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zeb1a zinc finger E-box binding homeobox 1a [ Danio rerio (zebrafish) ]

Gene ID: 100004929, updated on 27-Mar-2024

Summary

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Official Symbol
zeb1aprovided by ZNC
Official Full Name
zinc finger E-box binding homeobox 1aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-070912-124
See related
Ensembl:ENSDARG00000016788 AllianceGenome:ZFIN:ZDB-GENE-070912-124
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
si:ch211-159p3.1
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 regulation of cell-cell adhesion involved in gastrulation; regulation of gastrulation; and smooth muscle tissue development. Is expressed in hypoblast and neural 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, Apr 2022]
Orthologs
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Genomic context

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See zeb1a in Genome Data Viewer
Location:
chromosome: 2
Exon count:
11
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (43805926..43852036, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (43953685..43999025, complement)

Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene Rho GTPase activating protein 12a Neighboring gene finTRIM family, member 16 Neighboring gene si:ch211-195h23.3 Neighboring gene NOD-like receptor family B, member 5 Neighboring gene uncharacterized LOC103910111

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. 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
  2. An exclusive cellular and molecular network governs intestinal smooth muscle cell differentiation in vertebrates. Gays D, et al. Development, 2017 Feb 1. PMID 28049660
  3. Biphasic Role of Tgf-β Signaling during Müller Glia Reprogramming and Retinal Regeneration in Zebrafish. Sharma P, et al. iScience, 2020 Feb 21. PMID 32004993, Free PMC Article
  4. Evolution of the miR199-214 cluster and vertebrate skeletal development. Desvignes T, et al. RNA Biol, 2014. PMID 24643020, Free PMC Article
  5. Oct4 mediates Müller glia reprogramming and cell cycle exit during retina regeneration in zebrafish. Sharma P, et al. Life Sci Alliance, 2019 Oct. PMID 31594822, Free PMC Article

See all (8) 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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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 anatomical structure development IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of cell maturation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of gastro-intestinal system smooth muscle contraction IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
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
  
acts_upstream_of_or_within smooth muscle tissue development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within tissue migration 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
zinc finger E-box-binding homeobox 1

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_007113.7 Reference GRCz11 Primary Assembly

    Range
    43805926..43852036 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_001344071.8 → XP_001344107.4  zinc finger E-box-binding homeobox 1 isoform X1

    UniProtKB/TrEMBL
    A0A8M1PZR7, F1QMZ5
    Related
    ENSDARP00000114082.2, ENSDART00000146493.4
    Conserved Domains (4) summary
    COG5048
    Location:1024 → 1077
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:1001 → 1021
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:215 → 237
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:229 → 252
    zf-H2C2_2; Zinc-finger double domain

  2. XM_005171409.4 → XP_005171466.1  zinc finger E-box-binding homeobox 1 isoform X2

    UniProtKB/TrEMBL
    A0A8M2BIS9, F1QBD3
    Related
    ENSDARP00000024857.7, ENSDART00000005449.8
    Conserved Domains (4) summary
    COG5048
    Location:1010 → 1063
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:987 → 1007
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:201 → 223
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:215 → 238
    zf-H2C2_2; Zinc-finger double domain
Nucleotide Protein
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