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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
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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)

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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_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.
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