NFKB1 (nuclear factor kappa B subunit 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: NFKB1 (nuclear factor kappa B subunit 1) Sus scrofa
Analyze
Symbol: NFKB1
Name: nuclear factor kappa B subunit 1
RGD ID: 13961142
Description: ENCODES a protein that exhibits DNA binding (ortholog); DNA-binding transcription factor activity (ortholog); DNA-binding transcription factor activity, RNA polymerase II-specific (ortholog); INVOLVED IN cellular response to brain-derived neurotrophic factor stimulus (ortholog); cellular response to carbohydrate stimulus (ortholog); cellular response to diterpene (ortholog); PARTICIPATES IN adenosine signaling pathway; ceramide signaling pathway; erythropoietin signaling pathway; ASSOCIATED WITH acute kidney failure (ortholog); adenocarcinoma (ortholog); alcoholic hepatitis (ortholog); FOUND IN cytoplasm (ortholog); cytosol (ortholog); neuron projection (ortholog); INTERACTS WITH cadmium atom; cadmium dichloride; cadmium nitrate
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: nuclear factor kappa-B 1; nuclear factor NF-kappa-B p105 subunit; nuclear factor NF-kappa-B p50 subunit; nuclear factor of kappa light polypeptide gene enhancer in B-cells 1 (p105); RHD of nuclear factor NF-kappa-B p105 subunit
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8118,390,637 - 118,506,691 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18118,391,010 - 118,478,927 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28127,365,561 - 127,368,964 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap8q23-q27NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
cellular response to angiotensin  (IEA)
cellular response to brain-derived neurotrophic factor stimulus  (ISO)
cellular response to carbohydrate stimulus  (ISO)
cellular response to diterpene  (ISO)
cellular response to dsRNA  (IEA,ISO)
cellular response to glucoside  (ISO)
cellular response to interleukin-1  (IEA,ISO)
cellular response to interleukin-6  (IEA)
cellular response to lipopolysaccharide  (IEA,ISO)
cellular response to mechanical stimulus  (IEA)
cellular response to nicotine  (IEA)
cellular response to peptide  (ISO)
cellular response to tumor necrosis factor  (IEA,ISO)
cellular response to virus  (IEA,ISO)
JNK cascade  (IEA,ISO)
leukocyte migration involved in inflammatory response  (ISO)
MAPK cascade  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of calcidiol 1-monooxygenase activity  (IEA)
negative regulation of cytokine production  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of inflammatory response  (IEA,ISO)
negative regulation of interleukin-12 production  (IEA,ISO)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
negative regulation of transcription, DNA-templated  (ISO)
positive regulation of canonical Wnt signaling pathway  (IEA)
positive regulation of gene expression  (ISO)
positive regulation of gene silencing by miRNA  (ISO)
positive regulation of hyaluronan biosynthetic process  (IEA)
positive regulation of miRNA metabolic process  (IEA)
positive regulation of pri-miRNA transcription by RNA polymerase II  (ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
positive regulation of transcription, DNA-templated  (ISO)
response to bacterium  (ISO)
response to copper ion  (ISO)
response to drug  (ISO)
response to ethanol  (ISO)
response to muscle stretch  (IEA,ISO)
response to organic cyclic compound  (ISO)
response to oxidative stress  (ISO)

Cellular Component

References
Additional References at PubMed
PMID:14681463   PMID:21205430   PMID:23736979   PMID:25027053   PMID:27016483   PMID:28715653   PMID:28757040   PMID:29229731   PMID:29525670   PMID:30548974  


Genomics

Comparative Map Data
NFKB1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8118,390,637 - 118,506,691 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18118,391,010 - 118,478,927 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28127,365,561 - 127,368,964 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap8q23-q27NCBI
NFKB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl4102,501,331 - 102,617,302 (+)EnsemblGRCh38hg38GRCh38
GRCh384102,501,266 - 102,617,302 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh374103,422,516 - 103,538,459 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 364103,641,518 - 103,757,507 (+)NCBINCBI36hg18NCBI36
Build 344103,779,672 - 103,895,661NCBI
Celera4100,721,743 - 100,837,727 (+)NCBI
Cytogenetic Map4q24NCBI
HuRef499,158,873 - 99,274,686 (+)NCBIHuRef
CHM1_14103,398,776 - 103,514,779 (+)NCBICHM1_1
Nfkb1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393135,290,416 - 135,397,728 (-)NCBIGRCm39mm39
GRCm39 Ensembl3135,290,416 - 135,397,308 (-)Ensembl
GRCm383135,584,655 - 135,691,969 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3135,584,655 - 135,691,547 (-)EnsemblGRCm38mm10GRCm38
MGSCv373135,247,619 - 135,354,511 (-)NCBIGRCm37mm9NCBIm37
MGSCv363135,522,085 - 135,628,727 (-)NCBImm8
Celera3142,004,849 - 142,111,759 (-)NCBICelera
Cytogenetic Map3G3NCBI
cM Map362.82NCBI
Nfkb1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22224,016,214 - 224,132,135 (-)NCBI
Rnor_6.0 Ensembl2240,773,456 - 240,866,689 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02240,773,520 - 240,890,053 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02259,330,377 - 259,444,869 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42233,091,013 - 233,187,501 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12233,077,759 - 233,097,514 (-)NCBI
Celera2216,226,849 - 216,340,494 (-)NCBICelera
Cytogenetic Map2q43NCBI
Nfkb1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554965,842,600 - 5,927,885 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554965,842,734 - 5,950,995 (-)NCBIChiLan1.0ChiLan1.0
NFKB1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14105,589,062 - 105,704,098 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4105,589,062 - 105,704,098 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0494,925,048 - 95,040,849 (+)NCBIMhudiblu_PPA_v0panPan3
NFKB1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13223,948,598 - 24,040,704 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3223,942,954 - 24,040,703 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3217,983,225 - 18,101,473 (-)NCBI
ROS_Cfam_1.03224,141,129 - 24,259,888 (+)NCBI
UMICH_Zoey_3.13224,122,163 - 24,239,736 (+)NCBI
UNSW_CanFamBas_1.03223,900,676 - 24,019,275 (+)NCBI
UU_Cfam_GSD_1.03215,842,831 - 15,961,478 (-)NCBI
Nfkb1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530117,390,298 - 17,507,111 (-)NCBI
SpeTri2.0NW_004936520733,760 - 850,563 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NFKB1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1750,589,494 - 50,711,472 (+)NCBI
ChlSab1.1 Ensembl750,589,856 - 50,711,498 (+)Ensembl
Vero_WHO_p1.0NW_02366603729,099,578 - 29,223,078 (+)NCBI
Nfkb1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248305,334,273 - 5,430,887 (-)NCBI


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 9 2 5 2 3
Low 1 2 3 2 23 2 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000038683   ⟹   ENSSSCP00000048015
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl8118,390,637 - 118,506,691 (-)Ensembl
RefSeq Acc Id: NM_001048232   ⟹   NP_001041697
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.18118,391,010 - 118,478,927 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001041697 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ABH07786 (Get FASTA)   NCBI Sequence Viewer  
  ABU63584 (Get FASTA)   NCBI Sequence Viewer  
  AGH25609 (Get FASTA)   NCBI Sequence Viewer  
  AGH25610 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001041697   ⟸   NM_001048232
- UniProtKB: Q0PHA8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000048015   ⟸   ENSSSCT00000038683
Protein Domains
ANK_REP_REGION   RHD


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000030957 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000048015 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000038683 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.20 UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/TrEMBL
  2.60.40.340 UniProtKB/TrEMBL
InterPro Ankyrin_rpt UniProtKB/TrEMBL
  Ankyrin_rpt-contain_dom UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/TrEMBL
  DEATH-like_dom_sf UniProtKB/TrEMBL
  Death_domain UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_E-set UniProtKB/TrEMBL
  IPT_dom UniProtKB/TrEMBL
  IPT_NFkappaB UniProtKB/TrEMBL
  NF-kB_p105 UniProtKB/TrEMBL
  NFkB/Dor UniProtKB/TrEMBL
  p53-like_TF_DNA-bd UniProtKB/TrEMBL
  RHD_CS UniProtKB/TrEMBL
  RHD_dimer UniProtKB/TrEMBL
  RHD_DNA_bind_dom UniProtKB/TrEMBL
  RHD_DNA_bind_dom_sf UniProtKB/TrEMBL
KEGG Report ssc:751869 UniProtKB/TrEMBL
NCBI Gene NFKB1 ENTREZGENE
PANTHER PTHR24169 UniProtKB/TrEMBL
  PTHR24169:SF9 UniProtKB/TrEMBL
Pfam Ank UniProtKB/TrEMBL
  Ank_2 UniProtKB/TrEMBL
  Death UniProtKB/TrEMBL
  RHD_dimer UniProtKB/TrEMBL
  RHD_DNA_bind UniProtKB/TrEMBL
PRINTS ANKYRIN UniProtKB/TrEMBL
  NFKBTNSCPFCT UniProtKB/TrEMBL
PROSITE ANK_REP_REGION UniProtKB/TrEMBL
  ANK_REPEAT UniProtKB/TrEMBL
  REL_1 UniProtKB/TrEMBL
  REL_2 UniProtKB/TrEMBL
SMART ANK UniProtKB/TrEMBL
  DEATH UniProtKB/TrEMBL
  IPT UniProtKB/TrEMBL
Superfamily-SCOP SSF47986 UniProtKB/TrEMBL
  SSF48403 UniProtKB/TrEMBL
  SSF49417 UniProtKB/TrEMBL
  SSF81296 UniProtKB/TrEMBL
UniProt A0A287AVR3_PIG UniProtKB/TrEMBL
  A7XNS1_PIG UniProtKB/TrEMBL
  M4QER5_PIG UniProtKB/TrEMBL
  M4QNX4_PIG UniProtKB/TrEMBL
  Q0PHA8 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:90719 ENTREZGENE