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    pbx1a pre-B-cell leukemia homeobox 1a [ Danio rerio (zebrafish) ]

    Gene ID: 58138, updated on 14-Nov-2024

    Summary

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    Official Symbol
    pbx1aprovided by ZNC
    Official Full Name
    pre-B-cell leukemia homeobox 1aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-000405-1
    See related
    Ensembl:ENSDARG00000100494 AllianceGenome:ZFIN:ZDB-GENE-000405-1
    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
    pbx1b; fi29e01; zgc:55265; wu:fi29e01
    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 hemopoiesis; swim bladder morphogenesis; and vasculature development. Predicted to be active in nucleus. Is expressed in several structures, including central nervous system; head; pleuroperitoneal region; presumptive swim bladder; and swim bladder bud. Human ortholog(s) of this gene implicated in congenital anomalies of kidney and urinary tract syndrome with or without hearing loss, abnormal ears, or developmental delay. Orthologous to human PBX1 (PBX homeobox 1). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See pbx1a in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (18698280..18830795, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (19052893..19181738, complement)

    Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137487782 Neighboring gene uncharacterized LOC137487787 Neighboring gene uncharacterized LOC137487790 Neighboring gene glutamate-ammonia ligase (glutamine synthase) a Neighboring gene transmembrane protein 275a

    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. The agrochemical S-metolachlor disrupts molecular mediators and morphology of the swim bladder: Implications for locomotor activity in zebrafish (Danio rerio). Yang L, et al. Ecotoxicol Environ Saf, 2021 Jan 15. PMID 33396161
    2. Evaluation and comparison of the mitochondrial and developmental toxicity of three strobilurins in zebrafish embryo/larvae. Yang L, et al. Environ Pollut, 2021 Feb 1. PMID 33360065
    3. Forward Genetic Screening Using Behavioral Tests in Zebrafish: A Proof of Concept Analysis of Mutants. Gerlai R, et al. Behav Genet, 2017 Jan. PMID 27704300
    4. Meis1, Hi1α, and GATA1 are integrated into a hierarchical regulatory network to mediate primitive erythropoiesis. Chung HY, et al. FASEB J, 2021 Oct. PMID 34496088
    5. Pbx1 is essential for growth of zebrafish swim bladder. Teoh PH, et al. Dev Dyn, 2010 Mar. PMID 20108353

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    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 IEA
    Inferred from Electronic Annotation
    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
    		  
    acts_upstream_of_or_within definitive hemopoiesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 neutrophil differentiation IMP
    Inferred from Mutant Phenotype
    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 swim bladder morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within vasculature development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    pre-B-cell leukemia homeobox 1a
    Names
    pre-B-cell leukemia transcription factor 1a
    pre-B-cell leukemia transcription factor 1b

    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_131614.1 → NP_571689.1  pre-B-cell leukemia homeobox 1a isoform 1

      See identical proteins and their annotated locations for NP_571689.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AJ245962
      UniProtKB/TrEMBL
      A0A0R4IVS4, A2VD48, Q6NYV6, Q9I9B7
      Related
      ENSDARP00000138945.1, ENSDART00000165698.2
      Conserved Domains (2) summary
      cd00086
      Location:233 → 293
      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:39 → 231
      PBC; PBC domain

    2. NM_131615.1 → NP_571690.1  pre-B-cell leukemia homeobox 1a isoform 2

      See identical proteins and their annotated locations for NP_571690.1

      Status: PROVISIONAL

      Description
      Transcript Variant: This variant (2) lacks an alternate exon in the coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.
      Source sequence(s)
      AJ245963
      UniProtKB/TrEMBL
      A0A8M1PCE8, Q9I9B6
      Related
      ENSDARP00000136221.1, ENSDART00000165330.2
      Conserved Domains (2) summary
      cd00086
      Location:233 → 293
      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:39 → 231
      PBC; PBC 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_007113.7 Reference GRCz11 Primary Assembly

      Range
      18698280..18830795 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017358962.3 → XP_017214451.1  pre-B-cell leukemia homeobox 1a isoform X1

      UniProtKB/TrEMBL
      A0A8M6Z2J2, A2VD48
    Nucleotide Protein Strain
    Heading Accession and Version

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