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

Gene ID: 100333211, updated on 28-Oct-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, Oct 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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