f1; spg/pou2; chunp6868; wu:fd18d06; etID49452.21
Summary: Enables several functions, including DNA-binding transcription factor activity; chromatin binding activity; and protein heterodimerization activity. Involved in nucleosome organization. Acts upstream of with a positive effect on cell dedifferentiation. Acts upstream of or within several processes, including brain development; embryonic morphogenesis; and regulation of gene expression. Predicted to be located in nucleus. Is expressed in several structures, including blastoderm; blastodisc; ectoderm; gonad; and hindbrain neural keel. Human ortholog(s) of this gene implicated in embryonal carcinoma and seminoma. Orthologous to human POU5F1 (POU class 5 homeobox 1); POU5F1B (POU class 5 homeobox 1B); and POU5F2 (POU domain class 5, transcription factor 2). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: all
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Genomic context

Location:: chromosome: 21

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	21	NC_007132.7 (13685853..13690719, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	21	NC_007132.6 (13589128..13594388, complement)

Chromosome 21 - NC_007132.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The Oct4-related PouV gene, pou5f3, mediates isthmus development in zebrafish by directly and dynamically regulating pax2a.
Title: The Oct4-related PouV gene, pou5f3, mediates isthmus development in zebrafish by directly and dynamically regulating pax2a.
Elongation of the developing spinal cord is driven by Oct4-type transcription factor-mediated regulation of retinoic acid signaling in zebrafish embryos.
Title: Elongation of the developing spinal cord is driven by Oct4-type transcription factor-mediated regulation of retinoic acid signaling in zebrafish embryos.
Specific Activation of Yamanaka Factors via HSF1 Signaling in the Early Stage of Zebrafish Optic Nerve Regeneration.
Title: Specific Activation of Yamanaka Factors via HSF1 Signaling in the Early Stage of Zebrafish Optic Nerve Regeneration.
During gastrulation, the expression of the Oct4-related PouV gene pou5f3 (also called pou2), which is widely observed at earlier stages, was rapidly localized to an array of isolated spotted domains, each of which coincided with individual proneural clusters. These results suggest that pou5f3 promotes early neurogenesis in proneural clusters, but negatively regulates later neurogenesis.
Title: Involvement of an Oct4-related PouV gene, pou5f3/pou2, in neurogenesis in the early neural plate of zebrafish embryos.
Results found that Oct4 is rapidly induced during zebrafish retina regeneration. It mediates a gene regulatory network during Muller glia (MG) reprogramming. The tudy reveals unique mechanistic involvement of Oct4, during MG reprogramming and cell cycle exit in zebrafish, which may also account for the inefficient retina regeneration in mammals.
Title: Oct4 mediates Müller glia reprogramming and cell cycle exit during retina regeneration in zebrafish.
Pou5f3 remodels chromatin on high nucleosome affinity regions at zygotic genome activation.
Title: Pou5f3, SoxB1, and Nanog remodel chromatin on high nucleosome affinity regions at zygotic genome activation.
Western blot analysis were conducted on developing hatchlings with Oct4 antibody and at 13.6 and 21.6mugL(-1)dose,it showed over expression elucidating stimulatory role of nanosilver. In silico analysis depicted a firm interaction of nanosilver with Oct4 revealing their key role in growth stimulation of developing embryos.
Title: Molecular aspect of silver nanoparticles regulated embryonic development in Zebrafish (Danio rerio) by Oct-4 expression.
The authors show, at single-cell resolution in vivo, that Pou5f3 complexes with Nanog to pattern mesendoderm differentiation at the blastula stage.
Title: Quantitative imaging reveals real-time Pou5f3-Nanog complexes driving dorsoventral mesendoderm patterning in zebrafish.
Data suggest that, in developing gastrula, Znfl1 controls developmental gene expression of Hoxb1b in embryonic posterior neuroectoderm by acting upstream of Pou5f3 and Sall4; these proteins appear to be involved in neurogenesis. (Znfl1 = zinc finger-like gene 1; Hoxb1b = homeobox B1b protein; Pou5f3 = POU domain class 5 transcription factor 3; Sall4 = spalt-like transcription factor 4)
Title: Zebrafish Znfl1 proteins control the expression of hoxb1b gene in the posterior neuroectoderm by acting upstream of pou5f3 and sall4 genes.
Regulation of mych by Pou5f1 appears to be direct transcriptional activation.
Title: Pou5f1/Oct4 promotes cell survival via direct activation of mych expression during zebrafish gastrulation.

Submit: New GeneRIF Correction See all GeneRIFs (23)

General gene information

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Markers

pou2 (e-PCR)
- UniSTS:187021

pou2 (e-PCR)
- UniSTS:238247

fd18d06.x1 (e-PCR)
- UniSTS:204224

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IGI Inferred from Genetic Interaction 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	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables protein heterodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within anatomical structure morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within brain development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within brain segmentation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_positive_effect cell dedifferentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within chromatin remodeling	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dorsal/ventral pattern formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ectoderm development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic pattern specification	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endoderm formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within epiboly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within epiboly involved in gastrulation with mouth forming second	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within fin regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hindbrain development	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_or_within midbrain-hindbrain boundary development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within morphogenesis of embryonic epithelium	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of gene expression	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nucleosome organization	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of endodermal cell fate specification	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of gene expression	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

Component	Evidence Code	Pubs
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: POU domain, class 5, transcription factor 1

Names: POU domain gene 2; POU domain protein 2; spiel-ohne-grenzen; spiel-ohne-grenzen/pou2

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_131112.1 → NP_571187.1 POU domain, class 5, transcription factor 1

See identical proteins and their annotated locations for NP_571187.1

Status: PROVISIONAL

Source sequence(s)

X84224

UniProtKB/Swiss-Prot

Q90270, Q90483

UniProtKB/TrEMBL

A0A0R4I9C7

Related

ENSDARP00000065816.3, ENSDART00000065817.4

Conserved Domains (2) summary

smart00352
Location:259 → 323

POU; Found in Pit-Oct-Unc transcription factors

pfam00046
Location:346 → 399

Homeobox; Homeobox domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007132.7 Reference GRCz11 Primary Assembly

Range

13685853..13690719 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_068215772.1 → XP_068071873.1 POU domain, class 5, transcription factor 1 isoform X3

UniProtKB/Swiss-Prot

Q90270, Q90483
XM_005161103.5 → XP_005161160.1 POU domain, class 5, transcription factor 1 isoform X1

UniProtKB/Swiss-Prot

Q90270, Q90483

UniProtKB/TrEMBL

A0A8M2B807

Conserved Domains (2) summary

smart00352
Location:248 → 322

POU; Found in Pit-Oct-Unc transcription factors

pfam00046
Location:345 → 398

Homeobox; Homeobox domain
XM_005161104.5 → XP_005161161.1 POU domain, class 5, transcription factor 1 isoform X2

UniProtKB/Swiss-Prot

Q90270, Q90483

UniProtKB/TrEMBL

A0A8M2B889

Conserved Domains (2) summary

smart00352
Location:259 → 323

POU; Found in Pit-Oct-Unc transcription factors

smart00389
Location:343 → 382

HOX; Homeodomain