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    Zeb1 zinc finger E-box binding homeobox 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25705, updated on 5-Jun-2021

    Summary

    Official Symbol
    Zeb1provided by RGD
    Official Full Name
    zinc finger E-box binding homeobox 1provided by RGD
    Primary source
    RGD:3831
    See related
    Ensembl:ENSRNOG00000017863
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Tcf8; Zfhx1a; deltaEF1
    Summary
    zinc finger and homeodomain protein that binds T3-response elements [RGD, Feb 2006]
    Expression
    Biased expression in Heart (RPKM 262.7), Lung (RPKM 169.1) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Zeb1 in Genome Data Viewer
    Location:
    17q12.1
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    108 current mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (51948948..52116018, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (54656627..54714920, complement)

    Chromosome 17 - NC_051352.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102554214 Neighboring gene uncharacterized LOC120097797 Neighboring gene uncharacterized LOC120097729 Neighboring gene translation initiation factor IF-2-like Neighboring gene uncharacterized LOC108348574 Neighboring gene small nucleolar RNA SNORA48 Neighboring gene heat shock cognate 71 kDa protein-like Neighboring gene zinc finger protein 438

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-binding transcription factor activity TAS
    Traceable Author Statement
    more info
    PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
     
    enables DNA-binding transcription repressor activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
     
    enables E-box binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables E-box binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables E-box binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables chromatin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables zinc ion binding TAS
    Traceable Author Statement
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in anatomical structure development IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    acts_upstream_of_or_within animal organ development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cartilage development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cartilage development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to amino acid stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cellular response to amino acid stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to transforming growth factor beta stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in central nervous system development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within central nervous system development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cochlea morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cochlea morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in embryonic camera-type eye morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within embryonic camera-type eye morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within embryonic morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in embryonic skeletal system morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within embryonic skeletal system morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in forebrain development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in negative regulation of cell population proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within negative regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of endothelial cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of epithelial cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within negative regulation of epithelial cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    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 negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription, DNA-templated ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription, DNA-templated ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in pattern specification process IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within pattern specification process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of neuron differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of neuron differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of T cell differentiation in thymus IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of T cell differentiation in thymus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of mesenchymal cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of mesenchymal cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of smooth muscle cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of smooth muscle cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in regulation of transforming growth factor beta receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of transforming growth factor beta receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to activity IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in response to nutrient levels IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in semicircular canal morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within semicircular canal morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    zinc finger E-box-binding homeobox 1
    Names
    TCF-8
    transcription factor 8 (represses interleukin 2 expression)
    zfhep
    zinc finger homeodomain enhancer-binding protein

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001308265.2NP_001295194.1  zinc finger E-box-binding homeobox 1

      See identical proteins and their annotated locations for NP_001295194.1

      Status: VALIDATED

      Source sequence(s)
      JACYVU010000293
      UniProtKB/Swiss-Prot
      Q62947
      Related
      ENSRNOP00000024336.4, ENSRNOT00000024336.7
      Conserved Domains (5) summary
      smart00389
      Location:571607
      HOX; Homeodomain
      COG5048
      Location:906959
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:883903
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:220242
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:923948
      zf-H2C2_2; Zinc-finger double domain

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference mRatBN7.2 Primary Assembly

    Genomic

    1. NC_051352.1 Reference mRatBN7.2 Primary Assembly

      Range
      51948948..52116018 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039095400.1XP_038951328.1  zinc finger E-box-binding homeobox 1 isoform X1

      Conserved Domains (4) summary
      sd00017
      Location:891911
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:228250
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:931956
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:579615
      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.
    2. XM_039095410.1XP_038951338.1  zinc finger E-box-binding homeobox 1 isoform X6

      Conserved Domains (4) summary
      sd00017
      Location:727747
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:6486
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:767792
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:415451
      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.
    3. XM_039095408.1XP_038951336.1  zinc finger E-box-binding homeobox 1 isoform X6

      Conserved Domains (4) summary
      sd00017
      Location:727747
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:6486
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:767792
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:415451
      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.
    4. XM_039095403.1XP_038951331.1  zinc finger E-box-binding homeobox 1 isoform X4

      Conserved Domains (4) summary
      sd00017
      Location:816836
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:153175
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:856881
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:504540
      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.
    5. XM_039095405.1XP_038951333.1  zinc finger E-box-binding homeobox 1 isoform X6

      Conserved Domains (4) summary
      sd00017
      Location:727747
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:6486
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:767792
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:415451
      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.
    6. XM_039095413.1XP_038951341.1  zinc finger E-box-binding homeobox 1 isoform X5

      Conserved Domains (4) summary
      sd00017
      Location:685705
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:2244
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:725750
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:373409
      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.
    7. XM_039095412.1XP_038951340.1  zinc finger E-box-binding homeobox 1 isoform X6

      Conserved Domains (4) summary
      sd00017
      Location:727747
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:6486
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:767792
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:415451
      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.
    8. XM_039095404.1XP_038951332.1  zinc finger E-box-binding homeobox 1 isoform X5

      Conserved Domains (4) summary
      sd00017
      Location:685705
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:2244
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:725750
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:373409
      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.
    9. XM_039095411.1XP_038951339.1  zinc finger E-box-binding homeobox 1 isoform X6

      Conserved Domains (4) summary
      sd00017
      Location:727747
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:6486
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:767792
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:415451
      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.
    10. XM_039095402.1XP_038951330.1  zinc finger E-box-binding homeobox 1 isoform X3

      Conserved Domains (4) summary
      sd00017
      Location:866886
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:203225
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:906931
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:554590
      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.
    11. XM_039095401.1XP_038951329.1  zinc finger E-box-binding homeobox 1 isoform X2

      Conserved Domains (4) summary
      sd00017
      Location:869889
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:206228
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:909934
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:557593
      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.
    12. XM_039095407.1XP_038951335.1  zinc finger E-box-binding homeobox 1 isoform X6

      Conserved Domains (4) summary
      sd00017
      Location:727747
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:6486
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:767792
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:415451
      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.
    13. XM_039095409.1XP_038951337.1  zinc finger E-box-binding homeobox 1 isoform X6

      Conserved Domains (4) summary
      sd00017
      Location:727747
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:6486
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:767792
      zf-H2C2_2; Zinc-finger double domain
      cl00084
      Location:415451
      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.

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_013164.1: Suppressed sequence

      Description
      NM_013164.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Support Center