Nanog Nanog homeobox [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nanogprovided by RGD
Official Full Name: Nanog homeoboxprovided by RGD
Primary source: RGD:1303178
See related: Ensembl:ENSRNOG00000008368 AllianceGenome:RGD:1303178
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable several functions, including DNA-binding transcription factor activity, RNA polymerase II-specific; RNA polymerase II sequence-specific DNA-binding transcription factor recruiting activity; and identical protein binding activity. Involved in several processes, including cellular response to erythropoietin; cellular response to rapamycin; and multidimensional cell growth. Located in nucleus. Used to study colon cancer. Orthologous to several human genes including NANOG (Nanog homeobox). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Low expression observed in reference dataset See more
Orthologs: human mouse all
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Genomic context

Location:: 4q42

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (157615687..157623061)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (155943737..155951116)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (155531906..155539268)

Chromosome 4 - NC_086022.1 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?

TNF-alpha up-regulates Nanog by activating NF-kappaB pathway to induce primary rat spinal cord astrocytes dedifferentiation.
Title: TNF-α up-regulates Nanog by activating NF-κB pathway to induce primary rat spinal cord astrocytes dedifferentiation.
The Pluripotency Factor Nanog Protects against Neuronal Amyloid beta-Induced Toxicity and Oxidative Stress through Insulin Sensitivity Restoration.
Title: The Pluripotency Factor Nanog Protects against Neuronal Amyloid β-Induced Toxicity and Oxidative Stress through Insulin Sensitivity Restoration.
Taken together, these data suggested that both Nanog may play important roles in spinal cord pathophysiology via interact with CDK6.
Title: Nanog interact with CDK6 to regulates astrocyte cells proliferation following spinal cord injury.
Immunoexpressions of embryonic and nonembryonic stem cell markers (Nanog, Thy-1, c-kit) and cellular connections (connexin 43 and occludin) on testicular tissue in thyrotoxicosis rat model
Title: Immunoexpressions of embryonic and nonembryonic stem cell markers (Nanog, Thy-1, c-kit) and cellular connections (connexin 43 and occludin) on testicular tissue in thyrotoxicosis rat model.
The mRNA transcription and protein translation of nanog gene in the rat heart gradually decreased with every consecutive growth stage. This indicates that nanog gene has potential regulatory functions in the differentiation of myocardial cells
Title: The expression analysis of nanog in the developing rat myocardial tissues.
nanog-positive myocardial cells may respond to early myocardial repair, and the nanog-positive fibroblasts and small round cells are the main source for myocardial reconstruction after cardiac infarction
Title: Nanog expression in heart tissues induced by acute myocardial infarction.
Nanog and Klf4 antagonistically regulate c-Myc, and hence, cell hypoxia survival and cell cycle activation in experimental hepatoma.
Title: The involvement of a Nanog, Klf4 and c-Myc transcriptional circuitry in the intertwining between neoplastic progression and reprogramming.
Both the Nanog signaling pathway and the Wnt/beta-catenin signaling pathway are tightly involved in the proliferation and differentiation process of epidermal stem cells.
Title: Nanog and β-catenin: a new convergence point in EpSC proliferation and differentiation.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II sequence-specific DNA-binding transcription factor recruiting activity	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables lysine-acetylated histone binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of BMP signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in cell dedifferentiation	ISO Inferred from Sequence Orthology more info
involved_in cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in cellular response to erythropoietin	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to rapamycin	IEP Inferred from Expression Pattern more info	PubMed
involved_in embryonic pattern specification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within endodermal cell fate specification	ISO Inferred from Sequence Orthology more info
involved_in gene expression	ISO Inferred from Sequence Orthology more info
involved_in gonad development	ISO Inferred from Sequence Orthology more info
acts_upstream_of mesodermal cell fate commitment	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mesodermal cell fate commitment	ISO Inferred from Sequence Orthology more info
involved_in multidimensional cell growth	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within negative regulation of BMP signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of cell fate commitment	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of stem 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
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of stem cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in regulation of stem cell division	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 response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within response to organic substance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within response to retinoic acid	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within somatic stem cell population maintenance	ISO Inferred from Sequence Orthology more info
involved_in somatic stem cell population maintenance	ISO Inferred from Sequence Orthology more info
involved_in stem cell differentiation	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of stem cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within stem cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within stem cell division	ISO Inferred from Sequence Orthology more info
involved_in stem cell population maintenance	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within stem cell population maintenance	ISO Inferred from Sequence Orthology more info
involved_in stem cell population maintenance	ISO Inferred from Sequence Orthology more info
involved_in tissue regeneration	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
part_of chromatin	ISO Inferred from Sequence Orthology more info
NOT located_in condensed chromosome	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: homeobox protein NANOG

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_001100781.1 → NP_001094251.1 homeobox protein NANOG

See identical proteins and their annotated locations for NP_001094251.1

Status: PROVISIONAL

Source sequence(s)

CH473964

UniProtKB/TrEMBL

A6ILF7, A8QWW8, D3ZS29

Related

ENSRNOP00000063016.1, ENSRNOT00000060937.4

Conserved Domains (1) summary

pfam00046
Location:102 → 154

Homeobox; Homeobox 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_086022.1 Reference GRCr8

Range

157615687..157623061

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006237310.4 → XP_006237372.1 homeobox protein NANOG isoform X1

UniProtKB/TrEMBL

A8QWW8

Conserved Domains (1) summary

pfam00046
Location:102 → 154

Homeobox; Homeobox domain