Nfkb2 nuclear factor of kappa light polypeptide gene enhancer in B cells 2, p49/p100 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Nfkb2provided by MGI
Official Full Name: nuclear factor of kappa light polypeptide gene enhancer in B cells 2, p49/p100provided by MGI
Primary source: MGI:MGI:1099800
See related: Ensembl:ENSMUSG00000025225 AllianceGenome:MGI:1099800
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: lyt; p49; p52; p50B; p49/p100; NF-kappaB2
Summary: Predicted to enable DNA-binding transcription activator 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 NIK/NF-kappaB signaling; follicular dendritic cell differentiation; and germinal center formation. Located in nucleus. Is expressed in several structures, including early conceptus; genitourinary system; musculature; thymus primordium; and trigeminal ganglion. Used to study common variable immunodeficiency. Human ortholog(s) of this gene implicated in common variable immunodeficiency. Orthologous to human NFKB2 (nuclear factor kappa B subunit 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in spleen adult (RPKM 67.0), mammary gland adult (RPKM 33.7) and 15 other tissues See more
Orthologs: human all
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Genomic context

Location:: 19 C3; 19 38.8 cM

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	19	NC_000085.7 (46285478..46300839)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	19	NC_000085.6 (46300994..46312400)

Chromosome 19 - NC_000085.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TRIM55 promotes noncanonical NF-kappaB signaling and B cell-mediated immune responses by coordinating p100 ubiquitination and processing.
Title: TRIM55 promotes noncanonical NF-κB signaling and B cell-mediated immune responses by coordinating p100 ubiquitination and processing.
HDAC5-Mediated Acetylation of p100 Suppresses Its Processing.
Title: HDAC5-Mediated Acetylation of p100 Suppresses Its Processing.
Nfkb2 deficiency and its impact on plasma cells and immunoglobulin expression in murine small intestinal mucosa.
Title: Nfkb2 deficiency and its impact on plasma cells and immunoglobulin expression in murine small intestinal mucosa.
Trim14 promotes osteoclastogenesis and noncanonical NF-kappaB activation by targeting p100/p52 in chronic periodontitis.
Title: Trim14 promotes osteoclastogenesis and noncanonical NF-κB activation by targeting p100/p52 in chronic periodontitis.
TiO2 nanosheets promote the transformation of vascular smooth muscle cells into foam cells in vitro and in vivo through the up-regulation of nuclear factor kappa B subunit 2.
Title: TiO(2) nanosheets promote the transformation of vascular smooth muscle cells into foam cells in vitro and in vivo through the up-regulation of nuclear factor kappa B subunit 2.
An epithelial Nfkb2 pathway exacerbates intestinal inflammation by supplementing latent RelA dimers to the canonical NF-kappaB module.
Title: An epithelial Nfkb2 pathway exacerbates intestinal inflammation by supplementing latent RelA dimers to the canonical NF-κB module.
Nfkb2 variants reveal a p100-degradation threshold that defines autoimmune susceptibility.
Title: Nfkb2 variants reveal a p100-degradation threshold that defines autoimmune susceptibility.
NF-kappaB2 signalling in enteroids modulates enterocyte responses to secreted factors from bone marrow-derived dendritic cells.
Title: NF-κB2 signalling in enteroids modulates enterocyte responses to secreted factors from bone marrow-derived dendritic cells.
Gene expression and chromatin accessibility analyses of in vivo- and ex vivo-generated LSD1-deficient MZB indicated that LSD1 regulated the downstream target genes of noncanonical NF-kappaB signaling. Additionally LSD1 was found to interact with the noncanonical NF-kappaB transcription factor p52.
Title: LSD1 Cooperates with Noncanonical NF-κB Signaling to Regulate Marginal Zone B Cell Development.
Inactivation of NF-kappaB2 (p52) restrains hepatic glucagon response via preserving PDE4B induction.
Title: Inactivation of NF-κB2 (p52) restrains hepatic glucagon response via preserving PDE4B induction.

Submit: New GeneRIF Correction See all GeneRIFs (76)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (5) 1 citation
Chemically induced (ENU) (6) 1 citation
Endonuclease-mediated (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Nfkb2 (e-PCR), detects polymorphism
- UniSTS:226060

AI837757 (e-PCR)
- UniSTS:166158

AI426354 (e-PCR)
- UniSTS:160850

NoName (e-PCR)
- UniSTS:224707

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	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	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 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 protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in canonical NF-kappaB signal transduction	ISO Inferred from Sequence Orthology more info
involved_in cellular response to stress	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within extracellular matrix organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within follicular dendritic cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within germinal center formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in inflammatory response	IBA Inferred from Biological aspect of Ancestor more info
involved_in innate immune response	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within lymph node development	TAS Traceable Author Statement more info	PubMed
involved_in non-canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in non-canonical NF-kappaB signal transduction	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor 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 response to cytokine	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within rhythmic process	IEA Inferred from Electronic Annotation more info
involved_in signal transduction	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within spleen development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of Bcl3/NF-kappaB2 complex	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: nuclear factor NF-kappa-B p100 subunit

Names: DNA-binding factor KBF2; NF kappaB2

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_001177369.1 → NP_001170840.1 nuclear factor NF-kappa-B p100 subunit isoform a

See identical proteins and their annotated locations for NP_001170840.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) represents use of an alternate promoter and 5' UTR, compared to variant 1. Both variants 1 and 2 encode the same isoform (a), which is shorter than isoform b.

Source sequence(s)

AC114539, AK137680, AK150012

Consensus CDS

CCDS29874.1

UniProtKB/Swiss-Prot

Q9WTK5

UniProtKB/TrEMBL

Q3UG25, Q3ULT8, Q3UV15

Related

ENSMUSP00000072859.6, ENSMUST00000073116.13

Conserved Domains (7) summary

cd07934
Location:38 → 221

RHD-n_NFkB2; N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor kappa B2 (NF-kappa B2)

cd08798
Location:774 → 849

Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100

cd00204
Location:483 → 620

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:228 → 327

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:531 → 628

Ank_2; Ankyrin repeats (3 copies)

pfam13637
Location:488 → 547

Ank_4; Ankyrin repeats (many copies)

sd00045
Location:599 → 630

ANK; ANK repeat [structural motif]
NM_001177370.1 → NP_001170841.1 nuclear factor NF-kappa-B p100 subunit isoform b

See identical proteins and their annotated locations for NP_001170841.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The extent of the 5' UTR has not been determined for this variant. The resulting isoform (b) include one additional residue in the C-terminal region, compared to isoform a.

Source sequence(s)

AC114539

UniProtKB/TrEMBL

Q3ULT8, Q3UV15, Q4U105

Related

ENSMUSP00000158143.2, ENSMUST00000237791.2

Conserved Domains (5) summary

cd07934
Location:38 → 221

RHD-n_NFkB2; N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor kappa B2 (NF-kappa B2)

cd08798
Location:774 → 849

Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100

PHA03095
Location:459 → 705

PHA03095; ankyrin-like protein; Provisional

cd01177
Location:228 → 327

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 ...

sd00045
Location:599 → 630

ANK; ANK repeat [structural motif]
NM_019408.3 → NP_062281.1 nuclear factor NF-kappa-B p100 subunit isoform a

See identical proteins and their annotated locations for NP_062281.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript. Both variants 1 and 2 encode the same isoform (a), which is shorter than isoform b.

Source sequence(s)

AC114539, AK137680, AK150012, BY147052, CJ134893

Consensus CDS

CCDS29874.1

UniProtKB/Swiss-Prot

Q9WTK5

UniProtKB/TrEMBL

Q3UG25, Q3ULT8, Q3UV15

Related

ENSMUSP00000107512.3, ENSMUST00000111881.4

Conserved Domains (7) summary

cd07934
Location:38 → 221

RHD-n_NFkB2; N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor kappa B2 (NF-kappa B2)

cd08798
Location:774 → 849

Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100

cd00204
Location:483 → 620

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:228 → 327

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:531 → 628

Ank_2; Ankyrin repeats (3 copies)

pfam13637
Location:488 → 547

Ank_4; Ankyrin repeats (many copies)

sd00045
Location:599 → 630

ANK; ANK repeat [structural motif]

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000085.7 Reference GRCm39 C57BL/6J

Range

46285478..46300839

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006526743.5 → XP_006526806.1 nuclear factor NF-kappa-B p100 subunit isoform X1

See identical proteins and their annotated locations for XP_006526806.1

UniProtKB/TrEMBL

Q3ULT8, Q3UV15, Q4U105

Conserved Domains (5) summary

cd07934
Location:38 → 221

RHD-n_NFkB2; N-terminal sub-domain of the Rel homology domain (RHD) of nuclear factor kappa B2 (NF-kappa B2)

cd08798
Location:774 → 849

Death_NFkB2_p100; Death domain of the Nuclear Factor-KappaB2 precursor protein p100

PHA03095
Location:459 → 705

PHA03095; ankyrin-like protein; Provisional

cd01177
Location:228 → 327

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 ...

sd00045
Location:599 → 630

ANK; ANK repeat [structural motif]