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

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 AllianceGenome:RGD:3831
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: Enables chromatin binding activity; double-stranded DNA binding activity; and sequence-specific DNA binding activity. Involved in several processes, including cellular response to transforming growth factor beta stimulus; regulation of transcription by RNA polymerase II; and response to activity. Located in nucleus. 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]
Expression: Biased expression in Heart (RPKM 262.7), Lung (RPKM 169.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 17q12.1

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	17	NC_086035.1 (56644397..56811155, complement)
RS_2023_06	previous assembly	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_086035.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Vitamin D deficiency contributes to the diabetic kidney disease progression via increase ZEB1/ZEB2 expressions.
Title: Vitamin D deficiency contributes to the diabetic kidney disease progression via increase ZEB1/ZEB2 expressions.
ZEB1 regulates bone metabolism in osteoporotic rats through inducing POLDIP2 transcription.
Title: ZEB1 regulates bone metabolism in osteoporotic rats through inducing POLDIP2 transcription.
ZEB1 Induces Ddr1 Promoter Hypermethylation and Contributes to the Chronic Pain in Spinal Cord in Rats Following Oxaliplatin Treatment.
Title: ZEB1 Induces Ddr1 Promoter Hypermethylation and Contributes to the Chronic Pain in Spinal Cord in Rats Following Oxaliplatin Treatment.
Zincfinger Eboxbinding homeobox 1 alleviates acute kidney injury by activating autophagy and the AMPK/mTOR pathway.
Title: Zinc‑finger E‑box‑binding homeobox 1 alleviates acute kidney injury by activating autophagy and the AMPK/mTOR pathway.
MicroRNA-128-3p Alleviates Neuropathic Pain Through Targeting ZEB1.
Title: MicroRNA-128-3p Alleviates Neuropathic Pain Through Targeting ZEB1.
LncRNA NEAT1 promotes extracellular matrix accumulation and epithelial-to-mesenchymal transition by targeting miR-27b-3p and ZEB1 in diabetic nephropathy
Title: LncRNA NEAT1 promotes extracellular matrix accumulation and epithelial-to-mesenchymal transition by targeting miR-27b-3p and ZEB1 in diabetic nephropathy.
XIST/miR-150/ZEB1 axis can be provided as a therapeutic target in neuropathic pain.
Title: XIST accelerates neuropathic pain progression through regulation of miR-150 and ZEB1 in CCI rat models.
miR-200b/miR-429 can serve as an important regulator of neuropathic pain development by targeting ZEB1.
Title: Inhibition of miR-200b/miR-429 contributes to neuropathic pain development through targeting zinc finger E box binding protein-1.
The results suggest that an antagonistic cascade exists between the TGF-beta1/Smad/deltaEF1 pathways and Npr1 expression and receptor signaling that is relevant to renal and vascular remodeling, and may be critical in the regulation of blood pressure and cardiovascular homeostasis.
Title: Transforming growth factor β1 antagonizes the transcription, expression and vascular signaling of guanylyl cyclase/natriuretic peptide receptor A - role of δEF1.
TXNIP and diabetes up-regulate miR-200 expression in primary islets and miR-200 directly targets Zeb1 promoting beta cell apoptosis.
Title: MicroRNA-200 is induced by thioredoxin-interacting protein and regulates Zeb1 protein signaling and beta cell apoptosis.

Submit: New GeneRIF Correction See all GeneRIFs (17)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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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	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
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
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 metal ion binding	IEA Inferred from Electronic Annotation more info
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
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
acts_upstream_of cell population proliferation	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
acts_upstream_of epithelial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in forebrain development	IEP Inferred from Expression Pattern more info	PubMed
involved_in keratinocyte proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of keratinocyte proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of endothelial cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of endothelial cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of epithelial cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of epithelial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of keratinocyte proliferation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of keratinocyte proliferation	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 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
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	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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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)

NM_001308265.3 → NP_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)

JAXUCZ010000017

UniProtKB/Swiss-Prot

Q62947, Q62948

UniProtKB/TrEMBL

F8WG35

Related

ENSRNOP00000024336.5, ENSRNOT00000024336.8

Conserved Domains (5) summary

smart00389
Location:571 → 607

HOX; Homeodomain

COG5048
Location:906 → 959

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:883 → 903

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:220 → 242

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:923 → 948

zf-H2C2_2; Zinc-finger double domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086035.1 Reference GRCr8

Range

56644397..56811155 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063276113.1 → XP_063132183.1 zinc finger E-box-binding homeobox 1 isoform X1

UniProtKB/TrEMBL

A6K9E4
XM_039095404.2 → XP_038951332.1 zinc finger E-box-binding homeobox 1 isoform X1

UniProtKB/TrEMBL

A6K9E4, F8WG35

Conserved Domains (4) summary

sd00017
Location:685 → 705

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:22 → 44

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:725 → 750

zf-H2C2_2; Zinc-finger double domain

cl00084
Location:373 → 409

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.
XM_039095402.2 → XP_038951330.1 zinc finger E-box-binding homeobox 1 isoform X2

UniProtKB/TrEMBL

A0A8I6A3L9, F8WG35

Related

ENSRNOP00000086424.1

Conserved Domains (4) summary

sd00017
Location:866 → 886

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:203 → 225

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:906 → 931

zf-H2C2_2; Zinc-finger double domain

cl00084
Location:554 → 590

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.
XM_063276114.1 → XP_063132184.1 zinc finger E-box-binding homeobox 1 isoform X1

UniProtKB/TrEMBL

A6K9E4

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

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.