Vdr (vitamin D (1,25-dihydroxyvitamin D3) receptor) - Rat Genome Database

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Gene: Vdr (vitamin D (1,25-dihydroxyvitamin D3) receptor) Mus musculus
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Symbol: Vdr
Name: vitamin D (1,25-dihydroxyvitamin D3) receptor
RGD ID: 11484
MGI Page MGI
Description: Exhibits DNA binding activity and nuclear receptor activity. Is predicted to contribute to DNA-binding transcription factor activity and vitamin D response element binding activity. Involved in several processes, including mammary gland development; positive regulation of apoptotic process involved in mammary gland involution; and regulation of calcidiol 1-monooxygenase activity. Predicted to colocalize with caveola. Is expressed in several structures, including alimentary system; metanephros; nervous system; sensory organ; and skeleton. Used to study osteoporosis and rickets. Human ortholog(s) of this gene implicated in several diseases, including autoimmune disease (multiple); carcinoma (multiple); lipid storage disease (multiple); melanoma (multiple); and tuberculosis (multiple). Orthologous to human VDR (vitamin D receptor); PARTICIPATES IN altered p53 signaling pathway; tuberculosis pathway; INTERACTS WITH 1,2-dimethylhydrazine; 2,3,7,8-tetrachlorodibenzodioxine; 24,25-Dihydroxyvitamin D.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 1,25-dihydroxyvitamin D3 receptor; Nr; Nr1i1; nuclear receptor subfamily 1 group I member 1; vitamin D receptor; vitamin D3 receptor
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391597,752,308 - 97,806,177 (-)NCBIGRCm39mm39
GRCm39 Ensembl1597,752,306 - 97,808,511 (-)Ensembl
GRCm381597,854,427 - 97,908,296 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1597,854,425 - 97,910,630 (-)EnsemblGRCm38mm10GRCm38
MGSCv371597,684,858 - 97,738,727 (-)NCBIGRCm37mm9NCBIm37
MGSCv361597,682,461 - 97,736,330 (-)NCBImm8
Celera1599,981,938 - 100,035,599 (-)NCBICelera
Cytogenetic Map15F1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acquired immunodeficiency syndrome  (ISO)
Acute Hepatitis  (IEP)
Addison's disease  (ISO)
alopecia  (IMP,ISO)
amyotrophic lateral sclerosis  (ISO)
aortic valve stenosis  (ISO)
asthma  (ISO)
atherosclerosis  (IMP)
atopic dermatitis  (ISO)
autism spectrum disorder  (ISO)
autoimmune hepatitis  (ISO)
autosomal recessive limb-girdle muscular dystrophy type 2B  (ISO)
B-Cell Chronic Lymphocytic Leukemia  (ISO)
Barrett's esophagus  (ISO)
basal cell carcinoma  (ISO)
Behcet's disease  (ISO)
breast cancer  (ISO)
Breast Neoplasms  (ISO)
Bronchopulmonary Dysplasia  (ISO)
cholangitis  (ISO)
Chronic Hepatitis C  (ISO)
Chronic Periodontitis  (ISO)
coronary artery disease  (ISO)
Crohn's disease  (ISO)
diabetes mellitus  (ISO)
diabetic retinopathy  (ISO)
disease of cellular proliferation  (ISO)
Dwarfism  (ISO)
erythema nodosum  (ISO)
esophagus adenocarcinoma  (ISO)
Experimental Autoimmune Encephalomyelitis  (IDA,IMP)
Fabry disease  (ISO)
Familial Hypophosphatemic Rickets  (ISO)
fatty liver disease  (IMP,ISO)
Fetal Growth Retardation  (ISO)
genetic disease  (ISO)
Graves' disease  (ISO)
hepatitis B  (ISO)
hepatocellular carcinoma  (ISO)
human immunodeficiency virus infectious disease  (ISO)
Hypercalciuria  (ISO)
hypertension  (ISO)
Hypophosphatemic Rickets  (ISO)
Inflammation  (ISO)
Insulin Resistance  (IMP)
Intervertebral Disc Displacement  (ISO)
Knee Osteoarthritis  (ISO)
Lead Poisoning  (ISO)
leishmaniasis  (IMP)
lepromatous leprosy  (ISO)
liver cirrhosis  (IMP,ISO)
male breast cancer  (ISO)
Mammary Neoplasms, Experimental  (IMP)
melanoma  (ISO)
multiple sclerosis  (ISO)
Myocardial Reperfusion Injury  (IEP)
myopia  (ISO)
Neoplasm Metastasis  (ISO)
non-alcoholic fatty liver disease  (IEP,IMP,ISO)
obesity  (ISO)
osteoporosis  (IEA,ISO)
otosclerosis  (ISO)
Parathyroid Neoplasms  (ISO)
Parkinson's disease  (ISO)
peptic esophagitis  (ISO)
periodontitis  (ISO)
pneumonia  (IMP,ISO)
polycystic ovary syndrome  (ISO)
Postmenopausal Osteoporosis  (ISO)
primary biliary cholangitis  (ISO)
primary hyperparathyroidism  (ISO)
primary sclerosing cholangitis  (ISO)
prostate cancer  (ISO)
Prostatic Neoplasms  (ISO)
psoriasis  (ISO)
pulmonary tuberculosis  (ISO)
renal cell carcinoma  (ISO)
rheumatoid arthritis  (ISO)
rickets  (IEA,ISO)
secondary hyperparathyroidism  (ISO)
skin melanoma  (ISO)
Spinal Fractures  (ISO)
squamous cell carcinoma  (ISO)
Sunburn  (ISO)
Systemic Inflammatory Response Syndrome  (ISO)
temporal lobe epilepsy  (ISO)
transitional cell carcinoma  (ISO)
tuberculoid leprosy  (ISO)
tuberculosis  (ISO)
Turner syndrome  (ISO)
type 1 diabetes mellitus  (ISO)
type 2 diabetes mellitus  (ISO)
uremia  (ISO)
Urinary Calculi  (ISO)
Viral Bronchiolitis  (ISO)
Vitamin D Deficiency  (ISO)
vitamin D-dependent rickets  (ISO)
vitamin D-dependent rickets type 2A  (IMP,ISO)
vitiligo  (ISO)
Weight Gain  (IMP,ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (ISO)
(R)-noradrenaline  (ISO)
1,2-dimethylhydrazine  (EXP)
1-chloro-2,4-dinitrobenzene  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
24,25-Dihydroxyvitamin D  (EXP,ISO)
3,7-dihydropurine-6-thione  (ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (EXP,ISO)
3-methoxytyramine  (ISO)
3-oxo-5beta-cholanic acid  (ISO)
3-phenoxybenzoic acid  (ISO)
4-hydroxyphenyl retinamide  (EXP,ISO)
5-aza-2'-deoxycytidine  (ISO)
8-Br-cAMP  (ISO)
9-cis-retinoic acid  (ISO)
acetylsalicylic acid  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucose  (ISO)
alendronic acid  (ISO)
alfacalcidol  (EXP,ISO)
all-trans-retinoic acid  (ISO)
alpha-linolenic acid  (ISO)
alpha-naphthoflavone  (ISO)
ammonium chloride  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
antirheumatic drug  (ISO)
arsenite(3-)  (ISO)
bafilomycin A1  (ISO)
benzene  (EXP)
benzo[a]pyrene  (EXP,ISO)
bezafibrate  (ISO)
biphenyl-2-ol  (ISO)
bisdemethoxycurcumin  (ISO)
bisphenol A  (EXP,ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
calcidiol  (EXP,ISO)
calciol  (EXP,ISO)
calcipotriol  (ISO)
calcitriol  (EXP,ISO)
calcium atom  (EXP,ISO)
calcium(0)  (EXP,ISO)
captopril  (EXP)
carbon nanotube  (EXP)
carnosic acid  (ISO)
cefalotin  (EXP)
chenodeoxycholic acid  (ISO)
chloroacetaldehyde  (ISO)
cholanic acid  (EXP,ISO)
cholesterol  (ISO)
cholic acid  (ISO)
chromium(6+)  (EXP)
ciguatoxin CTX1B  (EXP)
cisplatin  (ISO)
copper(II) sulfate  (ISO)
curcumin  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
D-glucose  (ISO)
daunorubicin  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (EXP,ISO)
dextran sulfate  (EXP)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
dopamine  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (ISO)
entinostat  (ISO)
estriol  (ISO)
etoposide  (ISO)
eugenol  (ISO)
Falecalcitriol  (ISO)
fenvalerate  (ISO)
flucythrinate  (ISO)
folic acid  (EXP)
fulvestrant  (ISO)
gamma-tocopherol  (ISO)
genistein  (ISO)
glucose  (ISO)
glycitein  (ISO)
Goe 6976  (EXP,ISO)
guggulsterone  (EXP)
GW 501516  (ISO)
hexachlorobenzene  (EXP)
homovanillic acid  (ISO)
idarubicin  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
isopentenyl diphosphate  (ISO)
kaempferol  (ISO)
ketoconazole  (ISO)
lacidipine  (ISO)
lactacystin  (ISO)
lamivudine  (EXP)
lead diacetate  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
levonorgestrel  (ISO)
lipopolysaccharide  (ISO)
lithocholic acid  (EXP,ISO)
LY294002  (ISO)
manidipine  (ISO)
Maxacalcitol  (ISO)
medroxyprogesterone acetate  (ISO)
mercaptopurine  (ISO)
mercury atom  (ISO)
mercury(0)  (ISO)
methotrexate  (ISO)
methoxsalen  (ISO)
methyl beta-cyclodextrin  (ISO)
methylseleninic acid  (ISO)
N-nitrosodiethylamine  (EXP)
neomycin  (EXP)
nickel atom  (ISO)
nickel sulfate  (ISO)
O-methyleugenol  (ISO)
okadaic acid  (ISO)
paracetamol  (ISO)
paricalcitol  (ISO)
pentanal  (ISO)
phenobarbital  (ISO)
phenothrin  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
phosphorus atom  (ISO)
phosphorus(.)  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
prednisone  (ISO)
promegestone  (ISO)
propanal  (ISO)
purine-6-thiol  (ISO)
pyridaben  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
silicon dioxide  (EXP,ISO)
simvastatin  (EXP)
sodium arsenite  (ISO)
sodium atom  (EXP)
staurosporine  (ISO)
streptozocin  (ISO)
sunitinib  (ISO)
superoxide  (EXP)
suramin  (ISO)
tamoxifen  (ISO)
terbufos  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (EXP)
tocopherol  (ISO)
tributylstannane  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (EXP)
troglitazone  (EXP)
uranium atom  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
vitamin D  (EXP,ISO)
warfarin  (ISO)
zidovudine  (EXP)
zinc atom  (ISO)
zinc protoporphyrin  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (ISO)
animal organ morphogenesis  (IMP)
apoptotic signaling pathway  (ISO)
bile acid signaling pathway  (ISO)
calcium ion transport  (IMP)
cell differentiation  (IBA)
cell morphogenesis  (ISO)
cellular calcium ion homeostasis  (IMP)
cellular response to amyloid-beta  (ISO)
cellular response to vitamin D  (ISO)
decidualization  (ISO)
heart development  (ISO)
intestinal absorption  (IMP)
intracellular receptor signaling pathway  (IBA)
lactation  (IMP)
mammary gland branching involved in pregnancy  (IMP)
multicellular organism development  (IBA,IMP)
negative regulation of cell population proliferation  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of keratinocyte proliferation  (ISO)
negative regulation of transcription by RNA polymerase II  (IBA,ISO)
negative regulation of transcription, DNA-templated  (ISO)
positive regulation of apoptotic process involved in mammary gland involution  (IMP)
positive regulation of gene expression  (ISO)
positive regulation of keratinocyte differentiation  (ISO)
positive regulation of transcription by RNA polymerase II  (IBA,ISO)
positive regulation of vitamin D 24-hydroxylase activity  (ISO)
regulation of calcidiol 1-monooxygenase activity  (IMP)
regulation of calcium ion transport  (ISO)
regulation of transcription by RNA polymerase II  (IBA)
regulation of transcription, DNA-templated  (IDA)
response to calcium ion  (ISO)
response to estradiol  (ISO)
skeletal system development  (IMP)
vitamin D receptor signaling pathway  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal blood homeostasis  (IAGP)
abnormal bone mineralization  (IAGP)
abnormal bone ossification  (IAGP)
abnormal bone structure  (IAGP)
abnormal CD4-positive, alpha-beta T cell physiology  (IAGP)
abnormal chemokine secretion  (IAGP)
abnormal chondrocyte morphology  (IAGP)
abnormal coat/ hair morphology  (IAGP)
abnormal colon morphology  (IAGP)
abnormal cytokine level  (IAGP)
abnormal dendritic cell differentiation  (IAGP)
abnormal enzyme/coenzyme activity  (IAGP)
abnormal epidermis stratum granulosum morphology  (IAGP)
abnormal epiphyseal plate morphology  (IAGP)
abnormal estrous cycle  (IAGP)
abnormal fat-soluble vitamin level  (IAGP)
abnormal female reproductive system morphology  (IAGP)
abnormal femur morphology  (IAGP)
abnormal fertility/fecundity  (IAGP)
abnormal fibula morphology  (IAGP)
abnormal gametogenesis  (IAGP)
abnormal glucose tolerance  (IAGP)
abnormal heart ventricle morphology  (IAGP)
abnormal interleukin level  (IAGP)
abnormal interleukin-1 secretion  (IAGP)
abnormal intestinal epithelium morphology  (IAGP)
abnormal intestinal mucosa morphology  (IAGP)
abnormal large intestine crypts of Lieberkuhn morphology  (IAGP)
abnormal limb bone morphology  (IAGP)
abnormal locomotor activation  (IAGP)
abnormal long bone hypertrophic chondrocyte zone  (IAGP)
abnormal long bone metaphysis morphology  (IAGP)
abnormal lymph node cell ratio  (IAGP)
abnormal macrophage chemotaxis  (IAGP)
abnormal macrophage physiology  (IAGP)
abnormal male reproductive system morphology  (IAGP)
abnormal mineral homeostasis  (IAGP)
abnormal myocardial fiber physiology  (IAGP)
abnormal nitric oxide homeostasis  (IAGP)
abnormal osteoclast differentiation  (IAGP)
abnormal renin activity  (IAGP)
abnormal response to new environment  (IAGP)
abnormal response to vitamins  (IAGP)
abnormal skeleton physiology  (IAGP)
abnormal skin development  (IAGP)
abnormal spermatogenesis  (IAGP)
abnormal splenic cell ratio  (IAGP)
abnormal startle reflex  (IAGP)
abnormal T cell number  (IAGP)
abnormal thymus corticomedullary boundary morphology  (IAGP)
abnormal thymus involution  (IAGP)
abnormal tibia morphology  (IAGP)
abnormal trabecular bone morphology  (IAGP)
abnormal tumor necrosis factor level  (IAGP)
abnormal urine homeostasis  (IAGP)
abnormal vitamin D level  (IAGP)
absent mature ovarian follicles  (IAGP)
absent spleen white pulp  (IAGP)
alopecia  (IAGP)
anemia  (IAGP)
asthenozoospermia  (IAGP)
cardiac fibrosis  (IAGP)
cardiac hypertrophy  (IAGP)
colitis  (IAGP)
decreased angiogenesis  (IAGP)
decreased body size  (IAGP)
decreased body weight  (IAGP)
decreased bone mineral density  (IAGP)
decreased bone mineral density of femur  (IAGP)
decreased bone resorption  (IAGP)
decreased circulating calcium level  (IAGP)
decreased circulating phosphate level  (IAGP)
decreased compact bone thickness  (IAGP)
decreased hair follicle cell proliferation  (IAGP)
decreased interleukin-6 secretion  (IAGP)
decreased intestinal calcium absorption  (IAGP)
decreased lymphocyte cell number  (IAGP)
decreased mean systemic arterial blood pressure  (IAGP)
decreased osteoclast cell number  (IAGP)
decreased prepulse inhibition  (IAGP)
decreased regulatory T cell number  (IAGP)
decreased splenocyte proliferation  (IAGP)
decreased susceptibility to autoimmune diabetes  (IAGP)
decreased susceptibility to parasitic infection  (IAGP)
decreased systemic arterial diastolic blood pressure  (IAGP)
decreased systemic arterial systolic blood pressure  (IAGP)
decreased T cell proliferation  (IAGP)
decreased uterus weight  (IAGP)
decreased vertical activity  (IAGP)
delayed endochondral bone ossification  (IAGP)
dermal cysts  (IAGP)
dermatitis  (IAGP)
dilated hair follicles  (IAGP)
dilated seminiferous tubules  (IAGP)
disorganized long bone epiphyseal plate  (IAGP)
ear inflammation  (IAGP)
enlarged mesenteric lymph nodes  (IAGP)
enlarged myocardial fiber  (IAGP)
enlarged parathyroid gland  (IAGP)
enlarged spleen  (IAGP)
epidermal cyst  (IAGP)
female infertility  (IAGP)
flat face  (IAGP)
hypertension  (IAGP)
hypoactivity  (IAGP)
impaired coordination  (IAGP)
increased activity of parathyroid  (IAGP)
increased bone mass  (IAGP)
increased bone mineral density  (IAGP)
increased circulating alkaline phosphatase level  (IAGP)
increased circulating angiotensin II level  (IAGP)
increased circulating angiotensinogen level  (IAGP)
increased circulating atrial natriuretic factor  (IAGP)
increased circulating follicle stimulating hormone level  (IAGP)
increased circulating luteinizing hormone level  (IAGP)
increased circulating parathyroid hormone level  (IAGP)
increased circulating phosphate level  (IAGP)
increased circulating renin level  (IAGP)
increased fluid intake  (IAGP)
increased heart weight  (IAGP)
increased left ventricle weight  (IAGP)
increased long bone epiphyseal plate size  (IAGP)
increased macrophage cell number  (IAGP)
increased neutrophil cell number  (IAGP)
increased osteoblast cell number  (IAGP)
increased osteoid volume  (IAGP)
increased renin activity  (IAGP)
increased sensitivity to xenobiotic induced morbidity/mortality  (IAGP)
increased spleen red pulp amount  (IAGP)
increased susceptibility to autoimmune diabetes  (IAGP)
increased susceptibility to induced colitis  (IAGP)
increased systemic arterial diastolic blood pressure  (IAGP)
increased systemic arterial systolic blood pressure  (IAGP)
increased T cell apoptosis  (IAGP)
increased testis weight  (IAGP)
increased thymus weight  (IAGP)
increased trabecular bone volume  (IAGP)
increased urine calcium level  (IAGP)
increased urine potassium level  (IAGP)
increased urine sodium level  (IAGP)
increased width of hypertrophic chondrocyte zone  (IAGP)
intestinal inflammation  (IAGP)
intestinal ulcer  (IAGP)
male infertility  (IAGP)
mixed cellular infiltration to dermis  (IAGP)
oligozoospermia  (IAGP)
parathyroid gland hyperplasia  (IAGP)
polyuria  (IAGP)
postnatal growth retardation  (IAGP)
premature death  (IAGP)
rectal prolapse  (IAGP)
reduced female fertility  (IAGP)
reduced male fertility  (IAGP)
rickets  (IAGP)
short femur  (IAGP)
short snout  (IAGP)
short stride length  (IAGP)
short tibia  (IAGP)
slow postnatal weight gain  (IAGP)
sparse vibrissae  (IAGP)
thick interventricular septum  (IAGP)
thick ventricular wall  (IAGP)
thymus hyperplasia  (IAGP)
thymus hypoplasia  (IAGP)
uterus hypoplasia  (IAGP)
weight loss  (IAGP)
References

References - curated
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Genomics

Comparative Map Data
Vdr
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391597,752,308 - 97,806,177 (-)NCBIGRCm39mm39
GRCm39 Ensembl1597,752,306 - 97,808,511 (-)Ensembl
GRCm381597,854,427 - 97,908,296 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1597,854,425 - 97,910,630 (-)EnsemblGRCm38mm10GRCm38
MGSCv371597,684,858 - 97,738,727 (-)NCBIGRCm37mm9NCBIm37
MGSCv361597,682,461 - 97,736,330 (-)NCBImm8
Celera1599,981,938 - 100,035,599 (-)NCBICelera
Cytogenetic Map15F1NCBI
VDR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1247,841,537 - 47,943,048 (-)EnsemblGRCh38hg38GRCh38
GRCh381247,841,537 - 47,905,022 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371248,235,320 - 48,298,777 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361246,521,587 - 46,585,081 (-)NCBINCBI36hg18NCBI36
Build 341246,521,588 - 46,585,036NCBI
Celera1247,032,871 - 47,096,518 (-)NCBI
Cytogenetic Map12q13.11NCBI
HuRef1245,266,368 - 45,330,677 (-)NCBIHuRef
CHM1_11248,201,212 - 48,264,704 (-)NCBICHM1_1
Vdr
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27128,987,981 - 129,037,677 (-)NCBI
Rnor_6.0 Ensembl7139,342,063 - 139,394,166 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07139,344,452 - 139,394,138 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07139,536,241 - 139,585,928 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47136,567,614 - 136,617,280 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17136,644,050 - 136,693,717 (-)NCBI
Celera7125,479,125 - 125,528,679 (-)NCBICelera
Cytogenetic Map7q36NCBI
Vdr
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555006,745,678 - 6,798,048 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555006,745,725 - 6,798,052 (-)NCBIChiLan1.0ChiLan1.0
VDR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11241,661,688 - 41,766,192 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1241,702,742 - 41,766,192 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01240,828,413 - 40,891,700 (+)NCBIMhudiblu_PPA_v0panPan3
VDR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1276,852,915 - 6,909,466 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl276,852,723 - 6,909,470 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2739,397,549 - 39,454,181 (-)NCBI
ROS_Cfam_1.0276,920,266 - 6,976,964 (+)NCBI
UMICH_Zoey_3.1276,857,514 - 6,914,062 (+)NCBI
UNSW_CanFamBas_1.0276,892,693 - 6,949,518 (+)NCBI
UU_Cfam_GSD_1.02739,686,018 - 39,742,660 (-)NCBI
Vdr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494567,363,831 - 67,424,087 (+)NCBI
SpeTri2.0NW_0049365125,741,836 - 5,800,999 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VDR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl578,205,810 - 78,267,321 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1578,205,807 - 78,266,505 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2581,279,217 - 81,338,475 (-)NCBISscrofa10.2Sscrofa10.2susScr3
VDR
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11144,062,198 - 44,126,295 (-)NCBI
ChlSab1.1 Ensembl1144,065,457 - 44,166,684 (-)Ensembl
Vdr
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248164,314,146 - 4,423,946 (+)NCBI

Position Markers
Vdr  
Mouse AssemblyChrPosition (strand)SourceJBrowse
MGSCv371597,684,866 - 97,685,279UniSTSGRCm37
MGSCv371597,685,152 - 97,685,220UniSTSGRCm37
Celera1599,981,946 - 99,982,359UniSTS
Celera1599,982,232 - 99,982,300UniSTS
Cytogenetic Map15F1UniSTS
cM Map556.0UniSTS
cM Map15 UniSTS
PMC23328P1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381597,884,798 - 97,884,926UniSTSGRCm38
MGSCv371597,715,229 - 97,715,357UniSTSGRCm37
Celera15100,012,329 - 100,012,457UniSTS
Cytogenetic Map15F1UniSTS
Vdr  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map15F1UniSTS
Vdr  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map15F1UniSTS
cM Map556.0UniSTS
cM Map15 UniSTS
Vdr  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381597,854,435 - 97,854,848UniSTSGRCm38
MGSCv371597,684,866 - 97,685,279UniSTSGRCm37
Celera1599,981,946 - 99,982,359UniSTS
Cytogenetic Map15F1UniSTS
Vdr  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381597,854,721 - 97,854,789UniSTSGRCm38
MGSCv371597,685,152 - 97,685,220UniSTSGRCm37
Celera1599,982,232 - 99,982,300UniSTS
Cytogenetic Map15F1UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884442Sklq6_mskull length QTL 6, 5 week (mouse)156100000100900000Mouse
1357526Hyplip2_mhyperlipidemia 2 (mouse)Not determined1512402117102988123Mouse
26884425Cvht2_mcranial vault height 2, 5 week (mouse)1528800000102100000Mouse
1558985Eae32_mexperimental allergic encephalomyelitis susceptibility 32 (mouse)Not determined1532578270103517472Mouse
26884397Humsd5_mhumerus midshaft diameter 5, 10 week (mouse)154850000098500000Mouse
26884399Humsd1_mhumerus midshaft diameter 1, 5 week (mouse)1548500000101800000Mouse
1302074Bmd4_mbone mineral density 4 (mouse)Not determined1556323312103517472Mouse
1302197Bhr2_mbronchial hyperresponsiveness 2 (mouse)Not determined1564434485103517472Mouse
4141135Cia35_mcollagen induced arthritis 35 (mouse)Not determined156492762598927745Mouse
1301119Drb7_mdopamine receptor binding 7 (mouse)Not determined156545237799456827Mouse
1301171Brm2_mbrachyury modifier 2 (mouse)Not determined156564117599641298Mouse
4141921Pstc3_mperiosteal circumference 3 (mouse)Not determined1567386497101386646Mouse
1300627Sluc26_msusceptibility to lung cancer 26 (mouse)Not determined1570461452104043685Mouse
1300726Pitm4_mprion incubation time 4 (mouse)Not determined1570465070104043685Mouse
1300648Dbsty4_mdiabesity 4 (mouse)Not determined1570465070104043685Mouse
14747011Mancz13_mmandible centroid size 13 (mouse)1572498466104043685Mouse
12791003Aath8_maortic arch atherosclerosis 8 (mouse)1573545941104043685Mouse
1300851Heal4_mwound healing/regeneration 4 (mouse)Not determined1577629711104043685Mouse
4142060W3q6_mweight 3 weeks QTL 6 (mouse)Not determined78716903102993272Mouse
1357894Epfpq3_mepididymal fat percentage QTL 3 (mouse)Not determined1578716903102993272Mouse
14928306Manh79_mmandible shape 79 (mouse)1578949676104043685Mouse
12880411V125Dq11_mvitamin D active form serum level QTL 11 (mouse)1579000000104043685Mouse
10402490Dipa5_mdrug induced psychomotor activation 5 (mouse)Not determined1579265530104043685Mouse
4141897Imrfq2_mimmune response to Factor IX QTL 2 (mouse)Not determined80011059104043685Mouse
1301284Cosz3_mcocaine seizure 3 (mouse)Not determined1580415753104043685Mouse
4141902Cia37_mcollagen induced arthritis 37 (mouse)Not determined1580987052104043685Mouse
1300974Pgia9_mproteoglycan induced arthritis 9 (mouse)Not determined1580987052104043685Mouse
4141511Gdcr1_mglycerolphosphate dehydrogenase regulator 1 (mouse)Not determined82717593104043685Mouse
1357614Bmca_mbile mucin accumulation (mouse)Not determined1585988005104043685Mouse
11530037Sluc34a_msusceptibility to lung cancer 34a (mouse)1585988005104043685Mouse
11530038Sluc34b_msusceptibility to lung cancer 34b (mouse)1585988005104043685Mouse
1301918Skull22_mskull morphology 22 (mouse)Not determined1585993114104043685Mouse
1301764Chab4_mcholesterol absorption 4 (mouse)Not determined1586751919104043685Mouse
4141581Dshv1_mdorsal hippocampal volume 1 (mouse)Not determined92890759103517472Mouse
14700689Carg5_mCandida albicans resistance gene 5 (mouse)1597800000103100000Mouse

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir298mmu-miR-298-5pMirtarbaseexternal_infoImmunoblot//Luciferase reporter assayFunctional MTI19581388

Predicted Target Of
Summary Value
Count of predictions:2714
Count of miRNA genes:856
Interacting mature miRNAs:1161
Transcripts:ENSMUST00000023119, ENSMUST00000126568, ENSMUST00000139656, ENSMUST00000173104, ENSMUST00000173611, ENSMUST00000174633
Prediction methods:Microtar, 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


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000023119   ⟹   ENSMUSP00000023119
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1597,854,425 - 97,908,310 (-)Ensembl
RefSeq Acc Id: ENSMUST00000126568   ⟹   ENSMUSP00000116842
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1597,876,776 - 97,896,813 (-)Ensembl
RefSeq Acc Id: ENSMUST00000139656
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1597,857,537 - 97,859,698 (-)Ensembl
RefSeq Acc Id: ENSMUST00000173104   ⟹   ENSMUSP00000134584
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1597,876,848 - 97,910,630 (-)Ensembl
RefSeq Acc Id: ENSMUST00000173611   ⟹   ENSMUSP00000133351
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1597,884,889 - 97,909,562 (-)Ensembl
RefSeq Acc Id: ENSMUST00000174633   ⟹   ENSMUSP00000133682
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1597,884,877 - 97,910,630 (-)Ensembl
RefSeq Acc Id: NM_009504   ⟹   NP_033530
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391597,752,308 - 97,806,177 (-)NCBI
GRCm381597,854,427 - 97,908,296 (-)ENTREZGENE
MGSCv371597,684,858 - 97,738,727 (-)RGD
Celera1599,981,938 - 100,035,599 (-)RGD
cM Map15 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_033530   ⟸   NM_009504
- UniProtKB: P48281 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000116842   ⟸   ENSMUST00000126568
RefSeq Acc Id: ENSMUSP00000133682   ⟸   ENSMUST00000174633
RefSeq Acc Id: ENSMUSP00000023119   ⟸   ENSMUST00000023119
RefSeq Acc Id: ENSMUSP00000133351   ⟸   ENSMUST00000173611
RefSeq Acc Id: ENSMUSP00000134584   ⟸   ENSMUST00000173104
Protein Domains
NR LBD   Nuclear receptor

Promoters
RGD ID:6826598
Promoter ID:MM_KWN:19583
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney
Transcripts:OTTMUST00000065369
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361597,690,001 - 97,690,501 (-)MPROMDB
RGD ID:6826595
Promoter ID:MM_KWN:19584
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Kidney
Transcripts:OTTMUST00000065368
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361597,726,951 - 97,727,451 (-)MPROMDB
RGD ID:6826597
Promoter ID:MM_KWN:19585
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day1,   3T3L1_Day2,   Kidney
Transcripts:OTTMUST00000065367
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361597,738,321 - 97,738,821 (-)MPROMDB
RGD ID:8684878
Promoter ID:EPDNEW_M20470
Type:initiation region
Name:Vdr_1
Description:Mus musculus vitamin D (1,25-dihydroxyvitamin D3) receptor ,mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381597,908,270 - 97,908,330EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:103076 AgrOrtholog
Ensembl Genes ENSMUSG00000022479 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000023119 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUSP00000116842 UniProtKB/TrEMBL
  ENSMUSP00000133351 UniProtKB/TrEMBL
  ENSMUSP00000133682 UniProtKB/TrEMBL
  ENSMUSP00000134584 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000023119 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSMUST00000126568 UniProtKB/TrEMBL
  ENSMUST00000173104 UniProtKB/TrEMBL
  ENSMUST00000173611 UniProtKB/TrEMBL
  ENSMUST00000174633 UniProtKB/TrEMBL
Gene3D-CATH 1.10.565.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.50.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro DBD_VDR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NHR-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nucl_hrmn_rcpt_lig-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Nuclear_hrmn_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VitD_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_hrmn_rcpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_NHR/GATA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:22337 UniProtKB/Swiss-Prot
MGD MGI:103076 ENTREZGENE
NCBI Gene 22337 ENTREZGENE
Pfam Hormone_recep UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  zf-C4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB VDR RGD
PhenoGen Vdr PhenoGen
PRINTS STRDHORMONER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  STROIDFINGER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VITAMINDR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE NR_LBD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NUCLEAR_REC_DBD_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  NUCLEAR_REC_DBD_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HOLI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZnF_C4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48508 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt D3Z3H9_MOUSE UniProtKB/TrEMBL
  G3UWM9_MOUSE UniProtKB/TrEMBL
  G3UXG5_MOUSE UniProtKB/TrEMBL
  G3UZP9_MOUSE UniProtKB/TrEMBL
  P48281 ENTREZGENE
  Q3U0J7_MOUSE UniProtKB/TrEMBL
  Q4FJV8_MOUSE UniProtKB/TrEMBL
  VDR_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary Q922X0 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-05-09 Vdr  vitamin D (1,25-dihydroxyvitamin D3) receptor    vitamin D receptor  Symbol and/or name change 5135510 APPROVED