Nkx3-1 NK3 homeobox 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nkx3-1provided by RGD
Official Full Name: NK3 homeobox 1provided by RGD
Primary source: RGD:1305369
See related: EnsemblRapid:ENSRNOG00000015477 AllianceGenome:RGD:1305369
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
Also known as: Nkx3.1
Summary: Predicted to enable several functions, including MADS box domain binding activity; cysteine-type endopeptidase activator activity involved in apoptotic process; and histone deacetylase binding activity. Predicted to be involved in several processes, including chordate embryonic development; positive regulation of cell communication; and regulation of macromolecule metabolic process. Predicted to act upstream of or within several processes, including epithelial cell proliferation involved in salivary gland morphogenesis; morphogenesis of a branching epithelium; and negative regulation of epithelial cell proliferation involved in prostate gland development. Predicted to be located in cytosol; nucleoplasm; and site of DNA damage. Human ortholog(s) of this gene implicated in hepatocellular carcinoma. Orthologous to human NKX3-1 (NK3 homeobox 1). [provided by Alliance of Genome Resources, Jan 2025]
Expression: Biased expression in Adrenal (RPKM 47.9), Testes (RPKM 13.6) and 2 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 15p11

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	15	NC_086033.1 (50883661..50886253)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	15	NC_051350.1 (44473851..44476443)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	15	NC_005114.4 (51065316..51067908)

Chromosome 15 - NC_086033.1 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: 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?

TALEN-mediated generation of Nkx3.1 knockout rat model.
Title: TALEN-mediated generation of Nkx3.1 knockout rat model.
MYOCD can discriminate among several juxtaposed CArG elements, presumably through its novel partnership with NKX3.1, to optimally transactivate the human ACTG2 promoter
Title: Myocardin-dependent activation of the CArG box-rich smooth muscle gamma-actin gene: preferential utilization of a single CArG element through functional association with the NKX3.1 homeodomain protein.
The significant increase in NK-3 receptors during pancreatic stimulation suggests that NK-3 receptors also intervene in the pathogenesis of mild acute pancreatitis in rats.
Title: Expression of NK-1 and NK-3 tachykinin receptors in pancreatic acinar cells after acute experimental pancreatitis in rats.

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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 factor activity	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology more info
enables MADS box domain binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables cysteine-type endopeptidase activator activity involved in apoptotic process	ISO Inferred from Sequence Orthology more info
enables histone deacetylase binding	ISO Inferred from Sequence Orthology more info
enables nuclear estrogen receptor binding	ISO Inferred from Sequence Orthology more info
enables nuclear receptor activity	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
enables transcription regulator inhibitor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in androgen receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within branching involved in prostate gland morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within branching morphogenesis of an epithelial tube	ISO Inferred from Sequence Orthology more info
involved_in cellular response to hypoxia	ISO Inferred from Sequence Orthology more info
involved_in cellular response to interleukin-1	ISO Inferred from Sequence Orthology more info
involved_in cellular response to steroid hormone stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to tumor necrosis factor	ISO Inferred from Sequence Orthology more info
involved_in cellular response to xenobiotic stimulus	ISO Inferred from Sequence Orthology more info
involved_in dorsal aorta development	ISO Inferred from Sequence Orthology more info
acts_upstream_of epithelial cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of epithelial cell proliferation involved in prostate gland development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epithelial cell proliferation involved in salivary gland morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in heart development	ISO Inferred from Sequence Orthology more info
involved_in male gonad development	ISO Inferred from Sequence Orthology more info
involved_in metanephros development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology 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 cell population proliferation	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
acts_upstream_of_or_within negative regulation of epithelial cell proliferation involved in prostate gland development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of insulin-like growth factor receptor signaling pathway	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 pharyngeal system development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of androgen secretion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell division	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cysteine-type endopeptidase activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of intrinsic apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein phosphorylation	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 prostate gland development	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein localization	ISO Inferred from Sequence Orthology more info
involved_in response to testosterone	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within salivary gland development	ISO Inferred from Sequence Orthology more info
involved_in somitogenesis	ISO Inferred from Sequence Orthology more info
involved_in urogenital system development	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	ISO Inferred from Sequence Orthology more info
located_in site of DNA damage	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: homeobox protein Nkx-3.1

Names: NK-3 transcription factor, locus 1

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.