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    pbx3a pre-B-cell leukemia homeobox 3a [ Danio rerio (zebrafish) ]

    Gene ID: 387532, updated on 11-Apr-2024

    Summary

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    Official Symbol
    pbx3aprovided by ZNC
    Official Full Name
    pre-B-cell leukemia homeobox 3aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-031218-1
    See related
    Ensembl:ENSDARG00000089262 AllianceGenome:ZFIN:ZDB-GENE-031218-1
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    pbx3.2; si:ch73-242f23.2
    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. Predicted to be involved in animal organ development; neuron development; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in nucleus. Is expressed in diencephalon; hindbrain; midbrain; spinal cord; and telencephalon. Orthologous to human PBX3 (PBX homeobox 3). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (5302568..5394835, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (4810628..4902641, complement)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene LIM homeobox transcription factor 1, beta a Neighboring gene multivesicular body subunit 12Ba Neighboring gene MAPK associated protein 1 Neighboring gene apical junction component 1 homolog

    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
    • 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. A long noncoding RNA cluster-based genomic locus maintains proper development and visual function. Wang F, et al. Nucleic Acids Res, 2019 Jul 9. PMID 31127312, Free PMC Article
    2. Functional testing of a human PBX3 variant in zebrafish reveals a potential modifier role in congenital heart defects. Farr GH 3rd, et al. Dis Model Mech, 2018 Oct 18. PMID 30355621, Free PMC Article
    3. Eliminating zebrafish pbx proteins reveals a hindbrain ground state. Waskiewicz AJ, et al. Dev Cell, 2002 Nov. PMID 12431378
    4. Evolution and Expression of Paxillin Genes in Teleost Fish. Jacob AE, et al. PLoS One, 2016. PMID 27806088, Free PMC Article
    5. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article

    See all (6) 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
    involved_in animal organ morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in brain development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in embryonic organ development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in eye development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in neuron development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    pre-B-cell leukemia transcription factor 3
    Names
    pre-B-cell leukemia transcription factor 3a

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007116.7 Reference GRCz11 Primary Assembly

      Range
      5302568..5394835 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005171737.4 → XP_005171794.1  pre-B-cell leukemia transcription factor 3 isoform X2

      UniProtKB/TrEMBL
      A0A8M2BJI6
      Related
      ENSDARP00000090846.4, ENSDART00000100074.5
      Conserved Domains (2) summary
      cd00086
      Location:224 → 284
      homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
      pfam03792
      Location:32 → 222
      PBC; PBC domain

    2. XM_005171736.4 → XP_005171793.1  pre-B-cell leukemia transcription factor 3 isoform X1

      UniProtKB/TrEMBL
      A0A8M2BJ04
      Conserved Domains (2) summary
      cd00086
      Location:224 → 294
      homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
      pfam03792
      Location:32 → 222
      PBC; PBC domain
    Nucleotide Protein Strain
    Heading Accession and Version

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