Nfkb2 MGI Mouse Gene Detail - MGI:1099800 - nuclear factor of kappa light polypeptide gene enhancer in B cells 2, p49/p100

Symbol

Nfkb2
Name

nuclear factor of kappa light polypeptide gene enhancer in B cells 2, p49/p100
Synonyms

NF kappaB2, p52

Feature Type

protein coding gene
IDs

MGI:1099800
NCBI Gene: 18034
Alliance

gene page
Transcription Start Sites

21 TSS

Sequence Map

Chr19:46292759-46300824 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 19, 38.80 cM, cytoband C3-D2
Mapping Data

8 experiments

SNPs within 2kb

283 from dbSNP Build 142
Strain Annotations

18
PCR

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1099800	protein coding gene	Chr19:46285478-46300839 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0025203	protein coding gene	Chr19:45985843-45993056 (+)
A/J	MGP_AJ_G0025179	protein coding gene	Chr19:43721500-43728833 (+)
AKR/J	MGP_AKRJ_G0025148	protein coding gene	Chr19:45138282-45145723 (+)
BALB/cJ	MGP_BALBcJ_G0025174	protein coding gene	Chr19:43780476-43787738 (+)
C3H/HeJ	MGP_C3HHeJ_G0024934	protein coding gene	Chr19:45306184-45313399 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0025617	protein coding gene	Chr19:47134670-47143311 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0023031	protein coding gene	Chr19:42960176-42967531 (+)
CAST/EiJ	MGP_CASTEiJ_G0024399	protein coding gene	Chr19:45101742-45110723 (+)
CBA/J	MGP_CBAJ_G0024914	protein coding gene	Chr19:49492531-49499743 (+)
DBA/2J	MGP_DBA2J_G0025046	protein coding gene	Chr19:43544859-43552226 (+)
FVB/NJ	MGP_FVBNJ_G0025007	protein coding gene	Chr19:43322007-43329243 (+)
LP/J	MGP_LPJ_G0025132	protein coding gene	Chr19:45895396-45903766 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0025038	protein coding gene	Chr19:48835069-48842156 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0025675	protein coding gene	Chr19:45246268-45253480 (+)
PWK/PhJ	MGP_PWKPhJ_G0024148	protein coding gene	Chr19:43490797-43498601 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0023952	protein coding gene	Chr19:43898826-43906196 (+)
WSB/EiJ	MGP_WSBEiJ_G0024469	protein coding gene	Chr19:45386634-45395101 (+)

Human Ortholog

NFKB2, nuclear factor kappa B subunit 2

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

NFKB2, nuclear factor kappa B subunit 2
Synonyms

CVID10, H2TF1, LYT-10, LYT10, NF-kB2, p100, p49/p100, p52
Links

HGNC:7795

NCBI Gene ID: 4791

UniProt: Q00653
Chr Location

10q24.32; chr10:102394110-102402529 (+) GRCh38

MGI Vertebrate Homology

Nfkb2 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: NFKB2
Gene Tree

Nfkb2

Diseases

1 with Nfkb2 mouse models; 1 with human NFKB2 associations

Human Disease

Mouse Models

common variable immunodeficiency

IDs

View 3 models

common variable immunodeficiency 10

IDs

Click on a disease name to see all genes associated with that disease.

Mutations/Alleles

2 with disease annotations

References

1 with disease annotations

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Phenotype Summary

126 phenotypes from 10 alleles in 13 genetic backgrounds
41 phenotypes from multigenic genotypes
2 images
108 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

21
Chemically induced (ENU)

6
Endonuclease-mediated

7
Targeted

8
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

51 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Homozygotes for targeted null mutations exhibit gastric hyperplasia, enlarged lymph nodes, enhanced cytokine production by activated T cells, absence of Peyer's patches, increased susceptibility to Leishmania major, and early postnatal mortality.

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All GO Annotations

51
GO References

15

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

783
Tissues

46
cDNA Data

13
Literature Summary

16

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase nfkb2

ZFIN nfkb2

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All Sequences

82
RefSeq

8
UniProt

10
CCDS

CCDS29874.1

Ensembl

ENSMUSG00000025225 (Evidence)
NCBI Gene

18034

			Length	Strain/Species	Flank
genomic	ENSMUSG00000025225	Ensembl Gene Model \| MGI Sequence Detail	8066	C57BL/6J	± kb
transcript	ENSMUST00000111881	Ensembl \| MGI Sequence Detail	3141	Not Applicable
polypeptide	ENSMUSP00000107512	Ensembl \| MGI Sequence Detail	899	Not Applicable

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UniProt

10 Sequences
Protein Ontology

PR:000011178 nuclear factor NF-kappa-B p100 subunit

(term hierarchy)
PDB

3JV5, 3JV6
InterPro Domains

IPR002110 Ankyrin repeat

IPR036770 Ankyrin repeat-containing domain superfamily

IPR000488 Death domain

IPR011029 Death-like domain superfamily

IPR014756 Immunoglobulin E-set

IPR013783 Immunoglobulin-like fold

IPR002909 IPT domain

IPR000451 NF-kappa-B/Dorsal

IPR033926 NFkappaB IPT domain

IPR030497 Nuclear factor NF-kappa-B, p100 subunit, RHD domain, N-terminal

IPR008967 p53-like transcription factor, DNA-binding domain superfamily

IPR032397 Rel homology dimerisation domain

IPR030492 Rel homology domain, conserved site

IPR011539 Rel homology domain, DNA-binding domain

IPR037059 Rel homology domain (RHD), DNA-binding domain superfamily
GlyGen

Q9WTK5 2 sites, 1 O-linked glycan (1 site)

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All nucleic 28

Genomic 12

cDNA 13

Primer pair 2

Other 1

Microarray probesets 3

Summaries

All 213

Developmental Gene Expression 16

Diseases 1

Gene Ontology 15

Phenotypes 108
Earliest

J:54118 Verma IM, et al., Rel/NF-kappa B/I kappa B family: intimate tales of association and dissociation. Genes Dev. 1995 Nov 15;9(22):2723-35
Latest

J:368996 Deka A, et al., Non-canonical NF-kappaB signaling limits the tolerogenic beta-catenin-Raldh2 axis in gut dendritic cells to exacerbate intestinal pathologies. EMBO J. 2024 Sep;43(18):3895-3915

TSS for Nfkb2:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr156722	Chr19:46292829-46292845 (+)	78 bp
Tssr156723	Chr19:46293148-46293250 (+)	440 bp
Tssr156724	Chr19:46293269-46293278 (+)	515 bp
Tssr156725	Chr19:46294121-46294180 (+)	1,392 bp
Tssr156726	Chr19:46294184-46294226 (+)	1,446 bp
Tssr156727	Chr19:46294295-46294309 (+)	1,543 bp
Tssr156728	Chr19:46294323-46294346 (+)	1,576 bp
Tssr156729	Chr19:46294348-46294366 (+)	1,598 bp
Tssr156730	Chr19:46294382-46294400 (+)	1,632 bp
Tssr156731	Chr19:46294411-46294420 (+)	1,657 bp
Tssr156732	Chr19:46294462-46294471 (+)	1,708 bp
Tssr156733	Chr19:46294532-46294548 (+)	1,781 bp
Tssr156734	Chr19:46294556-46294593 (+)	1,816 bp
Tssr156735	Chr19:46294599-46294610 (+)	1,846 bp
Tssr156736	Chr19:46294682-46294694 (+)	1,929 bp
Tssr156737	Chr19:46294697-46294702 (+)	1,941 bp
Tssr156738	Chr19:46295790-46295812 (+)	3,042 bp
Tssr156739	Chr19:46296663-46296670 (+)	3,908 bp
Tssr156740	Chr19:46297274-46297285 (+)	4,521 bp
Tssr156741	Chr19:46298644-46298669 (+)	5,898 bp
Tssr156742	Chr19:46298741-46298756 (+)	5,990 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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