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    zfhx3b zinc finger homeobox 3b [ Danio rerio (zebrafish) ]

    Gene ID: 100333211, updated on 2-Nov-2024

    Summary

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    Official Symbol
    zfhx3bprovided by ZNC
    Official Full Name
    zinc finger homeobox 3bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-7577
    See related
    Ensembl:ENSDARG00000103057 AllianceGenome:ZFIN:ZDB-GENE-030131-7577
    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
    zfhx3; fd23d06; fj32b02; im:7148790; wu:fd23d06; wu:fj32b02
    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 regulation of neuron differentiation and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of DNA-templated transcription. Predicted to be active in nucleus. Is expressed in nervous system and pharyngeal arch. Human ortholog(s) of this gene implicated in familial atrial fibrillation; hepatocellular carcinoma; lung non-small cell carcinoma (multiple); prostate cancer; and spinocerebellar ataxia type 4. Orthologous to human ZFHX3 (zinc finger homeobox 3). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See zfhx3b in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (68214932..68962244, complement)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene DEAH (Asp-Glu-Ala-His) box polypeptide 38 Neighboring gene polyamine modulated factor 1 binding protein 1 Neighboring gene uncharacterized LOC137496239 Neighboring gene hepatocyte nuclear factor 4-gamma-like Neighboring gene hepatic nuclear factor 4, beta Neighboring gene cysteine-rich secretory protein LCCL domain containing 2

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_007118.7 Chromosome 7 Reference GRCz11 Primary Assembly

    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. High-throughput behavioral assay to investigate seizure sensitivity in zebrafish implicates ZFHX3 in epilepsy. Fuller TD, et al. J Neurogenet, 2018 Mar-Jun. PMID 29718741, Free PMC Article
    2. Molecular analyses of zebrafish V0v spinal interneurons and identification of transcriptional regulators downstream of Evx1 and Evx2 in these cells. England SJ, et al. Neural Dev, 2023 Nov 28. PMID 38017520, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. reduced ZFHX3 function in zebrafish results in a significant hyperactive response to the convulsant drug pentylenetetrazol
      Title: High-throughput behavioral assay to investigate seizure sensitivity in zebrafish implicates ZFHX3 in epilepsy.
    Submit: New GeneRIF Correction

    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, 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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of neuron differentiation IBA
    Inferred from Biological aspect of Ancestor
    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
    zinc finger homeobox protein 3
    Names
    zinc finger homeobox 3

    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_001365188.1 → NP_001352117.1  zinc finger homeobox protein 3

      Status: VALIDATED

      Source sequence(s)
      BX511086, CABZ01017169, CU468723
      UniProtKB/TrEMBL
      A0A0R4ISP1, A0A8M9QI68
      Conserved Domains (7) summary
      PHA00732
      Location:1339 → 1391
      PHA00732; hypothetical protein
      smart00389
      Location:2283 → 2339
      HOX; Homeodomain
      COG5189
      Location:1610 → 1739
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      sd00017
      Location:1672 → 1696
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2775 → 2827
      Homeobox; Homeobox domain
      cl25496
      Location:3228 → 3401
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cl27820
      Location:3031 → 3137
      Abdominal-A; Homeobox protein

    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_007118.7 Reference GRCz11 Primary Assembly

      Range
      68214932..68962244 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068222142.1 → XP_068078243.1  zinc finger homeobox protein 3 isoform X1

    2. XM_021478047.2 → XP_021333722.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A0R4ISP1, A0A8M9QI68
      Conserved Domains (7) summary
      PHA00732
      Location:1339 → 1391
      PHA00732; hypothetical protein
      smart00389
      Location:2283 → 2339
      HOX; Homeodomain
      COG5189
      Location:1610 → 1739
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      sd00017
      Location:1672 → 1696
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2775 → 2827
      Homeobox; Homeobox domain
      cl25496
      Location:3228 → 3401
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cl27820
      Location:3031 → 3137
      Abdominal-A; Homeobox protein

    3. XM_068222143.1 → XP_068078244.1  zinc finger homeobox protein 3 isoform X1

    4. XM_068222144.1 → XP_068078245.1  zinc finger homeobox protein 3 isoform X2

    5. XM_021478048.2 → XP_021333723.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A0R4ISP1, A0A8M9QI68
      Conserved Domains (7) summary
      PHA00732
      Location:1339 → 1391
      PHA00732; hypothetical protein
      smart00389
      Location:2283 → 2339
      HOX; Homeodomain
      COG5189
      Location:1610 → 1739
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      sd00017
      Location:1672 → 1696
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2775 → 2827
      Homeobox; Homeobox domain
      cl25496
      Location:3228 → 3401
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cl27820
      Location:3031 → 3137
      Abdominal-A; Homeobox protein

    6. XM_021478051.2 → XP_021333726.1  zinc finger homeobox protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A0R4ISP1, A0A8M9QI68
      Related
      ENSDARP00000138913.1, ENSDART00000167440.2
      Conserved Domains (7) summary
      PHA00732
      Location:1339 → 1391
      PHA00732; hypothetical protein
      smart00389
      Location:2283 → 2339
      HOX; Homeodomain
      COG5189
      Location:1610 → 1739
      SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
      sd00017
      Location:1672 → 1696
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00046
      Location:2775 → 2827
      Homeobox; Homeobox domain
      cl25496
      Location:3228 → 3401
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cl27820
      Location:3031 → 3137
      Abdominal-A; Homeobox protein
    Nucleotide Protein Strain
    Heading Accession and Version

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