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    zeb1b zinc finger E-box binding homeobox 1b [ Danio rerio (zebrafish) ]

    Gene ID: 114425, updated on 9-Dec-2024

    Summary

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    Official Symbol
    zeb1bprovided by ZNC
    Official Full Name
    zinc finger E-box binding homeobox 1bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-010621-1
    See related
    Ensembl:ENSDARG00000013207 AllianceGenome:ZFIN:ZDB-GENE-010621-1
    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
    zeb1; zfhx1; kheper; ZFH/[d]EF1
    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 several processes, including gastrulation; regulation of cell-cell adhesion involved in gastrulation; and regulation of gastrulation. Predicted to be located in nucleus. Is expressed in several structures, including cranial ganglion; hypoblast; intestine; neural plate; and segmental plate. Human ortholog(s) of this gene implicated in Fuchs' endothelial dystrophy and posterior polymorphous corneal dystrophy 3. Orthologous to human ZEB1 (zinc finger E-box binding homeobox 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See zeb1b in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 12 NC_007123.7 (26750274..26851726, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 12 NC_007123.6 (26658914..26760366, complement)

    Chromosome 12 - NC_007123.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC110440143 Neighboring gene Rho GTPase activating protein 12b Neighboring gene hexosaminidase d Neighboring gene uncharacterized LOC137496819 Neighboring gene zinc finger protein 438 Neighboring gene MSL complex subunit 1b

    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. Missense mutations in TCF8 cause late-onset Fuchs corneal dystrophy and interact with FCD4 on chromosome 9p. Riazuddin SA, et al. Am J Hum Genet, 2010 Jan. PMID 20036349, Free PMC Article
    2. Identification and regulation of a molecular module for bleb-based cell motility. Goudarzi M, et al. Dev Cell, 2012 Jul 17. PMID 22705393
    3. Phenanthrene causes ocular developmental toxicity in zebrafish embryos and the possible mechanisms involved. Huang L, et al. J Hazard Mater, 2013 Oct 15. PMID 23921180
    4. Zeb1 regulates E-cadherin and Epcam (epithelial cell adhesion molecule) expression to control cell behavior in early zebrafish development. Vannier C, et al. J Biol Chem, 2013 Jun 28. PMID 23667256, Free PMC Article
    5. Dact2 is involved in the regulation of epithelial-mesenchymal transition. Kim DH, et al. Biochem Biophys Res Commun, 2020 Mar 26. PMID 31983425

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Zeb1 proteins employ several evolutionary conserved mechanisms to regulate cell-cell adhesion during development and cancer
      Title: Zeb1 regulates E-cadherin and Epcam (epithelial cell adhesion molecule) expression to control cell behavior in early zebrafish development.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    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 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
    		  
    Process Evidence Code Pubs
    involved_in central nervous system development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within gastrulation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of cell motility IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of cell-cell adhesion involved in gastrulation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of gastrulation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    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
    zinc finger E-box-binding homeobox 1b
    Names
    tcf8
    zfhx1a
    zinc finger E-box binding homeobox 1
    zinc finger homeobox 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_131709.1 → NP_571784.1  zinc finger E-box-binding homeobox 1b

      See identical proteins and their annotated locations for NP_571784.1

      Status: PROVISIONAL

      Source sequence(s)
      AB016799
      UniProtKB/TrEMBL
      Q9DEH7
      Related
      ENSDARP00000047723.5, ENSDART00000047724.6
      Conserved Domains (5) summary
      smart00389
      Location:538 → 574
      HOX; Homeodomain
      COG5048
      Location:856 → 909
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:833 → 853
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:209 → 231
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:873 → 898
      zf-H2C2_2; Zinc-finger double 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_007123.7 Reference GRCz11 Primary Assembly

      Range
      26750274..26851726 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021480009.2 → XP_021335684.1  zinc finger E-box-binding homeobox 1b isoform X1

      UniProtKB/TrEMBL
      A0A8M9QE24
      Conserved Domains (4) summary
      smart00389
      Location:524 → 560
      HOX; Homeodomain
      sd00017
      Location:819 → 839
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:195 → 217
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:859 → 884
      zf-H2C2_2; Zinc-finger double domain

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394846.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      200912..225362 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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