Nfkb1 nuclear factor kappa B subunit 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nfkb1provided by RGD
Official Full Name: nuclear factor kappa B subunit 1provided by RGD
Primary source: RGD:70498
See related: Ensembl:ENSRNOG00000023258 AllianceGenome:RGD:70498
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: EBP-1; NF-kB
Summary: Enables heat shock protein binding activity; identical protein binding activity; and transcription cis-regulatory region binding activity. Involved in several processes, including cellular response to cytokine stimulus; cellular response to lipid; and regulation of gene expression. Acts upstream of or within cellular response to cytokine stimulus and cellular response to organic cyclic compound. Located in cytosol; neuron projection; and nucleus. Part of protein-containing complex. Used to study fatty liver disease. Biomarker of alcoholic hepatitis; non-alcoholic steatohepatitis; and transient cerebral ischemia. Human ortholog(s) of this gene implicated in several diseases, including carcinoma (multiple); common variable immunodeficiency; melanoma; prostate cancer; and tropical spastic paraparesis. Orthologous to human NFKB1 (nuclear factor kappa B subunit 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 254.0), Lung (RPKM 209.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q43

Exon count:: 25

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (226689745..226805897, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (224016214..224132135, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (240773520..240890053, complement)

Chromosome 2 - NC_086020.1 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?

Nuclear factor kappa B (NF-kappaB) participates in the aluminum-induced down-regulation of miR29a/b1.
Title: Nuclear factor kappa B (NF-κB) participates in the aluminum-induced down-regulation of miR29a/b1.
Suppression of microRNA-320 Induces Cerebral Protection Against Ischemia/Reperfusion Injury by Targeting HMGB1/NF-kappaB Axis.
Title: Suppression of microRNA-320 Induces Cerebral Protection Against Ischemia/Reperfusion Injury by Targeting HMGB1/NF-kappaB Axis.
Protein tyrosine phosphatase 1B contributes to neuropathic pain by aggravating NF-kappaB and glial cells activation-mediated neuroinflammation via promoting endoplasmic reticulum stress.
Title: Protein tyrosine phosphatase 1B contributes to neuropathic pain by aggravating NF-κB and glial cells activation-mediated neuroinflammation via promoting endoplasmic reticulum stress.
Chitosan-coated nanostructured lipid carriers for effective brain delivery of Tanshinone IIA in Parkinson's disease: interplay between nuclear factor-kappa beta and cathepsin B.
Title: Chitosan-coated nanostructured lipid carriers for effective brain delivery of Tanshinone IIA in Parkinson's disease: interplay between nuclear factor-kappa β and cathepsin B.
NAMPT mediates PDGF-induced pulmonary arterial smooth muscle cell proliferation by TLR4/NF-kappaB/PLK4 signaling pathway.
Title: NAMPT mediates PDGF-induced pulmonary arterial smooth muscle cell proliferation by TLR4/NF-κB/PLK4 signaling pathway.
Mesenchymal stem cells overexpressing PBX1 alleviates haemorrhagic shock-induced kidney damage by inhibiting NF-kappaB activation.
Title: Mesenchymal stem cells overexpressing PBX1 alleviates haemorrhagic shock-induced kidney damage by inhibiting NF-κB activation.
Alleviation of adipose-hepatic glycolipid dysregulation by acetate in experimental PCOS model is associated with NF-kappaB/NLRP3 repression.
Title: Alleviation of adipose-hepatic glycolipid dysregulation by acetate in experimental PCOS model is associated with NF-κB/NLRP3 repression.
Damaged mitochondria recruit the effector NEMO to activate NF-kappaB signaling.
Title: Damaged mitochondria recruit the effector NEMO to activate NF-κB signaling.
NF-kappaB p65 Attenuates Cardiomyocyte PGC-1alpha Expression in Hypoxia.
Title: NF-κB p65 Attenuates Cardiomyocyte PGC-1α Expression in Hypoxia.
LPS induced PCT production via TLR-4/NF-small ka, CyrillicB passway:it is the difference of G-/G+ bacteremia rats.
Title: LPS induced PCT production via TLR-4/NF-кB passway:it is the difference of G-/G+ bacteremia rats.

Submit: New GeneRIF Correction See all GeneRIFs (425)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D0Mco82 (e-PCR)
- UniSTS:518996

PMC213488P1 (e-PCR)
- UniSTS:272039

RH127857 (e-PCR)
- UniSTS:211167

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation 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	TAS Traceable Author Statement more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology 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 RNA polymerase II cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	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 actinin binding	IEA Inferred from Electronic Annotation more info
enables actinin binding	ISO Inferred from Sequence Orthology more info
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 heat shock protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein sequestering activity	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables transcription cis-regulatory region binding	IDA Inferred from Direct Assay more info	PubMed
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info
enables transcription coregulator activity	IEA Inferred from Electronic Annotation more info
enables transcription coregulator activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in B cell receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in B cell receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in JNK cascade	IEA Inferred from Electronic Annotation more info
involved_in JNK cascade	ISO Inferred from Sequence Orthology more info
involved_in MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in antibacterial innate immune response	IEA Inferred from Electronic Annotation more info
involved_in antibacterial innate immune response	ISO Inferred from Sequence Orthology more info
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in canonical NF-kappaB signal transduction	IEA Inferred from Electronic Annotation more info
involved_in canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in cellular response to angiotensin	IEA Inferred from Electronic Annotation more info
involved_in cellular response to angiotensin	ISO Inferred from Sequence Orthology more info
involved_in cellular response to brain-derived neurotrophic factor stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to carbohydrate stimulus	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within cellular response to cytokine stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to diterpene	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to dsRNA	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular response to dsRNA	ISO Inferred from Sequence Orthology more info
involved_in cellular response to glucoside	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to interleukin-1	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to interleukin-1	IEA Inferred from Electronic Annotation more info
involved_in cellular response to interleukin-1	ISO Inferred from Sequence Orthology more info
involved_in cellular response to interleukin-17	IEA Inferred from Electronic Annotation more info
involved_in cellular response to interleukin-17	ISO Inferred from Sequence Orthology more info
involved_in cellular response to interleukin-6	IEA Inferred from Electronic Annotation more info
involved_in cellular response to interleukin-6	ISO Inferred from Sequence Orthology more info
involved_in cellular response to lipopolysaccharide	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to lipopolysaccharide	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular response to lipopolysaccharide	ISO Inferred from Sequence Orthology more info
involved_in cellular response to lipopolysaccharide	ISO Inferred from Sequence Orthology more info
involved_in cellular response to mechanical stimulus	IEA Inferred from Electronic Annotation more info
involved_in cellular response to mechanical stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to nicotine	IEA Inferred from Electronic Annotation more info
involved_in cellular response to nicotine	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to organic cyclic compound	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to peptide	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to tumor necrosis factor	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to tumor necrosis factor	IEA Inferred from Electronic Annotation more info
involved_in cellular response to tumor necrosis factor	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within cellular response to tumor necrosis factor	ISO Inferred from Sequence Orthology more info
involved_in cellular response to virus	IEA Inferred from Electronic Annotation more info
involved_in cellular response to virus	ISO Inferred from Sequence Orthology more info
involved_in gene expression	IEA Inferred from Electronic Annotation more info
involved_in gene expression	ISO Inferred from Sequence Orthology more info
involved_in leukocyte migration involved in inflammatory response	IEP Inferred from Expression Pattern more info	PubMed
involved_in mammary gland involution	IEA Inferred from Electronic Annotation more info
involved_in mammary gland involution	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of cytokine production	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of inflammatory response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of interleukin-12 production	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of interleukin-12 production	ISO Inferred from Sequence Orthology more info
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 non-canonical NF-kappaB signal transduction	IEA Inferred from Electronic Annotation more info
involved_in non-canonical NF-kappaB signal transduction	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 DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of canonical Wnt signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of hyaluronan biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of hyaluronan biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of miRNA metabolic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of miRNA metabolic process	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 positive regulation of transcription initiation by RNA polymerase II	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of transcription initiation by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in response to bacterium	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to copper ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to ethanol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to muscle stretch	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to muscle stretch	ISO Inferred from Sequence Orthology more info
involved_in response to organic cyclic compound	IDA Inferred from Direct Assay more info	PubMed
involved_in response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to oxidative stress	IDA Inferred from Direct Assay more info	PubMed
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in signal transduction	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of NF-kappaB p50/p65 complex	IEA Inferred from Electronic Annotation more info
part_of NF-kappaB p50/p65 complex	ISO Inferred from Sequence Orthology more info
part_of chromatin	IEA Inferred from Electronic Annotation more info
part_of chromatin	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	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
is_active_in nucleus	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
part_of transcription regulator complex	IEA Inferred from Electronic Annotation more info
part_of transcription regulator complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: nuclear factor NF-kappa-B p105 subunit

Names: DNA-binding factor KBF1; nuclear factor of kappa light chain gene enhancer in B-cells 1, p105; nuclear factor of kappa light polypeptide gene enhancer in B-cells 1, p105

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_001276711.2 → NP_001263640.1 nuclear factor NF-kappa-B p105 subunit isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/TrEMBL

A0A9S9T974

Conserved Domains (8) summary

cd07935
Location:40 → 241

RHD-n_NFkB1; N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor of kappa B1 (NF-kappa B1)

cd00204
Location:573 → 702

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

cd01177
Location:248 → 349

IPT_NFkappaB; IPT domain of the transcription factor NFkappaB and related transcription factors. NFkappaB is considered a central regulator of stress responses, activated by different stressful conditions, including physical stress, oxidative stress, and exposure to ...

cd08797
Location:813 → 887

Death_NFkB1_p105; Death domain of the Nuclear Factor-KappaB1 precursor protein p105

pfam12796
Location:583 → 677

Ank_2; Ankyrin repeats (3 copies)

pfam13637
Location:540 → 599

Ank_4; Ankyrin repeats (many copies)

pfam13857
Location:667 → 723

Ank_5; Ankyrin repeats (many copies)

sd00045
Location:580 → 609

ANK; ANK repeat [structural motif]
NM_001415012.1 → NP_001401941.1 nuclear factor NF-kappa-B p105 subunit isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

F1LQH2, Q63369

Related

ENSRNOP00000082290.1, ENSRNOT00000109057.1

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_086020.1 Reference GRCr8

Range

226689745..226805897 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063282630.1 → XP_063138700.1 nuclear factor NF-kappa-B p105 subunit isoform X4
XM_063282629.1 → XP_063138699.1 nuclear factor NF-kappa-B p105 subunit isoform X2
XM_006233360.5 → XP_006233422.1 nuclear factor NF-kappa-B p105 subunit isoform X3

UniProtKB/TrEMBL

A0A9S9T974

Conserved Domains (8) summary

cd07935
Location:41 → 242

RHD-n_NFkB1; N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor of kappa B1 (NF-kappa B1)

cd00204
Location:574 → 703

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

cd01177
Location:249 → 350

IPT_NFkappaB; IPT domain of the transcription factor NFkappaB and related transcription factors. NFkappaB is considered a central regulator of stress responses, activated by different stressful conditions, including physical stress, oxidative stress, and exposure to ...

pfam12796
Location:584 → 678

Ank_2; Ankyrin repeats (3 copies)

pfam13637
Location:541 → 600

Ank_4; Ankyrin repeats (many copies)

pfam13857
Location:668 → 724

Ank_5; Ankyrin repeats (many copies)

sd00045
Location:581 → 610

ANK; ANK repeat [structural motif]

cl14633
Location:814 → 863

DD; Death Domain Superfamily of protein-protein interaction domains
XM_063282628.1 → XP_063138698.1 nuclear factor NF-kappa-B p105 subunit isoform X1