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

Summary

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, Apr 2022]
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: chromosome: 12

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	12	NC_007123.7 (26750268..26851726, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	12	NC_007123.6 (26658914..26760366, complement)

Chromosome 12 - NC_007123.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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

General gene information

Go to the top of the page Help

Markers

fc24f01.y1 (e-PCR)
- UniSTS:193205

Z4188 (e-PCR)
- UniSTS:56534

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_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

Go to the top of the page Help

Preferred Names: zinc finger E-box-binding homeobox 1; 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)

Go to the top of the page Help

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)

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: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007123.7 Reference GRCz11 Primary Assembly

Range

26750268..26851726 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021480009.1 → XP_021335684.1 zinc finger E-box-binding homeobox 1 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