Clu (clusterin) - Rat Genome Database

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Gene: Clu (clusterin) Rattus norvegicus
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Symbol: Clu
Name: clusterin
RGD ID: 3907
Description: Exhibits protein N-terminus binding activity. Involved in several processes, including estrous cycle; protein stabilization; and response to potassium ion. Localizes to several cellular components, including aggresome; growth cone; and perinuclear region of cytoplasm. Predicted to colocalize with collagen-containing extracellular matrix; cytoskeleton; and membrane. Used to study atherosclerosis and renal fibrosis. Biomarker of several diseases, including anti-basement membrane glomerulonephritis; brain ischemia; kidney failure (multiple); prostate disease (multiple); and pulmonary hypertension. Human ortholog(s) of this gene implicated in artery disease (multiple); breast cancer; diabetic retinopathy; exfoliation syndrome; and muscular disease (multiple). Orthologous to human CLU (clusterin); INTERACTS WITH 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 1,2-dimethylhydrazine; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: APOJ; CLI; DAG; dimeric acid glycoprotein; RATTRPM2B; SGP-2; SGP2; SP-40; SP40; sulfated glycoprotein 2; testosterone repressed prostate message 2; testosterone-repressed prostate message; testostrone-repressed prostate message 2; TRPM-2; Trpm2; TRPM2B; Trpmb
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21540,161,068 - 40,200,315 (+)NCBI
Rnor_6.0 Ensembl1542,640,146 - 42,665,857 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01542,626,612 - 42,665,858 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01548,926,511 - 48,965,757 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41545,365,779 - 45,405,314 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11545,381,558 - 45,421,094 (+)NCBI
Celera1539,832,711 - 39,871,901 (+)NCBICelera
Cytogenetic Map15p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acute kidney failure  (IEP,ISO)
Alzheimer's disease  (ISO)
amyotrophic lateral sclerosis type 1  (ISO)
anti-basement membrane glomerulonephritis  (IEP)
atherosclerosis  (IDA)
Atrophy  (ISO)
brain ischemia  (IEP)
breast cancer  (ISO)
Breast Neoplasms  (ISO)
Chemical and Drug Induced Liver Injury  (ISO)
Chronic Allograft Nephropathy  (IEP)
chronic kidney disease  (IEP)
cicatricial pemphigoid  (ISO)
Cognitive Dysfunction  (ISO)
conjunctival disease  (ISO)
coronary artery disease  (ISO)
Diabetic Nephropathies  (IEP)
diabetic retinopathy  (ISO)
Drug-Related Side Effects and Adverse Reactions  (ISO)
exfoliation syndrome  (ISO)
Experimental Diabetes Mellitus  (IEP)
Fuchs' endothelial dystrophy  (ISO)
gelatinous drop-like corneal dystrophy  (ISO)
Hyperplasia  (ISO)
hypertension  (ISO)
inclusion body myositis  (ISO)
invasive ductal carcinoma  (ISO)
iron metabolism disease  (ISO)
juvenile rheumatoid arthritis  (ISO)
Kawasaki disease  (ISO)
kidney disease  (ISO)
lupus nephritis  (ISO)
Lymphatic Metastasis  (ISO)
macular retinal edema  (ISO)
Mammary Neoplasms, Experimental  (ISO)
melanoma  (ISO)
muscular disease  (ISO)
mycosis fungoides  (ISO)
myocardial infarction  (ISO)
nasal cavity adenocarcinoma  (ISO)
Neointima  (ISO)
Neoplasm Metastasis  (ISO)
Neovascularization, Pathologic  (ISO)
Optic Nerve Injuries  (IEP)
osteoarthritis  (ISO)
Pituitary Neoplasms  (ISO)
pre-eclampsia  (ISO)
prostate adenocarcinoma  (IEP)
prostatic hypertrophy  (IEP)
Prostatic Neoplasms  (ISO)
proteinuria  (IEP)
psoriasis  (ISO)
pulmonary hypertension  (IEP)
renal fibrosis  (IMP)
Retina Reperfusion Injury  (IEP)
retinal degeneration  (IEP)
skin papilloma  (ISO)
squamous cell carcinoma  (ISO)
Stevens-Johnson syndrome  (ISO)
systemic lupus erythematosus  (ISO)
systemic scleroderma  (ISO)
visual epilepsy  (ISO)
vitiligo  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-ropivacaine  (ISO)
1,1'-azobis(N,N-dimethylformamide)  (ISO)
1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (EXP)
1,2-dimethylhydrazine  (EXP,ISO)
1-naphthyl isothiocyanate  (EXP)
1-nitropyrene  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2,2-tetramine  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2,5-hexanedione  (EXP)
2-(3,4-dimethoxyphenyl)-5-\{[2-(3,4-dimethoxyphenyl)ethyl](methyl)amino\}-2-(propan-2-yl)pentanenitrile  (ISO)
2-acetamidofluorene  (EXP)
2-hydroxypropanoic acid  (ISO)
2-methoxyethanol  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,3',5-triiodo-L-thyronine  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-Dichlorobenzophenone  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-tert-Octylphenol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
aflatoxin B1  (EXP,ISO)
aflatoxin B2  (ISO)
all-trans-retinoic acid  (ISO)
allethrin  (EXP)
aluminium oxide  (ISO)
ammonia  (EXP)
ammonium chloride  (EXP,ISO)
amphotericin B  (EXP)
antirheumatic drug  (ISO)
arsenous acid  (ISO)
bacitracin  (EXP)
bathocuproine disulfonic acid  (ISO)
belinostat  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bicalutamide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP)
calcitriol  (ISO)
carbendazim  (EXP)
carbon nanotube  (ISO)
carboplatin  (EXP)
chloroform  (EXP)
chloroquine  (EXP)
cisplatin  (EXP,ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) chloride  (ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
CU-O LINKAGE  (ISO)
cumene  (ISO)
cyanuric acid  (EXP)
cyclosporin A  (EXP,ISO)
cyhalothrin  (EXP)
cypermethrin  (EXP)
D-penicillamine  (ISO)
dacarbazine  (ISO)
daidzein  (EXP)
DDE  (EXP,ISO)
DDT  (EXP)
deferasirox  (EXP)
depsipeptide  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (ISO)
dibenzoylmethane  (ISO)
dibutyl phthalate  (EXP)
dichlorine  (EXP)
diclofenac  (EXP,ISO)
diethylstilbestrol  (EXP,ISO)
dimethylarsinous acid  (ISO)
dioxygen  (ISO)
dobutamine  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
elemental selenium  (ISO)
enalapril  (EXP)
Enterolactone  (ISO)
entinostat  (ISO)
ethanol  (ISO)
fenvalerate  (EXP)
flutamide  (EXP)
folic acid  (EXP,ISO)
formaldehyde  (ISO)
fulvestrant  (EXP,ISO)
fumonisin B1  (ISO)
furan  (EXP)
gamma-hexachlorocyclohexane  (EXP)
gemcitabine  (ISO)
genistein  (EXP,ISO)
gentamycin  (EXP)
glutathione  (EXP)
graphite  (EXP)
Hexachloro-1,3-butadiene  (EXP)
hydrogen peroxide  (ISO)
ibuprofen  (ISO)
isocyanuric acid  (EXP)
isoflavones  (EXP)
isoprenaline  (ISO)
ketamine  (EXP)
ketoconazole  (EXP)
kojic acid  (EXP)
L-ascorbic acid  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
levamisole  (ISO)
linsidomine  (EXP)
lipopolysaccharide  (ISO)
m-xylene  (EXP)
maneb  (ISO)
Meclizine  (ISO)
megestrol  (ISO)
melamine  (EXP)
mercury dichloride  (EXP)
metaproterenol  (ISO)
Methazolamide  (ISO)
methoxyacetic acid  (EXP,ISO)
methoxychlor  (EXP,ISO)
methylisothiazolinone  (ISO)
methylseleninic acid  (ISO)
mitoxantrone  (ISO)
N-(3-methyl-5-sulfamoyl-1,3,4-thiadiazol-2-ylidene)acetamide  (ISO)
N-methyl-N-nitrosourea  (EXP)
N-nitrosodiethylamine  (EXP)
naphthalene  (ISO)
Natamycin  (ISO)
nickel atom  (ISO)
nifedipine  (EXP)
nimodipine  (ISO)
nitroglycerin  (EXP)
Nonylphenol  (EXP)
nystatin  (ISO)
ochratoxin A  (EXP)
okadaic acid  (ISO)
olanzapine  (ISO)
omega-conotoxin GVIA  (EXP)
orciprenaline  (ISO)
oxaliplatin  (EXP)
ozone  (EXP,ISO)
p-chloromercuribenzoic acid  (ISO)
p-menthan-3-ol  (ISO)
p-tert-Amylphenol  (EXP)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (ISO)
phenethyl isothiocyanate  (ISO)
phenobarbital  (EXP)
phenylephrine  (EXP)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
potassium bromate  (EXP)
potassium chromate  (ISO)
potassium dichromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
procymidone  (EXP)
progesterone  (EXP)
rac-lactic acid  (ISO)
raloxifene  (ISO)
razoxane  (ISO)
resveratrol  (ISO)
rofecoxib  (ISO)
rotenone  (ISO)
sarin  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (EXP)
streptozocin  (EXP)
styrene  (EXP)
succimer  (ISO)
sulfasalazine  (ISO)
sulforaphane  (ISO)
sulindac  (ISO)
sunitinib  (ISO)
T-2 toxin  (ISO)
tacrolimus hydrate  (EXP)
tamoxifen  (ISO)
Tanshinone I  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
Testosterone propionate  (EXP)
tetrachloromethane  (EXP,ISO)
tetracycline  (EXP)
tetramethylpyrazine  (EXP)
theophylline  (EXP)
thimerosal  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
triazines  (ISO)
trichostatin A  (ISO)
Triptolide  (EXP)
tris(2-butoxyethyl) phosphate  (ISO)
troglitazone  (EXP)
valproic acid  (ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vancomycin  (EXP,ISO)
verapamil  (ISO)
vinclozolin  (EXP)
vitamin E  (EXP,ISO)
wortmannin  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (IEP)
cell morphogenesis  (IEA,ISO,ISS)
cellular response to growth factor stimulus  (IEP)
central nervous system myelin maintenance  (IEA,ISO,ISS)
chaperone-mediated protein complex assembly  (IEA,ISO,ISS)
chaperone-mediated protein folding  (IEA,ISO,ISS)
endocrine pancreas development  (IMP)
estrous cycle  (IEP)
immune complex clearance  (IEA,ISO,ISS)
intrinsic apoptotic signaling pathway  (ISO,ISS)
microglial cell activation  (IEA,ISO,ISS)
microglial cell proliferation  (IEA,ISO,ISS)
negative regulation of amyloid fibril formation  (IEA,ISO,ISS)
negative regulation of amyloid-beta formation  (IEA,ISO,ISS)
negative regulation of apoptotic process  (IMP)
negative regulation of cell death  (ISO)
negative regulation of cellular response to thapsigargin  (IEA,ISO)
negative regulation of cellular response to tunicamycin  (IEA,ISO)
negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage  (IEA,ISO,ISS)
negative regulation of protein-containing complex assembly  (IEA,ISO,ISS)
negative regulation of response to endoplasmic reticulum stress  (IEA,ISO)
neuron projection morphogenesis  (IMP)
positive regulation of amyloid-beta formation  (IEA,ISO,ISS)
positive regulation of apoptotic process  (IEA,ISO,ISS)
positive regulation of cell differentiation  (IMP)
positive regulation of cell population proliferation  (IMP)
positive regulation of gene expression  (IGI)
positive regulation of intrinsic apoptotic signaling pathway  (ISO,ISS)
positive regulation of neurofibrillary tangle assembly  (IEA,ISO,ISS)
positive regulation of neuron death  (IEA,IGI,ISO,ISS)
positive regulation of NF-kappaB transcription factor activity  (IEA,ISO,ISS)
positive regulation of nitric oxide biosynthetic process  (IEA,ISO,ISS)
positive regulation of proteasomal ubiquitin-dependent protein catabolic process  (IBA,IEA,ISO,ISS)
positive regulation of protein-containing complex assembly  (IEA,ISO)
positive regulation of receptor-mediated endocytosis  (IEA,ISO,ISS)
positive regulation of tau-protein kinase activity  (IEA,ISO,ISS)
positive regulation of tumor necrosis factor production  (IEA,ISO,ISS)
positive regulation of ubiquitin-dependent protein catabolic process  (ISO,ISS)
protein import  (IEA,ISO,ISS)
protein stabilization  (IDA,IEA,ISO,ISS)
protein targeting to lysosome involved in chaperone-mediated autophagy  (ISO)
regulation of amyloid-beta clearance  (IEA,ISO,ISS)
regulation of apoptotic process  (IBA)
regulation of cell population proliferation  (IEA,ISO,ISS)
regulation of neuron death  (ISO,ISS)
regulation of neuronal signal transduction  (IEA,ISO,ISS)
response to light stimulus  (IEP)
response to misfolded protein  (IEA,ISO,ISS)
response to potassium ion  (IEP)
response to virus  (IEA,ISO)
response to wounding  (IEP)
spermatogenesis  (IEA)

Cellular Component

References

References - curated
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79. Yu HR, etal., Pediatr Cardiol. 2010 Nov;31(8):1151-6. doi: 10.1007/s00246-010-9769-7. Epub 2010 Aug 15.
80. Zenkel M, etal., Invest Ophthalmol Vis Sci. 2006 May;47(5):1982-90.
81. Zhang Q, etal., Biomark Med. 2014 Jan;8(1):85-94. doi: 10.2217/bmm.13.106.
Additional References at PubMed
PMID:2299741   PMID:3415696   PMID:9228033   PMID:10066740   PMID:10694874   PMID:10837345   PMID:11123922   PMID:11697889   PMID:11865066   PMID:12047389   PMID:12145324   PMID:12176985  
PMID:12551933   PMID:14741101   PMID:15857407   PMID:15897157   PMID:15994859   PMID:16113678   PMID:16157419   PMID:16336210   PMID:16452087   PMID:16502470   PMID:16548883   PMID:16682745  
PMID:17412999   PMID:17451556   PMID:17455085   PMID:17567961   PMID:17689225   PMID:18321852   PMID:18942093   PMID:19056867   PMID:19137541   PMID:19199708   PMID:19878774   PMID:19996109  
PMID:20068069   PMID:20551380   PMID:20692254   PMID:21212797   PMID:21397462   PMID:21505792   PMID:21536718   PMID:21543606   PMID:21567405   PMID:21803450   PMID:21995960   PMID:22130675  
PMID:22138303   PMID:22179788   PMID:22197644   PMID:22516433   PMID:22689054   PMID:23106396   PMID:23376485   PMID:23533145   PMID:23658023   PMID:24006456   PMID:24080898   PMID:24446231  
PMID:25051234   PMID:25148511   PMID:25402950   PMID:25661013   PMID:25778834   PMID:26391229   PMID:26709877   PMID:26962868   PMID:27068509   PMID:27477018   PMID:27559042   PMID:29867124  
PMID:30111670   PMID:31113434   PMID:31406108   PMID:31882899  


Genomics

Comparative Map Data
Clu
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21540,161,068 - 40,200,315 (+)NCBI
Rnor_6.0 Ensembl1542,640,146 - 42,665,857 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01542,626,612 - 42,665,858 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01548,926,511 - 48,965,757 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41545,365,779 - 45,405,314 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11545,381,558 - 45,421,094 (+)NCBI
Celera1539,832,711 - 39,871,901 (+)NCBICelera
Cytogenetic Map15p12NCBI
CLU
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl827,596,917 - 27,614,700 (-)EnsemblGRCh38hg38GRCh38
GRCh38827,596,917 - 27,614,700 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37827,454,434 - 27,472,217 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36827,510,368 - 27,528,244 (-)NCBINCBI36hg18NCBI36
Build 34827,510,367 - 27,524,855NCBI
Celera826,414,541 - 26,432,416 (-)NCBI
Cytogenetic Map8p21.1NCBI
HuRef825,999,468 - 26,017,387 (-)NCBIHuRef
CHM1_1827,656,307 - 27,674,217 (-)NCBICHM1_1
Clu
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391466,205,932 - 66,218,997 (+)NCBIGRCm39mm39
GRCm39 Ensembl1466,205,932 - 66,218,996 (+)Ensembl
GRCm381465,968,483 - 65,981,548 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1465,968,483 - 65,981,547 (+)EnsemblGRCm38mm10GRCm38
MGSCv371466,587,320 - 66,600,382 (+)NCBIGRCm37mm9NCBIm37
MGSCv361464,922,735 - 64,935,658 (+)NCBImm8
Celera1451,264,543 - 51,272,775 (-)NCBICelera
Cytogenetic Map14D1NCBI
cM Map1434.36NCBI
Clu
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540350,160,598 - 50,175,876 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540350,160,598 - 50,175,876 (-)NCBIChiLan1.0ChiLan1.0
CLU
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1824,070,053 - 24,086,934 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl824,070,053 - 24,083,523 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0826,867,973 - 26,884,838 (-)NCBIMhudiblu_PPA_v0panPan3
CLU
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12529,982,811 - 29,999,565 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2529,982,811 - 29,999,563 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2530,569,577 - 30,586,344 (+)NCBI
ROS_Cfam_1.02530,173,217 - 30,190,014 (+)NCBI
UMICH_Zoey_3.12530,103,442 - 30,120,185 (+)NCBI
UNSW_CanFamBas_1.02529,984,486 - 30,001,273 (+)NCBI
UU_Cfam_GSD_1.02530,150,889 - 30,167,668 (+)NCBI
Clu
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049438,072,565 - 8,086,406 (+)NCBI
SpeTri2.0NW_004936675499,745 - 513,515 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLU
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1411,336,590 - 11,352,475 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11411,336,585 - 11,352,569 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21412,516,644 - 12,527,851 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLU
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1825,704,441 - 25,721,789 (-)NCBI
ChlSab1.1 Ensembl825,703,257 - 25,721,789 (-)Ensembl
Vero_WHO_p1.0NW_02366605216,420,009 - 16,437,520 (+)NCBI
Clu
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475822,431,331 - 22,444,185 (-)NCBI

Position Markers
D15Wox2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21540,193,236 - 40,193,417 (+)MAPPER
Rnor_6.01542,658,780 - 42,658,960NCBIRnor6.0
Rnor_5.01548,933,409 - 48,933,589UniSTSRnor5.0
RGSC_v3.41545,398,245 - 45,398,426RGDRGSC3.4
RGSC_v3.41545,398,246 - 45,398,426UniSTSRGSC3.4
RGSC_v3.11545,414,025 - 45,414,206RGD
Celera1539,864,833 - 39,865,013UniSTS
RH 3.4 Map15313.2UniSTS
RH 3.4 Map15313.2RGD
RH 2.0 Map15293.1RGD
Cytogenetic Map15p12UniSTS
D15Rat144  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21540,159,442 - 40,159,783 (+)MAPPER
Rnor_6.01542,624,987 - 42,625,327NCBIRnor6.0
Rnor_5.01548,967,041 - 48,967,382NCBIRnor5.0
RGSC_v3.41545,364,154 - 45,364,494UniSTSRGSC3.4
Celera1539,831,086 - 39,831,426UniSTS
SHRSP x BN Map1533.5499UniSTS
SHRSP x BN Map1533.5499RGD
Cytogenetic Map15p12UniSTS
D15Rat147  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21540,159,442 - 40,159,780 (+)MAPPER
Rnor_6.01542,624,987 - 42,625,324NCBIRnor6.0
Rnor_5.01548,967,044 - 48,967,382NCBIRnor5.0
RGSC_v3.41545,364,154 - 45,364,491UniSTSRGSC3.4
RGSC_v3.11545,379,921 - 45,380,573RGD
Celera1539,831,086 - 39,831,423UniSTS
SHRSP x BN Map1534.6299UniSTS
SHRSP x BN Map1534.6299RGD
Cytogenetic Map15p12UniSTS
D15Wox8  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21540,185,285 - 40,185,562 (+)MAPPER
Rnor_6.01542,650,827 - 42,651,103NCBIRnor6.0
Rnor_5.01548,941,266 - 48,941,542UniSTSRnor5.0
RGSC_v3.41545,390,293 - 45,390,569UniSTSRGSC3.4
Celera1539,856,943 - 39,857,219UniSTS
Cytogenetic Map15p12UniSTS
BE111829  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21540,191,060 - 40,191,243 (+)MAPPER
Rnor_6.01542,656,604 - 42,656,786NCBIRnor6.0
Rnor_5.01548,935,583 - 48,935,765UniSTSRnor5.0
RGSC_v3.41545,396,070 - 45,396,252UniSTSRGSC3.4
Celera1539,862,657 - 39,862,839UniSTS
RH 3.4 Map15310.2UniSTS
Cytogenetic Map15p12UniSTS
RH94609  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21540,200,124 - 40,200,297 (+)MAPPER
Rnor_6.01542,665,668 - 42,665,840NCBIRnor6.0
Rnor_5.01548,926,529 - 48,926,701UniSTSRnor5.0
RGSC_v3.41545,405,134 - 45,405,306UniSTSRGSC3.4
Celera1539,871,721 - 39,871,893UniSTS
Cytogenetic Map15p12UniSTS
Clu  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21540,198,817 - 40,199,676 (+)MAPPER
Rnor_6.01542,664,361 - 42,665,219NCBIRnor6.0
Rnor_5.01548,927,150 - 48,928,008UniSTSRnor5.0
RGSC_v3.41545,403,827 - 45,404,685UniSTSRGSC3.4
Celera1539,870,414 - 39,871,272UniSTS
Cytogenetic Map15p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
731170Pur3Proteinuria QTL 32.30.0005urine protein amount (VT:0005160)urine protein excretion rate (CMO:0000759)15142844179Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15143521446Rat
2298549Neuinf12Neuroinflammation QTL 123.5nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)15162301382Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15232787753535766Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15388113148881131Rat
1582251Gluco24Glucose level QTL 243.20.0008blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)151071919155719191Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151549236072568189Rat
9590272Scort14Serum corticosterone level QTL 142.780.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)151698090761980907Rat
8694427Bw163Body weight QTL 1634.820.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)151698090761980907Rat
2300167Bmd63Bone mineral density QTL 635.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)151724964162249641Rat
2300173Bmd62Bone mineral density QTL 6212.80.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)151724964162249641Rat
2293688Bss29Bone structure and strength QTL 295.310.0001femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)151724964162249641Rat
1331729Rf42Renal function QTL 423.071kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)151809320881255430Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151851391388036354Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152102134252831189Rat
10755503Bp391Blood pressure QTL 3912.37arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)152377896946825072Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1526381041106550657Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1526381041106550657Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1526381041106550657Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152870974173709741Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)153321910189640841Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)153321910189640841Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)153321910189640841Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)153321910189640841Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)153321910189640841Rat
631273Lecl2Lens clarity QTL 20.001lens clarity trait (VT:0001304)age of onset/diagnosis of cataract (CMO:0001584)153948079762596410Rat
2293686Bmd36Bone mineral density QTL 367.40.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)153974955779033707Rat
2293691Bmd37Bone mineral density QTL 376.60.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)153974955779033707Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154106809486068094Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:41
Interacting mature miRNAs:44
Transcripts:ENSRNOT00000022095
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 5 10 2 2 2 3
Medium 3 40 55 39 19 39 8 11 62 35 36 11 8
Low 10 2
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053021 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006252094 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039092999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF314657 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC061534 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474023 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209467 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209498 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209623 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ209843 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ211071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213163 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213433 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214098 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ214117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218237 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218483 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218812 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219030 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000270 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M16975 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M64723 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M64733 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U02391 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X13231 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000022095   ⟹   ENSRNOP00000022095
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1542,653,148 - 42,665,857 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000078861   ⟹   ENSRNOP00000072116
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1542,640,146 - 42,665,848 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000091612   ⟹   ENSRNOP00000075645
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1542,659,371 - 42,665,853 (+)Ensembl
RefSeq Acc Id: NM_053021   ⟹   NP_444180
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21540,161,068 - 40,200,305 (+)NCBI
Rnor_6.01542,626,612 - 42,665,848 (+)NCBI
Rnor_5.01548,926,511 - 48,965,757 (-)NCBI
RGSC_v3.41545,365,779 - 45,405,314 (+)RGD
Celera1539,832,711 - 39,871,901 (+)RGD
Sequence:
RefSeq Acc Id: XM_006252094   ⟹   XP_006252156
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21540,187,496 - 40,200,315 (+)NCBI
Rnor_6.01542,653,045 - 42,665,858 (+)NCBI
Rnor_5.01548,926,511 - 48,965,757 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039092999   ⟹   XP_038948927
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21540,187,496 - 40,199,791 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_444180   ⟸   NM_053021
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: XP_006252156   ⟸   XM_006252094
- Peptide Label: isoform X1
- UniProtKB: G3V836 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000022095   ⟸   ENSRNOT00000022095
RefSeq Acc Id: ENSRNOP00000072116   ⟸   ENSRNOT00000078861
RefSeq Acc Id: ENSRNOP00000075645   ⟸   ENSRNOT00000091612
RefSeq Acc Id: XP_038948927   ⟸   XM_039092999
- Peptide Label: isoform X2
Protein Domains
CLa   CLb

Transcriptome

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

Promoters
RGD ID:13699765
Promoter ID:EPDNEW_R10275
Type:multiple initiation site
Name:Clu_1
Description:clusterin
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01542,653,148 - 42,653,208EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3907 AgrOrtholog
Ensembl Genes ENSRNOG00000016460 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000022095 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000072116 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000075645 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022095 UniProtKB/TrEMBL
  ENSRNOT00000078861 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000091612 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6886725 IMAGE-MGC_LOAD
InterPro Clusterin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clusterin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clusterin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clusterin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Clusterin_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24854 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72717 IMAGE-MGC_LOAD
NCBI Gene 24854 ENTREZGENE
PANTHER PTHR10970 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10970:SF1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Clusterin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Clu PhenoGen
PIRSF Clusterin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE CLUSTERIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CLUSTERIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CLa UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CLb UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2KB42_RAT UniProtKB/TrEMBL
  CLUS_RAT UniProtKB/Swiss-Prot
  G3V836 ENTREZGENE, UniProtKB/TrEMBL
  P05371 ENTREZGENE
  Q6P7S6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Clu  clusterin      Symbol and Name status set to approved 70586 APPROVED
2001-04-06 Trpm2  Testostrone-repressed prostate message 2      Symbol inconsistent with Human and Mouse 61478 WITHDRAWN
2001-04-06 Clu  Clusterin      Symbol and name changed to reflect Human and Mouse nomenclature 61478 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease increase is associataed with Alzheimers disease and scleroderma-polymyositis syndrome 61515
gene_disease increase is associataed with Alzheimers disease and scleroderma-polymyositis syndrome 70775
gene_expression highly expressed in the nasal epithelial cells of the male F344 rat 61515
gene_expression highly expressed in the nasal epithelial cells of the male F344 rat 70775
gene_expression expression in seminal vesicle is regulated by androgen 727693
gene_process may be involved in spermatogenesis 61515
gene_process may be involved in spermatogenesis 70775
gene_process may be involved in apoptosis 727693