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Pou5f1 POU class 5 homeobox 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 294562, updated on 22-May-2022

Summary

Official Symbol
Pou5f1provided by RGD
Official Full Name
POU class 5 homeobox 1provided by RGD
Primary source
RGD:1359491
See related
Ensembl:ENSRNOG00000046487 AllianceGenome:RGD:1359491
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
Summary
Enables DNA-binding transcription activator activity, RNA polymerase II-specific; protein domain specific binding activity; and sequence-specific DNA binding activity. Involved in regulation of transcription, DNA-templated and response to cytokine. Located in nucleus. Human ortholog(s) of this gene implicated in embryonal carcinoma and seminoma. Orthologous to several human genes including POU5F1 (POU class 5 homeobox 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Liver (RPKM 6.5), Thymus (RPKM 3.2) and 8 other tissues See more
Orthologs
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Genomic context

See Pou5f1 in Genome Data Viewer
Location:
20p12
Exon count:
5
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (3223128..3227891, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (3747231..3751994, complement)

Chromosome 20 - NC_051355.1Genomic Context describing neighboring genes Neighboring gene coiled-coil alpha-helical rod protein 1 Neighboring gene transcription factor 19 Neighboring gene uncharacterized LOC108353253 Neighboring gene RT1 class I, locus CE16 Neighboring gene Cdk2ap1-ps8 pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA binding ISO
Inferred from Sequence Orthology
more info
 
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 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 ISO
Inferred from Sequence Orthology
more info
 
enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables DNA-binding transcription factor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
enables DNA-binding transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
Inferred from Sequence Orthology
more info
 
enables HMG box domain binding IDA
Inferred from Direct Assay
more info
PubMed 
enables POU domain binding IDA
Inferred from Direct Assay
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables RNA polymerase II-specific DNA-binding transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
enables chromatin DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
 
enables cis-regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables cis-regulatory region sequence-specific DNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables cytokine binding ISO
Inferred from Sequence Orthology
more info
 
enables cytokine binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables lysine-acetylated histone binding ISO
Inferred from Sequence Orthology
more info
 
enables miRNA binding ISO
Inferred from Sequence Orthology
more info
 
enables nucleosome binding ISO
Inferred from Sequence Orthology
more info
 
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 DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables sequence-specific double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables transcription cis-regulatory region binding ISO
Inferred from Sequence Orthology
more info
 
enables ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in BMP signaling pathway involved in heart induction ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within blastocyst development ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within blastocyst growth ISO
Inferred from Sequence Orthology
more info
 
involved_in cardiac cell fate determination ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cell fate commitment ISO
Inferred from Sequence Orthology
more info
 
involved_in cell fate commitment involved in formation of primary germ layer ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cellular response to leukemia inhibitory factor ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within ectodermal cell fate commitment ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within endodermal cell fate commitment ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within endodermal cell fate specification ISO
Inferred from Sequence Orthology
more info
 
involved_in gene expression ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within germ-line stem cell population maintenance ISO
Inferred from Sequence Orthology
more info
 
involved_in histone H3-K56 acetylation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within mesodermal cell fate commitment ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of calcium ion-dependent exocytosis ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of cell differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of gene expression ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of miRNA transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of miRNA-mediated gene silencing ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of protein kinase B signaling ISO
Inferred from Sequence Orthology
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 negative regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of SMAD protein signal transduction ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of canonical Wnt signaling pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of protein kinase B signaling ISO
Inferred from Sequence Orthology
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 positive regulation of transcription initiation from RNA polymerase II promoter ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of DNA methylation-dependent heterochromatin assembly ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of asymmetric cell division ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of heart induction by regulation of canonical Wnt signaling pathway 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
PubMed 
involved_in regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
involved_in response to benzoic acid IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to cytokine IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within response to organic substance ISO
Inferred from Sequence Orthology
more info
 
involved_in response to retinoic acid HEP PubMed 
involved_in response to retinoic acid IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within response to retinoic acid ISO
Inferred from Sequence Orthology
more info
 
involved_in response to wounding ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within somatic stem cell population maintenance ISO
Inferred from Sequence Orthology
more info
 
involved_in somatic stem cell population maintenance ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within stem cell differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in stem cell differentiation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within stem cell population maintenance ISO
Inferred from Sequence Orthology
more info
 
involved_in stem cell population maintenance ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of trophectodermal cell differentiation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within trophectodermal cell differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in trophectodermal cell fate commitment IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within trophectodermal cell fate commitment ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
is_active_in chromatin ISO
Inferred from Sequence Orthology
more info
 
located_in chromatin ISO
Inferred from Sequence Orthology
more info
 
located_in chromatin ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in female germ cell nucleus IEA
Inferred from Electronic Annotation
more info
 
located_in female germ cell nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in germ cell nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in male germ cell nucleus IEA
Inferred from Electronic Annotation
more info
 
located_in male germ cell nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
 
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
part_of transcription regulator complex ISO
Inferred from Sequence Orthology
more info
 
part_of transcription repressor complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
POU domain, class 5, transcription factor 1

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_001009178.2NP_001009178.1  POU domain, class 5, transcription factor 1

    See identical proteins and their annotated locations for NP_001009178.1

    Status: VALIDATED

    Source sequence(s)
    BC158566
    UniProtKB/TrEMBL
    Q6MG27
    Related
    ENSRNOP00000065216.1, ENSRNOT00000072288.3
    Conserved Domains (2) summary
    smart00352
    Location:131205
    POU; Found in Pit-Oct-Unc transcription factors
    pfam00046
    Location:226280
    Homeobox; Homeobox domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051355.1 Reference mRatBN7.2 Primary Assembly

    Range
    3223128..3227891 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)