Cd40 (CD40 molecule) - Rat Genome Database

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Gene: Cd40 (CD40 molecule) Chinchilla lanigera
Analyze
Symbol: Cd40
Name: CD40 molecule
RGD ID: 8952983
Description: ENCODES a protein that exhibits antigen binding (ortholog); enzyme binding (ortholog); protein domain specific binding (ortholog); INVOLVED IN B cell activation (ortholog); B cell mediated immunity (ortholog); B cell proliferation (ortholog); ASSOCIATED WITH Acute Coronary Syndrome (ortholog); acute myocarditis (ortholog); adenosine deaminase deficiency (ortholog); FOUND IN CD40 receptor complex (ortholog); cell surface (ortholog); external side of plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: CD40 molecule, TNF receptor superfamily member 5; tumor necrosis factor receptor superfamily member 5
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544511,190,603 - 11,202,093 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544511,191,817 - 11,202,156 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acute Coronary Syndrome  (ISO)
acute myocarditis  (ISO)
adenosine deaminase deficiency  (ISO)
allergic rhinitis  (ISO)
Alzheimer's disease  (ISO)
Animal Helminthiasis  (ISO)
Animal Mammary Neoplasms  (ISO)
Animal Viral Hepatitis  (ISO)
anti-basement membrane glomerulonephritis  (ISO)
arthritis  (ISO)
asthma  (ISO)
atherosclerosis  (ISO)
atopic dermatitis  (ISO)
atrial fibrillation  (ISO)
autoimmune thrombocytopenic purpura  (ISO)
B-Cell Chronic Lymphocytic Leukemia  (ISO)
B-cell lymphoma  (ISO)
bacterial pneumonia  (ISO)
Brain Injuries  (ISO)
Breast Neoplasms  (ISO)
bronchiolitis  (ISO)
Burkitt lymphoma  (ISO)
CD40 ligand deficiency  (ISO)
chlamydia  (ISO)
Chronic Allograft Dysfunction  (ISO)
chronic myeloid leukemia  (ISO)
chronic obstructive pulmonary disease  (ISO)
colitis  (ISO)
crescentic glomerulonephritis  (ISO)
Crohn's disease  (ISO)
cryptococcosis  (ISO)
cutaneous lupus erythematosus  (ISO)
Delayed Hypersensitivity  (ISO)
dermatomyositis  (ISO)
diffuse large B-cell lymphoma  (ISO)
dilated cardiomyopathy  (ISO)
Discoid Lupus Erythematosus  (ISO)
Ehrlich tumor carcinoma  (ISO)
end stage renal disease  (ISO)
Endotoxemia  (ISO)
erythema multiforme  (ISO)
Experimental Arthritis  (ISO)
Experimental Autoimmune Myocarditis  (ISO)
Experimental Autoimmune Neuritis  (ISO)
Experimental Mammary Neoplasms  (ISO)
focal epilepsy  (ISO)
follicular lymphoma  (ISO)
galactosialidosis  (ISO)
genetic disease  (ISO)
graft-versus-host disease  (ISO)
Graves' disease  (ISO)
Hashimoto Disease  (ISO)
high grade glioma  (ISO)
Hodgkin's lymphoma  (ISO)
human immunodeficiency virus infectious disease  (ISO)
Human Influenza  (ISO)
hyper IgM syndrome  (ISO)
Hypercholesterolemia  (ISO)
hyperglycemia  (ISO)
hyperimmunoglobulin syndrome  (ISO)
hyperinsulinism  (ISO)
hyperthyroidism  (ISO)
immunodeficiency with hyper IgM type 3  (ISO)
Inflammation  (ISO)
Insulin Resistance  (ISO)
insulinoma  (ISO)
Kawasaki disease  (ISO)
Kidney Reperfusion Injury  (ISO)
lichen planus  (ISO)
Liver Reperfusion Injury  (ISO)
lupus nephritis  (ISO)
Lyme Neuroborreliosis  (ISO)
Lymphatic Metastasis  (ISO)
malaria  (ISO)
malignant mesothelioma  (ISO)
melanoma  (ISO)
membranous glomerulonephritis  (ISO)
multiple myeloma  (ISO)
multiple sclerosis  (ISO)
Murine Acquired Immunodeficiency Syndrome  (ISO)
myelodysplastic syndrome  (ISO)
Myocardial Ischemia  (ISO)
Neisseriaceae Infections  (ISO)
non-Hodgkin lymphoma  (ISO)
obesity  (ISO)
pancreatic ductal carcinoma  (ISO)
pemphigus  (ISO)
Perennial Allergic Rhinitis  (ISO)
perinatal necrotizing enterocolitis  (ISO)
peritonitis  (ISO)
plasma cell leukemia  (ISO)
pneumocystosis  (ISO)
pre-eclampsia  (ISO)
psoriasis  (ISO)
pulmonary hypertension  (ISO)
renal artery obstruction  (ISO)
renal cell carcinoma  (ISO)
Reperfusion Injury  (ISO)
rheumatoid arthritis  (ISO)
Schistosomiasis Mansoni  (ISO)
Sepsis  (ISO)
skin melanoma  (ISO)
status epilepticus  (ISO)
Stroke  (ISO)
Subacute Combined Degeneration  (ISO)
systemic lupus erythematosus  (ISO)
thrombosis  (ISO)
tick-borne encephalitis  (ISO)
transient cerebral ischemia  (ISO)
Transplant Rejection  (ISO)
type 1 diabetes mellitus  (ISO)
ulcerative colitis  (ISO)
Vascular Calcification  (ISO)
Viral Myocarditis  (ISO)
visceral leishmaniasis  (ISO)
X-linked hyper IgM syndrome  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
B cell activation  (ISO)
B cell mediated immunity  (ISO)
B cell proliferation  (ISO)
CD40 signaling pathway  (ISO)
cell surface receptor signaling pathway via JAK-STAT  (ISO)
cellular response to erythropoietin  (ISO)
cellular response to interleukin-1  (ISO)
cellular response to lipopolysaccharide  (ISO)
cellular response to mechanical stimulus  (ISO)
cellular response to tumor necrosis factor  (ISO)
defense response to protozoan  (ISO)
defense response to virus  (ISO)
immune response-regulating cell surface receptor signaling pathway  (ISO)
intracellular calcium ion homeostasis  (ISO)
phosphatidylinositol 3-kinase/protein kinase B signal transduction  (ISO)
positive regulation of angiogenesis  (ISO)
positive regulation of B cell proliferation  (ISO)
positive regulation of blood vessel endothelial cell migration  (ISO)
positive regulation of canonical NF-kappaB signal transduction  (ISO)
positive regulation of endothelial cell apoptotic process  (ISO)
positive regulation of interleukin-12 production  (ISO)
positive regulation of interleukin-4-mediated signaling pathway  (ISO)
positive regulation of isotype switching to IgG isotypes  (ISO)
positive regulation of MAPK cascade  (ISO)
positive regulation of protein kinase C signaling  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
regulation of immune response  (ISO)
regulation of immunoglobulin production  (ISO)
response to bacterium  (ISO)
response to cobalamin  (ISO)
response to nutrient levels  (ISO)
response to peptide  (ISO)
response to type II interferon  (ISO)

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Cd40
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544511,190,603 - 11,202,093 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544511,191,817 - 11,202,156 (-)NCBIChiLan1.0ChiLan1.0
CD40
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382046,118,314 - 46,129,858 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2046,118,271 - 46,129,863 (+)EnsemblGRCh38hg38GRCh38
GRCh372044,746,953 - 44,758,497 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362044,180,313 - 44,191,791 (+)NCBINCBI36Build 36hg18NCBI36
Celera2041,458,363 - 41,469,842 (+)NCBICelera
Cytogenetic Map20q13.12NCBI
HuRef2041,488,189 - 41,499,674 (+)NCBIHuRef
CHM1_12044,649,540 - 44,661,003 (+)NCBICHM1_1
T2T-CHM13v2.02047,854,355 - 47,865,910 (+)NCBIT2T-CHM13v2.0
Cd40
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392164,897,535 - 164,913,574 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2164,897,547 - 164,914,868 (+)EnsemblGRCm39 Ensembl
GRCm382165,055,614 - 165,071,654 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2165,055,627 - 165,072,948 (+)EnsemblGRCm38mm10GRCm38
MGSCv372164,881,136 - 164,897,154 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362164,746,841 - 164,762,859 (+)NCBIMGSCv36mm8
Celera2170,992,951 - 171,008,953 (+)NCBICelera
Cytogenetic Map2H3NCBI
cM Map285.38NCBI
Cd40
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83174,209,113 - 174,224,592 (+)NCBIGRCr8
mRatBN7.23153,790,372 - 153,805,279 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3153,790,449 - 153,805,534 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3157,599,278 - 157,613,890 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03166,098,246 - 166,112,858 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03163,842,022 - 163,856,635 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03161,519,789 - 161,534,943 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3161,519,743 - 161,534,704 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03167,704,285 - 167,719,416 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43156,092,602 - 156,107,427 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13155,998,622 - 156,006,374 (+)NCBI
Celera3152,395,702 - 152,410,527 (+)NCBICelera
Cytogenetic Map3q42NCBI
CD40
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22151,856,711 - 51,870,394 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12051,851,314 - 51,863,198 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02042,455,711 - 42,467,139 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12043,541,619 - 43,552,994 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2043,541,619 - 43,552,994 (+)Ensemblpanpan1.1panPan2
CD40
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12433,352,992 - 33,383,488 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2433,372,930 - 33,383,301 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2432,899,232 - 32,909,488 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02434,062,814 - 34,092,886 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2434,082,384 - 34,092,875 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12433,340,743 - 33,351,000 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02433,456,512 - 33,466,773 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02433,995,494 - 34,005,757 (+)NCBIUU_Cfam_GSD_1.0
Cd40
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640191,483,088 - 191,493,621 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365146,936,572 - 6,947,280 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365146,936,915 - 6,947,246 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD40
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1748,286,029 - 48,298,528 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11748,286,116 - 48,298,188 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21753,932,001 - 53,943,003 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CD40
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1217,753,713 - 17,765,134 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl217,753,394 - 17,764,566 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605066,388,299 - 66,399,227 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cd40
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247908,476,158 - 8,485,856 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247908,475,640 - 8,485,927 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000009812   ⟹   ENSCLAP00000009683
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544511,190,603 - 11,202,093 (-)Ensembl
RefSeq Acc Id: XM_005392385   ⟹   XP_005392442
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495544511,191,817 - 11,202,156 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013518290   ⟹   XP_013373744
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495544511,191,817 - 11,202,103 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005392442 (Get FASTA)   NCBI Sequence Viewer  
  XP_013373744 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000009683
  ENSCLAP00000009683.1
RefSeq Acc Id: XP_005392442   ⟸   XM_005392385
- Peptide Label: isoform X1
- UniProtKB: A0A8C2V3S4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013373744   ⟸   XM_013518290
- Peptide Label: isoform X2
- Sequence:
Ensembl Acc Id: ENSCLAP00000009683   ⟸   ENSCLAT00000009812
Protein Domains
TNFR-Cys


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000006713 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000009812 ENTREZGENE
  ENSCLAT00000009812.1 UniProtKB/TrEMBL
Gene3D-CATH Tumor Necrosis Factor Receptor, subunit A, domain 2 UniProtKB/TrEMBL
InterPro TNFR/NGFR_Cys_rich_reg UniProtKB/TrEMBL
  TNFR_5 UniProtKB/TrEMBL
  TNFRSF5 UniProtKB/TrEMBL
  TNFRSF5_N UniProtKB/TrEMBL
NCBI Gene Cd40 ENTREZGENE
PANTHER TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 5 UniProtKB/TrEMBL
  TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 5 UniProtKB/TrEMBL
Pfam TNFR_c6 UniProtKB/TrEMBL
PRINTS TNFACTORR5 UniProtKB/TrEMBL
PROSITE TNFR_NGFR_1 UniProtKB/TrEMBL
  TNFR_NGFR_2 UniProtKB/TrEMBL
SMART TNFR UniProtKB/TrEMBL
Superfamily-SCOP TNF receptor-like UniProtKB/TrEMBL
UniProt A0A8C2V3S4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 Cd40  CD40 molecule    CD40 molecule, TNF receptor superfamily member 5  Symbol and/or name change 5135510 APPROVED