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    pou4f1 POU class 4 homeobox 1 [ Danio rerio (zebrafish) ]

    Gene ID: 58057, updated on 2-Nov-2024

    Summary

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    Official Symbol
    pou4f1provided by ZNC
    Official Full Name
    POU class 4 homeobox 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-000523-2
    See related
    Ensembl:ENSDARG00000005559 AllianceGenome:ZFIN:ZDB-GENE-000523-2
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    brn3a; brn3.0
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within heart development. Predicted to be located in nucleus. Is expressed in male organism; nervous system; and swim bladder. Orthologous to human POU4F1 (POU class 4 homeobox 1). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See pou4f1 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (4539953..4543005)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (4379856..4382908)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC110439856 Neighboring gene uncharacterized LOC137495907 Neighboring gene uncharacterized LOC110439857 Neighboring gene ORC ubiquitin ligase 1 Neighboring gene uncharacterized LOC137495908 Neighboring gene uncharacterized LOC137495912

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages 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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    Related articles in PubMed

    1. Social conflict resolution regulated by two dorsal habenular subregions in zebrafish. Chou MY, et al. Science, 2016 Apr 1. PMID 27034372
    2. Genetic single-cell mosaic analysis implicates ephrinB2 reverse signaling in projections from the posterior tectum to the hindbrain in zebrafish. Sato T, et al. J Neurosci, 2007 May 16. PMID 17507550, Free PMC Article
    3. A novel conserved enhancer at zebrafish zic3 and zic6 loci drives neural expression. Minhas R, et al. Dev Dyn, 2019 Sep. PMID 31194899, Free PMC Article
    4. Temporally regulated asymmetric neurogenesis causes left-right difference in the zebrafish habenular structures. Aizawa H, et al. Dev Cell, 2007 Jan. PMID 17199043
    5. An Fgf8-dependent bistable cell migratory event establishes CNS asymmetry. Regan JC, et al. Neuron, 2009 Jan 15. PMID 19146810, Free PMC Article

    See all (28) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    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, 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
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within heart development 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
    		  
    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 4, transcription factor 1
    Names
    brain-specific homeobox/POU domain protein 3a
    brn3b
    etID22526.1

    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)

    1. NM_001312866.2 → NP_001299795.1  POU domain, class 4, transcription factor 1

      Status: VALIDATED

      Source sequence(s)
      CABZ01046894, EH590787
      UniProtKB/TrEMBL
      Q7SZN6
      Related
      ENSDARP00000007850.8, ENSDART00000025031.10
      Conserved Domains (2) summary
      smart00352
      Location:207 → 284
      POU; Found in Pit-Oct-Unc transcription factors
      pfam00046
      Location:305 → 358
      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

    1. NC_007117.7 Reference GRCz11 Primary Assembly

      Range
      4539953..4543005
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_201285.1: Suppressed sequence

      Description
      NM_201285.1: This RefSeq was removed because currently there is insufficient support for the transcript.
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.