nanog nanog homeobox [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: nanogprovided by ZNC
Official Full Name: nanog homeoboxprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-5486
See related: Ensembl:ENSDARG00000075113 AllianceGenome:ZFIN:ZDB-GENE-030131-5486
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: hacp; fd20a07; wu:fd19e04; wu:fd20a07; zgc:193933
Summary: Enables chromatin binding activity; identical protein binding activity; and sequence-specific DNA binding activity. Involved in nucleosome organization. Acts upstream of or within with a positive effect on yolk syncytial layer development. Acts upstream of or within several processes, including cytoskeleton organization; endoderm formation; and epiboly. Predicted to be located in nucleus. Is expressed in several structures, including blastoderm; blastodisc; liver; neuronal stem cell; and reproductive system. Orthologous to several human genes including NANOG (Nanog homeobox). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 24

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	24	NC_007135.7 (12836079..12841158)
105	previous assembly	GRCz10 (GCF_000002035.5)	24	NC_007135.6 (12689785..12694864)

Chromosome 24 - NC_007135.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Nanog safeguards early embryogenesis against global activation of maternal beta-catenin activity by interfering with TCF factors.
Title: Nanog safeguards early embryogenesis against global activation of maternal β-catenin activity by interfering with TCF factors.
Nanog binds to the high nucleosome affinity regions center at zygotic genome activation.
Title: Pou5f3, SoxB1, and Nanog remodel chromatin on high nucleosome affinity regions at zygotic genome activation.
Nanog suppresses the expression of vasa by directly regulating nlk1 in the early zebrafish embryo
Title: Nanog suppresses the expression of vasa by directly regulating nlk1 in the early zebrafish embryo.
These results indicate that zebrafish Nanog is necessary for proper yolk syncytial layer development but is not directly required for embryonic cell differentiation.
Title: The primary role of zebrafish nanog is in extra-embryonic tissue.
findings suggest that maternal Nanog coordinates several gene regulatory networks that shape the embryo during gastrulation.
Title: Maternal Nanog is required for zebrafish embryo architecture and for cell viability during gastrulation.
The authors show, at single-cell resolution in vivo, that Pou5f3 complexes with Nanog to pattern mesendoderm differentiation at the blastula stage.
Title: Quantitative imaging reveals real-time Pou5f3-Nanog complexes driving dorsoventral mesendoderm patterning in zebrafish.
These data indicated that zNanog inhibits the primordial germ cells proliferation in early embryonic development of zebrafish.
Title: Knockdown of zebrafish Nanog increases primordial germ cells during early embryonic development.
Nanog has a role in supressing cell migration.
Title: Nanog suppresses cell migration by downregulating thymosin β4 and Rnd3.
maternal Nanog, Pou5f1 and SoxB1 are required to initiate the zygotic developmental program and induce clearance of the maternal program by activating miR-430 expression
Title: Nanog, Pou5f1 and SoxB1 activate zygotic gene expression during the maternal-to-zygotic transition.
Depletion of Nanog in zebrafish cannot be rescued by ectopic expression of Xvent, and Xvent depletion in Xenopus cannot be overcome by ectopic expression of zebrafish Nanog.
Title: Characterization of Danio rerio Nanog and functional comparison to Xenopus Vents.

Submit: New GeneRIF Correction See all GeneRIFs (11)

General gene information

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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	IDA Inferred from Direct Assay 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 factor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation 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 identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within actin cytoskeleton organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within chromatin remodeling	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cortical microtubule organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endoderm formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within epiboly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of epiboly	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within epiboly	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within gastrulation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within gastrulation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of beta-catenin-TCF complex assembly	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nucleosome organization	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of DNA-templated transcription	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of germ cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in stem cell population maintenance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within_positive_effect yolk syncytial layer development	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: homeobox protein NANOG

Names: ovary-expressed homeobox 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_001098392.1 → NP_001091862.1 homeobox protein NANOG

See identical proteins and their annotated locations for NP_001091862.1

Status: PROVISIONAL

Source sequence(s)

EF550998

UniProtKB/TrEMBL

A5JNG8, B3DG91

Related

ENSDARP00000102376.2, ENSDART00000114762.3

Conserved Domains (1) summary

cd00086
Location:196 → 254

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.