Cd40 (CD40 molecule) - Rat Genome Database

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Gene: Cd40 (CD40 molecule) Rattus norvegicus
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Symbol: Cd40
Name: CD40 molecule
RGD ID: 619830
Description: Enables antigen binding activity and protein domain specific binding activity. Involved in several processes, including cellular response to cytokine stimulus; response to cobalamin; and response to interferon-gamma. Located in several cellular components, including cell surface; neuronal cell body; and varicosity. Used to study several diseases, including Ehrlich tumor carcinoma; artery disease (multiple); colitis; membranous glomerulonephritis; and obesity. Biomarker of asthma; atherosclerosis; and perinatal necrotizing enterocolitis. Human ortholog(s) of this gene implicated in several diseases, including Kawasaki disease; autoimmune disease (multiple); end stage renal disease; hyperimmunoglobulin syndrome (multiple); and non-Hodgkin lymphoma (multiple). Orthologous to human CD40 (CD40 molecule); PARTICIPATES IN allograft rejection pathway; asthma pathway; autoimmune thyroiditis pathway; INTERACTS WITH (+)-pilocarpine; 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 1,2-dimethylhydrazine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CD40 antigen; CD40 antigen, TNF receptor superfamily member 5; CD40 molecule, TNF receptor superfamily member 5; LOC311635; Tnfrsf5; tumor necrosis factor receptor superfamily member 5; tumor necrosis factor receptor superfamily, member 5
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Cd40em1Uthal  
Genetic Models: SS-Cd40em1Uthal-/-
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
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_SHR
UTH_Rnor_SHRSP_BbbUtx_1.03166,098,246 - 166,112,858 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.03163,842,022 - 163,856,635 (+)NCBIRnor_WKY
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acute Coronary Syndrome  (ISO)
acute myocarditis  (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  (IDA,IEP,ISO)
atherosclerosis  (IDA,IEP,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  (IDA)
Breast Neoplasms  (ISO)
bronchiolitis  (ISO)
Burkitt lymphoma  (ISO)
chlamydia  (ISO)
Chronic Allograft Dysfunction  (IDA)
chronic myeloid leukemia  (ISO)
chronic obstructive pulmonary disease  (ISO)
colitis  (IMP)
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  (IDA)
end stage renal disease  (ISO)
Endotoxemia  (ISO)
erythema multiforme  (ISO)
Experimental Arthritis  (ISO)
Experimental Autoimmune Myocarditis  (IMP)
Experimental Autoimmune Neuritis  (IEP)
Experimental Mammary Neoplasms  (ISO)
follicular lymphoma  (ISO)
Graft vs 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  (IDA,IEP)
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  (IMP)
lichen planus  (ISO)
Liver Reperfusion Injury  (IMP)
lupus nephritis  (ISO)
Lyme Neuroborreliosis  (ISO)
Lymphatic Metastasis  (ISO)
malaria  (ISO)
malignant mesothelioma  (ISO)
melanoma  (ISO)
membranous glomerulonephritis  (IMP,ISO)
multiple myeloma  (ISO)
multiple sclerosis  (ISO)
Murine Acquired Immunodeficiency Syndrome  (ISO)
myelodysplastic syndrome  (ISO)
Myocardial Ischemia  (IDA)
Neisseriaceae Infections  (ISO)
non-Hodgkin lymphoma  (ISO)
obesity  (IDA,ISO)
pancreatic ductal carcinoma  (ISO)
pemphigus  (ISO)
Perennial Allergic Rhinitis  (ISO)
perinatal necrotizing enterocolitis  (IEP)
peritonitis  (ISO)
plasma cell leukemia  (ISO)
pneumocystosis  (ISO)
pre-eclampsia  (ISO)
psoriasis  (ISO)
pulmonary hypertension  (IMP)
renal artery obstruction  (ISO)
renal cell carcinoma  (ISO)
Reperfusion Injury  (IMP)
rheumatoid arthritis  (ISO)
Schistosomiasis Mansoni  (ISO)
Sepsis  (ISO)
skin melanoma  (ISO)
status epilepticus  (ISO)
Stroke  (ISO)
Subacute Combined Degeneration  (IDA,IMP)
systemic lupus erythematosus  (ISO)
thrombosis  (ISO)
tick-borne encephalitis  (ISO)
transient cerebral ischemia  (ISO)
Transplant Rejection  (IMP,ISO)
type 1 diabetes mellitus  (ISO)
ulcerative colitis  (ISO)
Vascular Calcification  (ISO)
Viral Myocarditis  (ISO)
visceral leishmaniasis  (ISO)
visual epilepsy  (ISO)
X-linked hyper IgM syndrome  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(-)-demecolcine  (ISO)
(R)-mevalonic acid  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,2-dimethylhydrazine  (EXP,ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2-trans,6-trans,10-trans-geranylgeranyl diphosphate  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-mercaptopropanoic acid  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (EXP)
4-aminopyridine  (EXP)
4-DAMP(1+)  (ISO)
4-hydroxycyclophosphamide  (EXP)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (EXP)
afimoxifene  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
aluminium hydroxide  (ISO)
ammonium chloride  (EXP)
ampicillin  (ISO)
antirheumatic drug  (ISO)
apigenin  (ISO)
arachidonic acid  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
atorvastatin calcium  (ISO)
atropine  (ISO)
benzo[a]pyrene  (ISO)
beta-D-glucan  (ISO)
betamethasone valerate  (ISO)
bicalutamide  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
Calcimycin  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
carbachol  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloroprene  (ISO)
chlorpyrifos  (ISO)
choline  (ISO)
cisplatin  (ISO)
clobetasol  (ISO)
cortisol  (ISO)
curcumin  (EXP,ISO)
cyanocob(III)alamin  (ISO)
cyclophosphamide  (ISO)
daidzein  (ISO)
delta-tocotrienol  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibutyl phthalate  (ISO)
dimethylarsinic acid  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
endosulfan  (EXP)
entinostat  (ISO)
epoxiconazole  (ISO)
ethanol  (EXP)
fenofibrate  (ISO)
fisetin  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
furosemide  (EXP)
gemcitabine  (ISO)
Genipin  (ISO)
gentamycin  (EXP)
glyphosate  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
helenalin  (ISO)
histamine  (ISO)
hydroxysafflor yellow A  (EXP)
imiquimod  (ISO)
immunological adjuvant  (ISO)
indirubin-3'-monoxime  (ISO)
indole-3-methanol  (ISO)
indometacin  (ISO)
isoflurane  (EXP)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lipopolysaccharide  (EXP,ISO)
lithium chloride  (EXP)
lovastatin  (ISO)
luteolin  (ISO)
mercury atom  (ISO)
mercury dibromide  (ISO)
mercury(0)  (ISO)
metam  (ISO)
methylarsonic acid  (ISO)
mevastatin  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
Monobutylphthalate  (ISO)
muramyl dipeptide  (ISO)
Myrtucommulone A  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
niclosamide  (ISO)
nicotinamide  (ISO)
nystatin  (ISO)
o-anisidine  (ISO)
ozone  (ISO)
p-menthan-3-ol  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
pentanal  (ISO)
perfluorononanoic acid  (ISO)
perfluoroundecanoic acid  (ISO)
pevonedistat  (ISO)
phenethyl isothiocyanate  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirenzepine  (ISO)
poly(I:C)  (ISO)
pravastatin  (EXP,ISO)
propanal  (ISO)
protein kinase inhibitor  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resveratrol  (EXP,ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sirtinol  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium aurothiosulfate  (ISO)
sodium dodecyl sulfate  (ISO)
Soman  (EXP)
succimer  (ISO)
tetrathiomolybdate(2-)  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
toluene 2,4-diisocyanate  (ISO)
trichloroethene  (EXP)
trimellitic anhydride  (EXP)
triprolidine  (ISO)
triptonide  (ISO)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (ISO)
U-73122  (ISO)
valproic acid  (ISO)
vemurafenib  (ISO)
vincristine  (ISO)
vorinostat  (ISO)
zaragozic acid A  (EXP,ISO)
zinc atom  (ISO)
zinc protoporphyrin  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
B cell activation  (IBA,IMP,ISO)
B cell mediated immunity  (ISO)
B cell proliferation  (ISO)
CD40 signaling pathway  (IBA,ISO)
cellular calcium ion homeostasis  (ISO)
cellular response to erythropoietin  (IEP)
cellular response to interleukin-1  (IBA,IEP)
cellular response to lipopolysaccharide  (IEP)
cellular response to mechanical stimulus  (ISO)
cellular response to tumor necrosis factor  (IBA,IEP)
defense response to protozoan  (IBA,ISO)
defense response to virus  (IBA,ISO)
immune response-regulating cell surface receptor signaling pathway  (IBA,ISO)
inflammatory response  (IBA,IEP,IMP)
positive regulation of angiogenesis  (IBA,ISO)
positive regulation of B cell proliferation  (IBA,ISO)
positive regulation of blood vessel endothelial cell migration  (IBA,ISO)
positive regulation of endothelial cell apoptotic process  (IBA,ISO)
positive regulation of GTPase activity  (ISO)
positive regulation of I-kappaB kinase/NF-kappaB signaling  (IBA,ISO)
positive regulation of interleukin-12 production  (IBA,ISO)
positive regulation of isotype switching to IgG isotypes  (IBA,ISO)
positive regulation of MAP kinase activity  (ISO)
positive regulation of NF-kappaB transcription factor activity  (IBA,ISO)
positive regulation of protein kinase C signaling  (ISO)
positive regulation of protein phosphorylation  (ISO)
positive regulation of transcription by RNA polymerase II  (IBA,ISO)
positive regulation of tyrosine phosphorylation of STAT protein  (IBA,ISO)
protein kinase B signaling  (ISO)
regulation of immune response  (ISO)
regulation of immunoglobulin production  (ISO)
response to bacterium  (IEP)
response to cobalamin  (IEP)
response to nutrient levels  (IEP)
response to peptide  (IEP)
response to type II interferon  (IBA,IEP)
TRIF-dependent toll-like receptor signaling pathway  (IBA)

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Phase I study of the humanized anti-CD40 monoclonal antibody dacetuzumab in refractory or recurrent non-Hodgkin's lymphoma. Advani R, etal., J Clin Oncol. 2009 Sep 10;27(26):4371-7. doi: 10.1200/JCO.2008.21.3017. Epub 2009 Jul 27.
2. A phase I study of an agonist CD40 monoclonal antibody (CP-870,893) in combination with gemcitabine in patients with advanced pancreatic ductal adenocarcinoma. Beatty GL, etal., Clin Cancer Res. 2013 Nov 15;19(22):6286-95. doi: 10.1158/1078-0432.CCR-13-1320. Epub 2013 Aug 27.
3. CD40 agonists alter tumor stroma and show efficacy against pancreatic carcinoma in mice and humans. Beatty GL, etal., Science. 2011 Mar 25;331(6024):1612-6.
4. Selective targeting of B cells with agonistic anti-CD40 is an efficacious strategy for the generation of induced regulatory T2-like B cells and for the suppression of lupus in MRL/lpr mice. Blair PA, etal., J Immunol. 2009 Mar 15;182(6):3492-502. doi: 10.4049/jimmunol.0803052.
5. CD40: novel association with Crohn's disease and replication in multiple sclerosis susceptibility. Blanco-Kelly F, etal., PLoS One. 2010 Jul 12;5(7):e11520.
6. Blocking the CD40-CD40L interaction by CD40-Ig reduces disease progress in murine myocarditis induced by CVB3. Bo H, etal., Cardiovasc Pathol. 2010 Nov-Dec;19(6):371-6. doi: 10.1016/j.carpath.2009.10.002. Epub 2009 Nov 14.
7. The CD40-CD40L pathway contributes to the proinflammatory function of intestinal epithelial cells in inflammatory bowel disease. Borcherding F, etal., Am J Pathol. 2010 Apr;176(4):1816-27. Epub 2010 Feb 4.
8. CD40-CD154 expression in calcified and non-calcified coronary lesions of patients with chronic renal failure. Campean V, etal., Atherosclerosis. 2007 Jan;190(1):156-66. Epub 2006 Feb 21.
9. The CD40/CD40 ligand system in the skin of patients with subacute cutaneous lupus erythematosus. Caproni M, etal., J Rheumatol. 2007 Dec;34(12):2412-6. Epub 2007 Nov 15.
10. Blockade of costimulation between T cells and antigen-presenting cells: an approach to suppress murine Graves' disease induced using thyrotropin receptor-expressing adenovirus. Chen CR, etal., Thyroid. 2006 May;16(5):427-34.
11. Differential gene expression pattern of diabetic rat retinas after intravitreal injection of erythropoietin. Chu Q, etal., Clin Experiment Ophthalmol. 2011 Mar;39(2):142-51. doi: 10.1111/j.1442-9071.2010.02437.x.
12. Potential role of soluble CD40 in the humoral immune response impairment of uraemic patients. Contin C, etal., Immunology. 2003 Sep;110(1):131-40.
13. CD154-CD40 T-cell co-stimulation pathway is a key mechanism in kidney ischemia-reperfusion injury. de Ramon L, etal., Kidney Int. 2015 Sep;88(3):538-49. doi: 10.1038/ki.2015.146. Epub 2015 May 20.
14. A synthetic NCAM-derived mimetic peptide, FGL, exerts anti-inflammatory properties via IGF-1 and interferon-gamma modulation. Downer EJ, etal., J Neurochem. 2009 Jun;109(5):1516-25. doi: 10.1111/j.1471-4159.2009.06076.x.
15. Neuroprotective effect of AG490 in experimental traumatic brain injury of rats. DU AL, etal., Chin Med J (Engl). 2013 Aug;126(15):2934-7.
16. Extracellular matrix-associated (GAGs, CTGF), angiogenic (VEGF) and inflammatory factors (MCP-1, CD40, IFN-gamma) in type 1 diabetes mellitus nephropathy. Ellina O, etal., Clin Chem Lab Med. 2012 Jan;50(1):167-74. doi: 10.1515/cclm.2011.881.
17. Mutations of CD40 gene cause an autosomal recessive form of immunodeficiency with hyper IgM. Ferrari S, etal., Proc Natl Acad Sci U S A. 2001 Oct 23;98(22):12614-9.
18. Intracellular Abeta-oligomers and early inflammation in a model of Alzheimer's disease. Ferretti MT, etal., Neurobiol Aging. 2011 Mar 15.
19. Migrating lymph dendritic cells contain intracellular CD40 that is mobilized to the immunological synapse during interactions with antigen-specific T lymphocytes. Foster N, etal., J Immunol. 2012 Dec 15;189(12):5632-7. doi: 10.4049/jimmunol.1202010. Epub 2012 Nov 2.
20. In vivo efficacy and toxicity of a single-chain immunotoxin targeted to CD40. Francisco JA, etal., Blood. 1997 Jun 15;89(12):4493-500.
21. Agonistic properties and in vivo antitumor activity of the anti-CD40 antibody SGN-14. Francisco JA, etal., Cancer Res. 2000 Jun 15;60(12):3225-31.
22. The multiple sclerosis whole blood mRNA transcriptome and genetic associations indicate dysregulation of specific T cell pathways in pathogenesis. Gandhi KS, etal., Hum Mol Genet. 2010 Jun 1;19(11):2134-43. Epub 2010 Feb 27.
23. CD40 antisense oligonucleotide inhibition of trinitrobenzene sulphonic acid induced rat colitis. Gao D, etal., Gut. 2005 Jan;54(1):70-7.
24. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
25. Effect of resveratrol on platelet activation in hypercholesterolemic rats: CD40-CD40L system as a potential target. Gocmen AY, etal., Appl Physiol Nutr Metab. 2011 Jun;36(3):323-30. doi: 10.1139/h11-022. Epub 2011 May 16.
26. Effect of atorvastatin on atherosclerotic plaque formation and platelet activation in hypercholesterolemic rats. Gocmen AY, etal., Can J Physiol Pharmacol. 2013 Sep;91(9):680-5. doi: 10.1139/cjpp-2012-0325. Epub 2013 Apr 8.
27. Loss of CD40 endogenous S-nitrosylation during inflammatory response in endotoxemic mice and patients with sepsis. Godoy LC, etal., Shock. 2010 Jun;33(6):626-33.
28. Attenuation of experimental autoimmune myocarditis by si-RNA mediated CD40 silencing. Gong X, etal., Int Heart J. 2014;55(6):539-45. Epub 2014 Oct 7.
29. The CD154/CD40 interaction required for retrovirus-induced murine immunodeficiency syndrome is not mediated by upregulation of the CD80/CD86 costimulatory molecules. Green KA, etal., J Virol. 2002 Dec;76(24):13106-10.
30. CD40 is required for development of islet inflammation in the RIP-CD154 transgenic mouse model of type 1 diabetes. Haase C and Markholst H, Ann N Y Acad Sci. 2007 Jun;1107:373-9.
31. Effect of CD40 and sCD40L on renal function and survival in patients with renal artery stenosis. Haller ST, etal., Hypertension. 2013 Apr;61(4):894-900. doi: 10.1161/HYPERTENSIONAHA.111.00685. Epub 2013 Feb 11.
32. Targeted disruption of Cd40 in a genetically hypertensive rat model attenuates renal fibrosis and proteinuria, independent of blood pressure. Haller ST, etal., Kidney Int. 2017 Feb;91(2):365-374. doi: 10.1016/j.kint.2016.08.015. Epub 2016 Sep 28.
33. Platelet expression of CD40/CD40 ligand and its relation to inflammatory markers and adhesion molecules in patients with atrial fibrillation. Hammwohner M, etal., Exp Biol Med (Maywood). 2007 Apr;232(4):581-9.
34. Heligmosomoides polygyrus infection can inhibit colitis through direct interaction with innate immunity. Hang L, etal., J Immunol. 2010 Sep 15;185(6):3184-9. Epub 2010 Aug 11.
35. Pathogen-mediated inflammatory atherosclerosis is mediated in part via Toll-like receptor 2-induced inflammatory responses. Hayashi C, etal., J Innate Immun. 2010;2(4):334-43. Epub 2010 May 10.
36. House dust mite regulate the lung inflammation of asthmatic mice through TLR4 pathway in airway epithelial cells. Hongjia L, etal., Cell Biochem Funct. 2010 Oct;28(7):597-603.
37. Fc-engineered anti-CD40 antibody enhances multiple effector functions and exhibits potent in vitro and in vivo antitumor activity against hematologic malignancies. Horton HM, etal., Blood. 2010 Oct 21;116(16):3004-12. Epub 2010 Jul 8.
38. Role of the CD40 locus in Graves' disease. Houston FA, etal., Thyroid. 2004 Jul;14(7):506-9.
39. Association of CD40 and thyroglobulin genes with later-onset Graves' disease in Taiwanese patients. Hsiao JY, etal., Eur J Endocrinol. 2008 Nov;159(5):617-21. doi: 10.1530/EJE-08-0410. Epub 2008 Aug 28.
40. STAT2*C related genotypes and allele but not TLR4 and CD40 gene polymorphisms are associated with higher susceptibility for asthma. Hsieh YY, etal., Int J Biol Sci. 2009;5(1):74-81. Epub 2009 Jan 9.
41. CD40/CD40 ligand signaling in mouse cerebral microvasculature after focal ischemia/reperfusion. Ishikawa M, etal., Circulation. 2005 Apr 5;111(13):1690-6. Epub 2005 Mar 28.
42. Intratumoral interleukin-2/agonist CD40 antibody drives CD4+ -independent resolution of treated-tumors and CD4+ -dependent systemic and memory responses. Jackaman C and Nelson DJ, Cancer Immunol Immunother. 2012 Apr;61(4):549-60. doi: 10.1007/s00262-011-1120-5. Epub 2011 Oct 15.
43. Differences in innate immune responses correlate with differences in murine susceptibility to Chlamydia muridarum pulmonary infection. Jiang X, etal., Immunology. 2010 Apr;129(4):556-66. Epub 2009 Sep 11.
44. Bicistronic adenovirus-mediated gene transfer of CTLA4Ig gene and CD40Ig gene result in indefinite survival of islet xenograft. Jin YZ and Xie SS, Transplant Proc. 2003 Dec;35(8):3165-6.
45. Association of genetic polymorphisms in CD40 with susceptibility to SLE in the Korean population. Joo YB, etal., Rheumatology (Oxford). 2013 Apr;52(4):623-30. doi: 10.1093/rheumatology/kes339. Epub 2012 Dec 18.
46. New targets of pemphigus vulgaris antibodies identified by protein array technology. Kalantari-Dehaghi M, etal., Exp Dermatol. 2011 Feb;20(2):154-6. doi: 10.1111/j.1600-0625.2010.01193.x.
47. Pancreatic islet derived stem cells can express co-stimulatory molecules of antigen-presenting cells. Karaoz E, etal., Transplant Proc. 2010 Nov;42(9):3663-70.
48. Gene therapy for liver transplantation using adenoviral vectors: CD40-CD154 blockade by gene transfer of CD40Ig protects rat livers from cold ischemia and reperfusion injury. Ke B, etal., Mol Ther. 2004 Jan;9(1):38-45.
49. Breaking of CD8+ T cell tolerance through in vivo ligation of CD40 results in inhibition of chronic graft-versus-host disease and complete donor cell engraftment. Kim J, etal., J Immunol. 2008 Nov 15;181(10):7380-9.
50. Enhanced immunity by NeuEDhsp70 DNA vaccine Is needed to combat an aggressive spontaneous metastatic breast cancer. Kim JH, etal., Mol Ther. 2005 Jun;11(6):941-9.
51. Blockade of CD40/CD40 ligand interactions attenuates skin fibrosis and autoimmunity in the tight-skin mouse. Komura K, etal., Ann Rheum Dis. 2008 Jun;67(6):867-72. Epub 2007 Sep 6.
52. Combination of an agonistic anti-CD40 monoclonal antibody and the COX-2 inhibitor celecoxib induces anti-glioma effects by promotion of type-1 immunity in myeloid cells and T-cells. Kosaka A, etal., Cancer Immunol Immunother. 2014 Aug;63(8):847-57. doi: 10.1007/s00262-014-1561-8. Epub 2014 May 31.
53. CD40 and OX40 ligand are differentially regulated on asthmatic airway smooth muscle. Krimmer DI, etal., Allergy. 2009 Jul;64(7):1074-82. Epub 2009 Feb 12.
54. Cytokine-inducible CD40 gene expression in vascular smooth muscle cells is mediated by nuclear factor kappaB and signal transducer and activation of transcription-1. Krzesz R, etal., FEBS Lett 1999 Jun 18;453(1-2):191-6.
55. CD40 Gene polymorphisms associated with susceptibility and coronary artery lesions of Kawasaki disease in the Taiwanese population. Kuo HC, etal., ScientificWorldJournal. 2012;2012:520865. doi: 10.1100/2012/520865. Epub 2012 May 2.
56. Repetitive hyperbaric oxygenation attenuates reactive astrogliosis and suppresses expression of inflammatory mediators in the rat model of brain injury. Lavrnja I, etal., Mediators Inflamm. 2015;2015:498405. doi: 10.1155/2015/498405. Epub 2015 Apr 20.
57. Plasmacytoid dendritic cells accumulate and secrete interferon alpha in lymph nodes of HIV-1 patients. Lehmann C, etal., PLoS One. 2010 Jun 14;5(6):e11110.
58. Agonistic antibody to CD40 boosts the antitumor activity of adoptively transferred T cells in vivo. Liu C, etal., J Immunother. 2012 Apr;35(3):276-82. doi: 10.1097/CJI.0b013e31824e7f43.
59. [Protective effect of Buyanghuanwu Decoction on myocardial ischemia induced by isoproterenol in rats]. Liu Y, etal., Zhong Yao Cai. 2009 Mar;32(3):380-3.
60. Decoy oligodeoxynucleotide against STAT transcription factors decreases allergic inflammation in a rat asthma model. Luhrmann A, etal., Exp Lung Res. 2010 Mar;36(2):85-93. doi: 10.3109/01902140903144138.
61. Flow cytometric investigation of CD40-CD40 ligand system in preeclampsia and normal pregnancy. Lukanov TH, etal., Clin Appl Thromb Hemost. 2010 Jun;16(3):306-12. doi: 10.1177/1076029608331229. Epub 2009 Feb 15.
62. Role of CD40-CD154 pathway in the rejection of concordant and discordant xenogeneic islets. Mai G, etal., Transplant Proc. 2005 Jan-Feb;37(1):460-2.
63. Immune modulation and apoptosis induction: Two sides of antitumoural activity of a standardised herbal formulation of Withania somnifera. Malik F, etal., Eur J Cancer. 2009 May;45(8):1494-509. doi: 10.1016/j.ejca.2009.01.034. Epub 2009 Mar 5.
64. IFN-gamma is necessary but not sufficient for anti-CD40 antibody-mediated inhibition of the Th2 response to Schistosoma mansoni eggs. Martin DL, etal., J Immunol. 2000 Jan 15;164(2):779-85.
65. Effect of enhanced glycemic control with saxagliptin on endothelial nitric oxide release and CD40 levels in obese rats. Mason RP, etal., J Atheroscler Thromb. 2011;18(9):774-83. Epub 2011 Jun 13.
66. CD40 ligand (CD154) takes part in regulation of the transition to mononuclear cell dominance during peritonitis. Mazar J, etal., Kidney Int. 2005 Apr;67(4):1340-9.
67. Autoimmune thrombocytopenia: flow cytometric determination of platelet-associated CD154/CD40L and CD40 on peripheral blood T and B lymphocytes. Meabed MH, etal., Hematology. 2007 Aug;12(4):301-7.
68. Monocytes are activated in patients with myelodysplastic syndromes and can contribute to bone marrow failure through CD40-CD40L interactions with T helper cells. Meers S, etal., Leukemia. 2007 Dec;21(12):2411-9. Epub 2007 Sep 6.
69. Prognostic value of cytotoxic T-lymphocytes and CD40 in biopsies with early renal allograft rejection. Mengel M, etal., Transpl Int. 2004 Jul;17(6):293-300. Epub 2004 Jun 19.
70. Deciphering the interface between a CD40 receptor and borrelial ligand OspA. Mlynarcik P, etal., Microbiol Res. 2015 Jan;170:51-60. doi: 10.1016/j.micres.2014.09.003. Epub 2014 Sep 19.
71. Involvement of CD40-CD40L signaling in postischemic lung injury. Moore TM, etal., Am J Physiol Lung Cell Mol Physiol. 2002 Dec;283(6):L1255-62. Epub 2002 Aug 9.
72. Impaired maintenance of naturally acquired T-cell memory to the meningococcus in patients with B-cell immunodeficiency. Morales-Aza B, etal., Blood. 2009 Apr 30;113(18):4206-12. Epub 2009 Feb 6.
73. Synergistic anti-tumor responses after administration of agonistic antibodies to CD40 and IL-2: coordination of dendritic and CD8+ cell responses. Murphy WJ, etal., J Immunol. 2003 Mar 1;170(5):2727-33.
74. Modulation of T-cell costimulation as immunotherapy or immunochemotherapy in experimental visceral leishmaniasis. Murray HW, etal., Infect Immun. 2003 Nov;71(11):6453-62.
75. Serum CD40/CD40L system in Graves' disease and Hashimoto's thyroiditis related to soluble Fas, FasL and humoral markers of autoimmune response. Mysliwiec J, etal., Immunol Invest. 2007;36(3):247-57.
76. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
77. A functional TNFRSF5 polymorphism and risk of non-Hodgkin lymphoma, a pooled analysis. Nieters A, etal., Int J Cancer. 2011 Mar 15;128(6):1481-5. doi: 10.1002/ijc.25420.
78. CD40 expression on antigen presenting cells and correlation with disease severity in atopic dermatitis. Oflazoglu E, etal., Eur J Dermatol. 2008 Sep-Oct;18(5):527-33. Epub 2008 Aug 8.
79. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
80. Circulating myeloid dendritic cell directly isolated from patients with chronic myelogenous leukemia are functional and carry the bcr-abl translocation. Orsini E, etal., Leuk Res. 2006 Jul;30(7):785-94. Epub 2006 Mar 9.
81. Anti-CD40 conditioning enhances the T(CD8) response to a highly tolerogenic epitope and subsequent immunotherapy of simian virus 40 T antigen-induced pancreatic tumors. Otahal P, etal., J Immunol. 2007 Nov 15;179(10):6686-95.
82. Effect of CD40 ligand and other immunomodulators on Pneumocystis carinii infection in rat model. Oz HS, etal., Microb Pathog. 2000 Sep;29(3):187-90.
83. Impact of residual renal function and HCV seropositivity on plasma CD40/CD40L system and oxidative status in haemodialysis patients. Pawlak K, etal., Clin Biochem. 2010 Dec;43(18):1393-8. doi: 10.1016/j.clinbiochem.2010.09.002. Epub 2010 Sep 21.
84. Mechanisms involved in down-regulation of intestinal IgA in rats by high cocoa intake. Perez-Berezo T, etal., J Nutr Biochem. 2012 Jul;23(7):838-44. doi: 10.1016/j.jnutbio.2011.04.008. Epub 2011 Aug 12.
85. Role of CD40-CVD40L in mouse severe malaria. Piguet PF, etal., Am J Pathol. 2001 Aug;159(2):733-42.
86. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
87. Investigation of potential non-HLA rheumatoid arthritis susceptibility loci in a European cohort increases the evidence for nine markers. Plant D, etal., Ann Rheum Dis. 2010 Aug;69(8):1548-53. Epub 2010 May 24.
88. CTL-promoting effects of CD40 stimulation outweigh B cell-stimulatory effects resulting in B cell elimination and disease improvement in a murine model of lupus. Puliaev R, etal., J Immunol. 2008 Jul 1;181(1):47-61.
89. OspA-CD40 dyad: ligand-receptor interaction in the translocation of neuroinvasive Borrelia across the blood-brain barrier. Pulzova L, etal., Sci Rep. 2011;1:86. doi: 10.1038/srep00086. Epub 2011 Sep 8.
90. Antibody to gp39, the ligand for CD40 significantly inhibits the humoral response from Graves' thyroid tissues xenografted into severe combined immunodeficient (SCID) mice. Resetkova E, etal., Thyroid. 1996 Aug;6(4):267-73.
91. GOA pipeline RGD automated data pipeline
92. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
93. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
94. Comprehensive gene review and curation RGD comprehensive gene curation
95. In vivo therapeutic efficacy of intra-renal CD40 silencing in a model of humoral acute rejection. Ripoll E, etal., Gene Ther. 2011 Oct;18(10):945-52. doi: 10.1038/gt.2011.39. Epub 2011 Apr 7.
96. CD40 Gene Silencing Reduces the Progression of Experimental Lupus Nephritis Modulating Local Milieu and Systemic Mechanisms. Ripoll E, etal., PLoS One. 2013 Jun 14;8(6):e65068. doi: 10.1371/journal.pone.0065068. Print 2013.
97. Erythropoietin enhances immunostimulatory properties of immature dendritic cells. Rocchetta F, etal., Clin Exp Immunol. 2011 Aug;165(2):202-10. doi: 10.1111/j.1365-2249.2011.04417.x. Epub 2011 Jun 7.
98. Identification of breast cancer biomarkers in transgenic mouse models: A proteomics approach. Rodenburg W, etal., Proteomics Clin Appl. 2010 Jul;4(6-7):603-12. doi: 10.1002/prca.200900175. Epub 2010 Mar 24.
99. Intrinsic renal cell expression of CD40 directs Th1 effectors inducing experimental crescentic glomerulonephritis. Ruth AJ, etal., J Am Soc Nephrol. 2003 Nov;14(11):2813-22.
100. An IL-12-independent role for CD40-CD154 in mediating effector responses: studies in cell-mediated glomerulonephritis and dermal delayed-type hypersensitivity. Ruth AJ, etal., J Immunol. 2004 Jul 1;173(1):136-44.
101. Expression of costimulatory molecule CD40 in murine heart with acute myocarditis and reduction of inflammation by treatment with anti-CD40L/B7-1 monoclonal antibodies. Seko Y, etal., Circ Res. 1998 Aug 24;83(4):463-9.
102. Expression of costimulatory molecules B7-1, B7-2, and CD40 in the heart of patients with acute myocarditis and dilated cardiomyopathy. Seko Y, etal., Circulation. 1998 Feb 24;97(7):637-9.
103. Expression of tumour necrosis factor (TNF) receptor/ligand superfamily co-stimulatory molecules CD40, CD30L, CD27L, and OX40L in murine hearts with chronic ongoing myocarditis caused by coxsackie virus B3. Seko Y, etal., J Pathol. 1999 Aug;188(4):423-30. doi: 10.1002/(SICI)1096-9896(199908)188:4<423::AID-PATH373>3.0.CO;2-8.
104. Association of CD40 gene polymorphisms with sporadic breast cancer in Chinese Han women of Northeast China. Shuang C, etal., PLoS One. 2011;6(8):e23762. doi: 10.1371/journal.pone.0023762. Epub 2011 Aug 30.
105. A novel allergen-specific therapy for allergy using CD40-silenced dendritic cells. Suzuki M, etal., J Allergy Clin Immunol. 2010 Mar;125(3):737-43, 743.e1-743.e6.
106. Semi mature blood dendritic cells exist in patients with ductal pancreatic adenocarcinoma owing to inflammatory factors released from the tumor. Tjomsland V, etal., PLoS One. 2010 Oct 15;5(10):e13441.
107. Increased adipose tissue expression of proinflammatory CD40, MKK4 and JNK in patients with very severe chronic obstructive pulmonary disease. Tkacova R, etal., Respiration. 2011;81(5):386-93. Epub 2010 Aug 12.
108. Impaired immune responses in the lungs of aged mice following influenza infection. Toapanta FR and Ross TM, Respir Res. 2009 Nov 18;10:112.
109. A C/T single-nucleotide polymorphism in the region of the CD40 gene is associated with Graves' disease. Tomer Y, etal., Thyroid. 2002 Dec;12(12):1129-35.
110. CD40 is a prognostic marker in primary cutaneous malignant melanoma. van den Oord JJ, etal., Am J Pathol. 1996 Dec;149(6):1953-61.
111. A common SNP in the CD40 region is associated with systemic lupus erythematosus and correlates with altered CD40 expression: implications for the pathogenesis. Vazgiourakis VM, etal., Ann Rheum Dis. 2011 Sep 12.
112. Increased levels of the CD40:CD40 ligand dyad in the cerebrospinal fluid of rats with vitamin B12(cobalamin)-deficient central neuropathy. Veber D, etal., J Neuroimmunol. 2006 Jul;176(1-2):24-33. Epub 2006 May 22.
113. Clinical activity and immune modulation in cancer patients treated with CP-870,893, a novel CD40 agonist monoclonal antibody. Vonderheide RH, etal., J Clin Oncol. 2007 Mar 1;25(7):876-83.
114. The CD40 gene polymorphism rs1883832 is associated with risk of acute coronary syndrome in a Chinese case-control study. Wang M, etal., DNA Cell Biol. 2011 Mar;30(3):173-8. Epub 2010 Nov 22.
115. DNA vaccine encoding CD40 targeted to dendritic cells in situ prevents the development of Heymann nephritis in rats. Wang Y, etal., Kidney Int. 2013 Feb;83(2):223-32. doi: 10.1038/ki.2012.374. Epub 2012 Dec 5.
116. Tumor regression by anti-CD40 and interleukin-2: role of CD40 in hematopoietic cells and organ-specific effects. Welniak LA, etal., Biol Blood Marrow Transplant. 2004 Aug;10(8):534-9.
117. Three agonist antibodies in combination with high-dose IL-2 eradicate orthotopic kidney cancer in mice. Westwood JA, etal., J Transl Med. 2010 Apr 28;8:42. doi: 10.1186/1479-5876-8-42.
118. Angiotensin II upregulates Toll-like receptor 4 and enhances lipopolysaccharide-induced CD40 expression in rat peritoneal mesothelial cells. Wu J, etal., Inflamm Res. 2009 Aug;58(8):473-82. Epub 2009 Mar 7.
119. The expression of CD40-CD40L and activities of matrix metalloproteinases in atherosclerotic rats. Wu M and Li YG, Mol Cell Biochem. 2006 Jan;282(1-2):141-6.
120. Ileal immune dysregulation in necrotizing enterocolitis: role of CD40/CD40L in the pathogenesis of disease. Xu J, etal., J Pediatr Gastroenterol Nutr. 2011 Feb;52(2):140-6.
121. Parenchymal expression of CD40 exacerbates adenovirus-induced hepatitis in mice. Yan J, etal., Hepatology. 2011 May;53(5):1455-67. doi: 10.1002/hep.24270.
122. Zinc finger protein A20 protects rats against chronic liver allograft dysfunction. Yang J, etal., World J Gastroenterol. 2012 Jul 21;18(27):3537-50. doi: 10.3748/wjg.v18.i27.3537.
123. CD40 is expressed on rat peritoneal mesothelial cells and upregulates ICAM-1 production. Yang X, etal., Nephrol Dial Transplant. 2004 Jun;19(6):1378-84. Epub 2004 Apr 6.
124. Interruption of CD40 Pathway Improves Efficacy of Transplanted Endothelial Progenitor Cells in Monocrotaline Induced Pulmonary Arterial Hypertension. YanYun P, etal., Cell Physiol Biochem. 2015;36(2):683-96.
125. Association between serum levels of soluble CD40/CD40 ligand and organ damage in hypertensive patients. Yuan M, etal., Clin Exp Pharmacol Physiol. 2010 Aug;37(8):848-51.
126. Soluble CD40 and soluble CD40L concentrations in the serum and the cerebrospinal fluid of patients with tick borne encephalitis and neuroborreliosis Zajkowska JM, etal., Neurol Neurochir Pol. 2006 Jan-Feb;40(1):22-7.
127. A CD40 and an NCOA5 gene polymorphism confer susceptibility to psoriasis in a Southern European population: A case-control study. Zervou MI, etal., Hum Immunol. 2011 Sep;72(9):761-5. Epub 2011 May 24.
128. Treatment of autoimmune arthritis using RNA interference-modulated dendritic cells. Zheng X, etal., J Immunol. 2010 Jun 1;184(11):6457-64. Epub 2010 Apr 30.
129. Immunomodulation with CD40 stimulation and interleukin-2 protects mice from disseminated cryptococcosis. Zhou Q, etal., Infect Immun. 2006 Apr;74(4):2161-8.
130. [Expression of CD40 and CD40 ligand in peripheral blood mononuclear cells in children with bronchiolitis]. Zhu P and Zou LP, Zhongguo Dang Dai Er Ke Za Zhi. 2009 May;11(5):354-6.
131. [A study of costimulatory molecules in allergic allergic rhinitis patients]. Zhu R, etal., Lin Chung Er Bi Yan Hou Tou Jing Wai Ke Za Zhi. 2008 Sep;22(17):780-2, 784.
132. B cells play a cooperative role via CD40L-CD40 interaction in T cell-mediated experimental autoimmune neuritis in Lewis rats. Zhu W, etal., Neurobiol Dis. 2007 Mar;25(3):642-8. Epub 2006 Dec 22.
Additional References at PubMed
PMID:8566034   PMID:8666928   PMID:8920854   PMID:10979977   PMID:11279055   PMID:11847112   PMID:11886848   PMID:11894097   PMID:12223522   PMID:12477932   PMID:12761501   PMID:12882831  
PMID:12885753   PMID:12958312   PMID:14560001   PMID:14594818   PMID:14607964   PMID:15240714   PMID:15963492   PMID:16546095   PMID:16708399   PMID:17277142   PMID:18684012   PMID:19047410  
PMID:19211155   PMID:19593445   PMID:20458337   PMID:20614026   PMID:20685650   PMID:21410936   PMID:22017688   PMID:23981064   PMID:26432892   PMID:27916733   PMID:28566713   PMID:29843579  
PMID:31331973   PMID:31777165   PMID:32200719  


Genomics

Comparative Map Data
Cd40
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
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_SHR
UTH_Rnor_SHRSP_BbbUtx_1.03166,098,246 - 166,112,858 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.03163,842,022 - 163,856,635 (+)NCBIRnor_WKY
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
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382046,118,314 - 46,129,858 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 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
(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
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12043,541,619 - 43,552,994 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2043,541,619 - 43,552,994 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02042,455,711 - 42,467,139 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
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
SpeTri2.0NW_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

Position Markers
BF403631  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23153,796,507 - 153,796,669 (+)MAPPERmRatBN7.2
Rnor_6.03161,525,910 - 161,526,071NCBIRnor6.0
Rnor_5.03167,710,383 - 167,710,544UniSTSRnor5.0
RGSC_v3.43156,098,661 - 156,098,822UniSTSRGSC3.4
Celera3152,401,761 - 152,401,922UniSTS
RH 3.4 Map31431.0UniSTS
Cytogenetic Map3q42UniSTS
AW433947  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23153,804,841 - 153,805,013 (+)MAPPERmRatBN7.2
Rnor_6.03161,534,244 - 161,534,415NCBIRnor6.0
Rnor_5.03167,718,717 - 167,718,888UniSTSRnor5.0
RGSC_v3.43156,106,995 - 156,107,166UniSTSRGSC3.4
Celera3152,410,095 - 152,410,266UniSTS
RH 3.4 Map31432.6UniSTS
Cytogenetic Map3q42UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
1581568Rf53Renal function QTL 53total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3130193298161695983Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141339013162184794Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141339236155617360Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3145925360166177555Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3145925360166177555Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3145925360166177555Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3145925360166177555Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3145925360166177555Rat
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3145925360166177555Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3145925360166177555Rat
1300113Bp176Blood pressure QTL 1763.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3145956084157309487Rat
1598854Memor10Memory QTL 102exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)3145956084161299569Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3149040888168026850Rat


Genetic Models
This gene Cd40 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:76
Interacting mature miRNAs:89
Transcripts:ENSRNOT00000055148
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 8 19 8
Low 1 43 46 38 38 7 10 74 35 40 3 7
Below cutoff 3 3 3 1 1 1 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_134360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006235511 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762463 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762464 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008762465 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104199 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104201 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104202 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_591833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_591835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF241231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC097949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226992 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231420 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000120 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000055148   ⟹   ENSRNOP00000052022
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3153,796,143 - 153,805,273 (+)Ensembl
Rnor_6.0 Ensembl3161,519,743 - 161,534,704 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000101713   ⟹   ENSRNOP00000086811
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3153,790,452 - 153,805,273 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109324   ⟹   ENSRNOP00000092907
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3153,790,449 - 153,805,534 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000114607   ⟹   ENSRNOP00000076770
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3153,790,449 - 153,805,534 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000119493   ⟹   ENSRNOP00000087215
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3153,790,452 - 153,805,273 (+)Ensembl
RefSeq Acc Id: NM_134360   ⟹   NP_599187
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23153,790,452 - 153,805,274 (+)NCBI
Rnor_6.03161,519,851 - 161,534,676 (+)NCBI
Rnor_5.03167,704,285 - 167,719,416 (+)NCBI
RGSC_v3.43156,092,602 - 156,107,427 (+)RGD
Celera3152,395,702 - 152,410,527 (+)RGD
Sequence:
RefSeq Acc Id: XM_006235511   ⟹   XP_006235573
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23153,790,373 - 153,805,279 (+)NCBI
Rnor_6.03161,519,789 - 161,534,943 (+)NCBI
Rnor_5.03167,704,285 - 167,719,416 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762463   ⟹   XP_008760685
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23153,790,372 - 153,805,279 (+)NCBI
Rnor_6.03161,519,789 - 161,534,681 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762464   ⟹   XP_008760686
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23153,790,373 - 153,805,279 (+)NCBI
Rnor_6.03161,519,790 - 161,534,681 (+)NCBI
Sequence:
RefSeq Acc Id: XM_008762465   ⟹   XP_008760687
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23153,790,373 - 153,805,279 (+)NCBI
Rnor_6.03161,519,789 - 161,534,681 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039104199   ⟹   XP_038960127
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23153,790,373 - 153,805,279 (+)NCBI
RefSeq Acc Id: XM_039104200   ⟹   XP_038960128
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23153,790,373 - 153,805,279 (+)NCBI
RefSeq Acc Id: XM_039104201   ⟹   XP_038960129
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23153,790,373 - 153,805,279 (+)NCBI
RefSeq Acc Id: XM_039104202   ⟹   XP_038960130
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23153,790,630 - 153,805,279 (+)NCBI
RefSeq Acc Id: XR_591833
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23153,790,373 - 153,805,279 (+)NCBI
Rnor_6.03161,519,790 - 161,534,681 (+)NCBI
Sequence:
RefSeq Acc Id: XR_591835
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23153,790,373 - 153,804,816 (+)NCBI
Rnor_6.03161,519,789 - 161,534,155 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_599187   ⟸   NM_134360
- Peptide Label: precursor
- UniProtKB: Q4QQW2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006235573   ⟸   XM_006235511
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008760685   ⟸   XM_008762463
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008760687   ⟸   XM_008762465
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_008760686   ⟸   XM_008762464
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: ENSRNOP00000052022   ⟸   ENSRNOT00000055148
RefSeq Acc Id: XP_038960127   ⟸   XM_039104199
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038960128   ⟸   XM_039104200
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038960129   ⟸   XM_039104201
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038960130   ⟸   XM_039104202
- Peptide Label: isoform X8
RefSeq Acc Id: ENSRNOP00000076770   ⟸   ENSRNOT00000114607
RefSeq Acc Id: ENSRNOP00000086811   ⟸   ENSRNOT00000101713
RefSeq Acc Id: ENSRNOP00000087215   ⟸   ENSRNOT00000119493
RefSeq Acc Id: ENSRNOP00000092907   ⟸   ENSRNOT00000109324
Protein Domains
TNFR-Cys

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4QQW2-F1-model_v2 AlphaFold Q4QQW2 1-289 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 161527131 161527132 C G snv COP/CrCrl (MCW & UW), SS/JrHsdMcwi (MCW), F344/NCrl (RGD), SHRSP/Gcrc (RGD), SS/JrHsdMcwi (RGD), WKY/NCrl (RGD), DA/OlaHsd (2019), F344/DuCrl (2019), F344/NCrl (2019), M520/N (2020), SHRSP/A3NCrl (2019), SS/JrHsdMcwi (2019), WAG/RijCrl (2020), WKY/NCrl (2019), WKY/N (2020), CDR, CDS, ACI/EurMcwi (MCW), FHH/EurMcwi (MCW), FHL/EurMcwi (MCW), GH/OmrMcwi (MCW), SBH/Ygl (MCW), SBN/Ygl (MCW), SR/JrHsd (MCW), ACI/N (MCW), Buf/N (MCW), F344/NRrrc (MCW), M520/N (MCW), WKY/N (MCW), ACI/EurMcwi (RGD), BBDP/Wor (RGD), FHH/EurMcwi (RGD), FHL/EurMcwi (RGD), GK/Ox (RGD), LE/Stm (RGD), LH/MavRrrc (RGD), LN/MavRrrc (RGD), LL/MavRrrc (RGD), MHS/Gib (RGD), MNS/Gib (RGD), SBH/Ygl (RGD), SBN/Ygl (RGD), SHR/NHsd (RGD), SR/JrHsd (RGD), SS/Jr (RGD), WAG/Rij (RGD), WKY/Gcrc (RGD), WKY/NHsd (RGD), ACI/EurMcwi (2019), ACI/N (2020), BUF/N (2020), BXH2/CubMcwi (2020), BXH3/CubMcwi (2020), F344/N (2020), F344/Stm (2019), FHH/EurMcwi (2019), FXLE16/Stm (2020), FXLE18/Stm (2020), GK/FarMcwi (2019), HXB2/IpcvMcwi (2019), LEXF11/Stm (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF2B/Stm (2019), LEXF3/Stm (2020), LEXF4/Stm (2020), LE/Stm (2019), LH/MavRrrcAek (2020), LL/MavRrrcAek (2020), LN/MavRrrcAek (2020), LEXF10A/StmMcwi (2020), M520/NRrrcMcwi (2019), MR/N (2020), MWF/Hsd (2019), PVG/Seac (2019), SHR/OlalpcvMcwi (2019), SR/JrHsd (2020)


Assembly: mRatBN7.2

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
3 153797729 153797730 C G snv ACI/EurMcwi (2019), WKY/N (2020), BUF/N (2020), BXH2/CubMcwi (2020), BXH3/CubMcwi (2020), DA/OlaHsd (2019), F344/DuCrl (2019), F344/NCrl (2019), F344/N (2020), F344/Stm (2019), FHH/EurMcwi (2019), FXLE16/Stm (2020), FXLE18/Stm (2020), GK/FarMcwi (2019), HXB2/IpcvMcwi (2019), LEXF11/Stm (2020), LEXF1A/Stm (2019), LEXF1C/Stm (2019), LEXF2B/Stm (2019), LEXF3/Stm (2020), LEXF4/Stm (2020), LE/Stm (2019), LH/MavRrrcAek (2020), LL/MavRrrcAek (2020), LN/MavRrrcAek (2020), LEXF10A/StmMcwi (2020), M520/NRrrcMcwi (2019), M520/N (2020), MR/N (2020), MWF/Hsd (2019), PVG/Seac (2019), SHRSP/A3NCrl (2019), SHR/OlalpcvMcwi (2019), SR/JrHsd (2020), SS/JrHsdMcwi (2019), WAG/RijCrl (2020), WKY/NCrl (2019), ACI/N (2020)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619830 AgrOrtholog
BioCyc Gene G2FUF-46810 BioCyc
Ensembl Genes ENSRNOG00000018488 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000052022.3 UniProtKB/TrEMBL
  ENSRNOP00000076770 ENTREZGENE
  ENSRNOP00000076770.1 UniProtKB/TrEMBL
  ENSRNOP00000086811.1 UniProtKB/TrEMBL
  ENSRNOP00000087215 ENTREZGENE
  ENSRNOP00000087215.1 UniProtKB/TrEMBL
  ENSRNOP00000092907 ENTREZGENE
  ENSRNOP00000092907.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055148.5 UniProtKB/TrEMBL
  ENSRNOT00000101713.1 UniProtKB/TrEMBL
  ENSRNOT00000109324 ENTREZGENE
  ENSRNOT00000109324.1 UniProtKB/TrEMBL
  ENSRNOT00000114607 ENTREZGENE
  ENSRNOT00000114607.1 UniProtKB/TrEMBL
  ENSRNOT00000119493 ENTREZGENE
  ENSRNOT00000119493.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7387440 IMAGE-MGC_LOAD
InterPro TNFR_5 UniProtKB/TrEMBL
  TNFR_Cys_rich_reg UniProtKB/TrEMBL
  TNFRSF5_N UniProtKB/TrEMBL
KEGG Report rno:171369 UniProtKB/TrEMBL
MGC_CLONE MGC:116072 IMAGE-MGC_LOAD
NCBI Gene 171369 ENTREZGENE
Pfam TNFR_c6 UniProtKB/TrEMBL
PhenoGen Cd40 PhenoGen
PRINTS TNFACTORR5 UniProtKB/TrEMBL
PROSITE TNFR_NGFR_1 UniProtKB/TrEMBL
  TNFR_NGFR_2 UniProtKB/TrEMBL
SMART TNFR UniProtKB/TrEMBL
UniProt A0A8I5XVD8_RAT UniProtKB/TrEMBL
  A0A8I6A4J5_RAT UniProtKB/TrEMBL
  A0A8I6AHI1_RAT UniProtKB/TrEMBL
  F6SVZ3_RAT UniProtKB/TrEMBL
  Q4QQW2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-20 Cd40  CD40 molecule  Cd40  CD40 molecule, TNF receptor superfamily member 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-06-27 Cd40  CD40 molecule, TNF receptor superfamily member 5  Cd40  CD40 antigen, TNF receptor superfamily member 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-10 Cd40  CD40 antigen, TNF receptor superfamily member 5  Cd40  CD40 molecule, TNF receptor superfamily member 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-22 Cd40  CD40 molecule, TNF receptor superfamily member 5  Tnfrsf5  tumor necrosis factor receptor superfamily, member 5  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-04-28 Tnfrsf5  tumor necrosis factor receptor superfamily, member 5  Tnfrsf5_predicted  tumor necrosis factor receptor superfamily, member 5 (predicted)  Data Merged 737654 APPROVED
2005-01-12 Tnfrsf5_predicted  tumor necrosis factor receptor superfamily, member 5 (predicted)      Symbol and Name status set to approved 70820 APPROVED
2002-08-07 Tnfrsf5  tumor necrosis factor receptor superfamily, member 5      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_regulation induced by various pro-inflammatory cytokines 634252