Spp1 (secreted phosphoprotein 1) - Rat Genome Database
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Gene: Spp1 (secreted phosphoprotein 1) Rattus norvegicus
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Symbol: Spp1
Name: secreted phosphoprotein 1
RGD ID: 3752
Description: Predicted to have extracellular matrix binding activity and integrin binding activity. Involved in several processes, including negative regulation of collateral sprouting of intact axon in response to injury; osteoblast differentiation; and positive regulation of bone resorption. Localizes to several cellular components, including extracellular space; perinuclear region of cytoplasm; and vesicle. Used to study several diseases, including encephalomyelitis; myocarditis; radiculopathy; renovascular hypertension; and visual epilepsy. Biomarker of autosomal dominant polycystic kidney disease; calcinosis; and glomerulosclerosis. Human ortholog(s) of this gene implicated in several diseases, including autoimmune disease (multiple); biliary atresia; coronary artery disease (multiple); disease of cellular proliferation (multiple); and hepatitis. Orthologous to human SPP1 (secreted phosphoprotein 1); PARTICIPATES IN diabetic nephropathy pathway; c-Jun N-terminal kinases MAPK signaling pathway; fibroblast growth factor signaling pathway; INTERACTS WITH (S)-naringenin; 1,3,5-trinitro-1,3,5-triazinane; 1-chloro-2,4-dinitrobenzene.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: bone sialoprotein 1; LOC100359743; OSP; osteopontin; osteopontin-like; Sialoprotein (osteopontin); SPP-1
Orthologs:
Homo sapiens (human) : SPP1 (secreted phosphoprotein 1)  HGNC  Alliance
Mus musculus (house mouse) : Spp1 (secreted phosphoprotein 1)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Spp1 (secreted phosphoprotein 1)
Pan paniscus (bonobo/pygmy chimpanzee) : SPP1 (secreted phosphoprotein 1)
Canis lupus familiaris (dog) : SPP1 (secreted phosphoprotein 1)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Spp1 (secreted phosphoprotein 1)
Sus scrofa (pig) : SPP1 (secreted phosphoprotein 1)
Chlorocebus sabaeus (African green monkey) : SPP1 (secreted phosphoprotein 1)
Heterocephalus glaber (naked mole-rat) : Spp1 (secreted phosphoprotein 1)
more info ...
Allele / Splice: Spp1em1Mcwi   spp1em3Mcwi   Spp1em4Mcwi   Spp1em2Mcwi  
Genetic Models: SS-Spp1em3Mcwi SHRSP-Spp1em2Mcwi SHRSP-Spp1em1Mcwi SS-Spp1em4Mcwi
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
NCBI Annotation Information: Annotation category: suggests misassembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0146,673,686 - 6,679,965 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl146,673,686 - 6,679,901 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0146,653,086 - 6,658,937 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.1146,422,741 - 6,426,400 (-)NCBI
Celera145,447,814 - 5,453,553 (-)NCBICelera
Cytogenetic Map14p22NCBI
RH 3.4 Map1484.5RGD
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
acute kidney failure  (ISO)
adenocarcinoma  (ISO)
Albuminuria  (IEP)
Alcoholic Liver Diseases  (ISO)
allergic contact dermatitis  (ISO)
allergic disease  (ISO)
Aneurysm  (ISO)
Angina Pectoris  (ISO)
anti-basement membrane glomerulonephritis  (ISO)
asbestosis  (ISO)
autosomal dominant polycystic kidney disease  (IEP,ISO)
biliary atresia  (ISO)
Brain Neoplasms  (ISO)
Breast Neoplasms  (ISO)
calcinosis  (IEP,ISO)
Cardiomegaly  (ISO)
carotid stenosis  (ISO)
Cerebral Hemorrhage  (ISO)
Chemical and Drug Induced Liver Injury  (ISO)
Chronic Hepatitis C  (ISO)
coronary artery disease  (ISO)
coronary restenosis  (ISO)
Cystic, Mucinous, and Serous Neoplasms  (ISO)
Diabetes Mellitus, Experimental  (IDA)
Diabetic Cardiomyopathies  (ISO)
Diabetic Nephropathies  (IDA)
disease of cellular proliferation  (ISO)
Drug-Related Side Effects and Adverse Reactions  (ISO)
encephalomyelitis  (IDA)
Endometrioid Carcinomas  (ISO)
Experimental Autoimmune Neuritis  (IDA)
Experimental Liver Cirrhosis  (IDA)
Experimental Liver Neoplasms  (ISO)
Experimental Neoplasms  (ISO)
Fibrosis  (ISO)
focal segmental glomerulosclerosis  (ISO)
Foreign-Body Reaction  (ISO)
glomerulonephritis  (IMP)
glomerulosclerosis  (IEP)
heart disease  (ISO)
heart valve disease  (ISO)
hepatitis  (ISO)
hepatocellular carcinoma  (ISO)
Inflammation  (ISO)
Kidney Calculi  (IEP,ISO)
kidney disease  (ISO)
kidney failure  (ISO)
Laryngeal Neoplasms  (ISO)
Leukoencephalopathies  (ISO)
liver cirrhosis  (ISO)
Lung Neoplasms  (ISO)
lung non-small cell carcinoma  (ISO)
malaria  (ISO)
malignant glioma  (IDA,ISO)
Mammary Neoplasms, Experimental  (ISO)
melanoma  (ISO)
Mesothelioma  (ISO)
multiple myeloma  (ISO)
multiple sclerosis  (ISO)
myocardial infarction  (ISO)
Myocardial Reperfusion Injury  (ISO)
myocarditis  (IDA)
Neoplasm Metastasis  (ISO)
Neovascularization, Pathologic  (ISO)
Nervous System Trauma  (IDA)
Osteolysis  (ISO)
Ovarian Neoplasms  (ISO)
pancreas disease  (ISO)
pancreatic cancer  (ISO)
Pleural Neoplasms  (ISO)
pneumonia  (ISO)
progressive osseous heteroplasia  (ISO)
prostate carcinoma  (ISO)
Prostatic Neoplasms  (ISO)
proteinuria  (ISO)
pulmonary fibrosis  (ISO)
radiculopathy  (IDA)
renovascular hypertension  (IDA)
Reperfusion Injury  (ISO)
rheumatoid arthritis  (ISO)
scrapie  (ISO)
Spinal Cord Injuries  (ISO)
Stomach Neoplasms  (ISO)
Thyroid Neoplasms  (ISO)
tuberculosis  (ISO)
uremia  (ISO)
urinary bladder cancer  (ISO)
Urinary Calculi  (ISO)
Vascular System Injuries  (ISO)
visual epilepsy  (IDA)
Wounds and Injuries  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-naringenin  (EXP)
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3,5-trinitro-1,3,5-triazinane  (EXP)
1,4-dichlorobenzene  (ISO)
1-chloro-2,4-dinitrobenzene  (EXP)
1-fluoro-2,4-dinitrobenzene  (ISO)
1-methylphenanthrene  (ISO)
1-naphthyl isothiocyanate  (EXP,ISO)
1-nitropyrene  (ISO)
11-deoxycorticosterone  (EXP)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
1H-[1,2,4]oxadiazolo[4,3-a]quinoxalin-1-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP,ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3-dimethoxynaphthalene-1,4-dione  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
2,6-di-tert-butyl-4-methylphenol  (ISO)
2-amino-2-deoxy-D-galactopyranose  (ISO)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP,ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-aminobenzamide  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (EXP)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-aminophenol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP,ISO)
8-Br-cAMP  (EXP,ISO)
8-bromo-3',5'-cyclic GMP  (EXP)
9-cis-retinoic acid  (ISO)
acetaldehyde  (ISO)
acetylsalicylic acid  (EXP)
acrylic acid  (EXP)
adefovir  (EXP)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (EXP,ISO)
allyl alcohol  (EXP)
aluminium oxide  (ISO)
aminoglutethimide  (EXP)
ammonium chloride  (EXP)
amphotericin B  (EXP)
amphotericin B methyl ester  (ISO)
Anacardic acid  (ISO)
andrographolide  (ISO)
aniline  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (EXP,ISO)
anthracen-2-amine  (EXP)
aristolochic acid  (EXP)
Aroclor 1254  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
asperentin  (ISO)
astaxanthin  (ISO)
aucubin  (ISO)
bacitracin  (EXP)
benazepril  (EXP)
benzo[a]pyrene  (EXP,ISO)
benzo[b]fluoranthene  (EXP,ISO)
berberine  (ISO)
beta-naphthoflavone  (ISO)
bexarotene  (EXP)
bezafibrate  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bleomycin A2  (ISO)
bortezomib  (ISO)
budesonide  (ISO)
Butylparaben  (ISO)
butyric acid  (EXP)
C60 fullerene  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP)
calciol  (ISO)
calcitriol  (EXP,ISO)
calcium atom  (EXP,ISO)
calcium carbonate  (ISO)
calcium(0)  (EXP,ISO)
capsaicin  (EXP)
carbamazepine  (ISO)
carbofuran  (EXP)
carbon nanotube  (EXP,ISO)
celecoxib  (EXP)
ceric oxide  (EXP)
chitosan  (ISO)
chloroprene  (ISO)
chlorpromazine  (ISO)
choline  (ISO)
chrysene  (ISO)
cisplatin  (EXP,ISO)
Clofop  (ISO)
clozapine  (ISO)
cobalt atom  (ISO)
cobalt dichloride  (EXP,ISO)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
crocidolite asbestos  (ISO)
curcumin  (EXP)
cyanuric acid  (EXP)
cyclophosphamide  (EXP,ISO)
cyclosporin A  (EXP,ISO)
cypermethrin  (ISO)
D-glucose  (EXP,ISO)
DDT  (EXP,ISO)
decabromodiphenyl ether  (EXP)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
diamminedichloroplatinum  (ISO)
diarsenic trioxide  (ISO)
dibenz[a,h]anthracene  (EXP,ISO)
dibenzo[a,l]pyrene  (EXP)
dibutyl phthalate  (EXP)
diethylstilbestrol  (ISO)
dioxygen  (EXP,ISO)
dipyridamole  (EXP)
disodium selenite  (ISO)
divanadium pentaoxide  (EXP)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
elemental selenium  (ISO)
enalapril  (EXP,ISO)
endosulfan  (EXP)
entinostat  (ISO)
Erionite  (ISO)
ethanol  (EXP,ISO)
ethylene glycol  (EXP)
etoposide  (ISO)
Falecalcitriol  (ISO)
flavonoids  (EXP)
flunisolide  (ISO)
fluoranthene  (ISO)
fluvastatin  (EXP)
folic acid  (ISO)
fulvestrant  (EXP)
furan  (EXP)
gadodiamide hydrate  (EXP)
gallocatechin  (EXP)
gemcitabine  (ISO)
genistein  (EXP,ISO)
gentamycin  (EXP)
Ginkgoic acid  (ISO)
glucose  (EXP,ISO)
glycerol 2-phosphate  (ISO)
glyoxylic acid  (EXP)
graphite  (EXP,ISO)
griseofulvin  (ISO)
Hexachloro-1,3-butadiene  (EXP)
hydrogen peroxide  (EXP)
icariin  (EXP,ISO)
imperatorin  (EXP)
indole-3-methanol  (EXP)
iron(2+) sulfate (anhydrous)  (ISO)
isocyanuric acid  (EXP)
isoniazide  (EXP,ISO)
isonicotinamide  (ISO)
isoprenaline  (EXP,ISO)
isotretinoin  (ISO)
jaspamide  (ISO)
kaempferol  (ISO)
kojic acid  (ISO)
KT 5823  (EXP)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lipopolysaccharide  (ISO)
LY294002  (EXP)
magnesium atom  (ISO)
medroxyprogesterone acetate  (ISO)
melamine  (EXP)
mercury atom  (ISO)
mercury dibromide  (ISO)
mercury dichloride  (EXP,ISO)
mercury(0)  (ISO)
mesalamine  (EXP)
metaproterenol  (EXP)
methapyrilene  (EXP)
methylmercury chloride  (EXP,ISO)
methylparaben  (ISO)
milrinone  (EXP)
mitoxantrone  (EXP)
mometasone furoate  (ISO)
mycophenolic acid  (ISO)
mycotoxin  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (EXP)
N-acetyl-L-cysteine  (EXP)
N-ethyl-N-nitrosourea  (EXP)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-methyl-N-nitrosourea  (EXP)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (ISO)
naproxen  (EXP)
naringin  (EXP,ISO)
Natamycin  (ISO)
neoechinulin A  (ISO)
nickel atom  (ISO)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
nicotine  (ISO)
nifedipine  (ISO)
nitric oxide  (ISO)
nitroprusside  (ISO)
nystatin  (ISO)
O-methyleugenol  (ISO)
ochratoxin A  (EXP,ISO)
okadaic acid  (ISO)
orciprenaline  (EXP)
oxalic acid  (ISO)
oxaliplatin  (EXP)
oxidopamine  (EXP)
ozone  (EXP,ISO)
p-chloromercuribenzoic acid  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
paricalcitol  (ISO)
PD 0325901  (ISO)
PD123319  (EXP)
pentane-2,3-dione  (EXP)
Pentoxifylline  (EXP)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
phenobarbital  (ISO)
phenylephrine  (EXP)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
phosphonoformic acid  (ISO)
phosphorus atom  (ISO)
phosphorus(.)  (ISO)
phylloquinone  (ISO)
pioglitazone  (EXP)
pirinixic acid  (ISO)
piroxicam  (ISO)
potassium bromate  (EXP,ISO)
progesterone  (ISO)
protein kinase inhibitor  (ISO)
Ptaquiloside  (ISO)
pyrrolidine dithiocarbamate  (EXP)
quartz  (EXP)
quercetin  (EXP,ISO)
raloxifene  (ISO)
resveratrol  (EXP,ISO)
rolipram  (EXP)
rotenone  (EXP,ISO)
S-butyl-DL-homocysteine (S,R)-sulfoximine  (ISO)
Salidroside  (ISO)
Salinomycin  (ISO)
SB 203580  (EXP)
SB 431542  (ISO)
Se-methyl-L-selenocysteine  (ISO)
Se-methylselenocysteine  (ISO)
selenium atom  (ISO)
serpentine asbestos  (ISO)
silicon dioxide  (EXP,ISO)
silver atom  (ISO)
silver(0)  (ISO)
simvastatin  (EXP,ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sodium fluoride  (EXP,ISO)
sterigmatocystin  (ISO)
streptozocin  (EXP)
strontium atom  (ISO)
succimer  (ISO)
sulfasalazine  (ISO)
sulforaphane  (ISO)
sumatriptan  (EXP)
SWINHOLIDE A  (ISO)
tacrolimus hydrate  (EXP)
tamibarotene  (ISO)
tamoxifen  (ISO)
Tanshinone I  (EXP)
Tesaglitazar  (EXP)
tetrachloromethane  (EXP,ISO)
tetracycline  (ISO)
thioacetamide  (EXP)
thiourea  (ISO)
titanium atom  (EXP)
titanium dioxide  (EXP,ISO)
topotecan  (EXP,ISO)
transplatin  (ISO)
tremolite asbestos  (ISO)
trichloroethene  (ISO)
trichostatin A  (ISO)
trimethyltin  (ISO)
troglitazone  (EXP,ISO)
tubocurarine  (ISO)
Tungsten carbide  (ISO)
uranium atom  (ISO)
urethane  (ISO)
valproic acid  (ISO)
valsartan  (EXP)
vanadyl sulfate  (EXP)
vancomycin  (EXP,ISO)
vitamin D  (ISO)
vitamin K  (EXP)
vorinostat  (ISO)
warfarin  (EXP,ISO)
zinc atom  (ISO)
zinc dichloride  (ISO)
zinc(0)  (ISO)


Cellular Component

Molecular Function

References

References - curated
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67. Takahashi F, etal., Int J Cancer. 2002 Apr 10;98(5):707-12.
68. Tamura A, etal., Circ J. 2003 Sep;67(9):742-4.
69. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
70. Tsai AT, etal., Biomaterials. 2005 Oct;26(29):5835-43. Epub 2005 Apr 21.
71. Vernon HJ, etal., Kidney Int. 2005 Sep;68(3):938-47.
72. Wejheden C, etal., Biochem Biophys Res Commun. 2006 Mar 3;341(1):116-20. Epub 2006 Jan 6.
73. Whitington PF, etal., Pediatr Res. 2005 Jun;57(6):837-44. Epub 2005 Apr 21.
74. Xie Z, etal., Hypertension. 2004 Dec;44(6):826-31. Epub 2004 Nov 8.
75. Xie Z, etal., J Biol Chem. 2003 Dec 5;278(49):48546-52. Epub 2003 Sep 18.
76. Xu G, etal., J Clin Invest. 2005 Apr;115(4):1060-7. Epub 2005 Mar 3.
77. Yan X, etal., Cardiovasc Diabetol. 2010 Oct 29;9:70.
78. Ye B, etal., Clin Cancer Res. 2006 Jan 15;12(2):432-41.
79. Yu DW, etal., J Invest Dermatol 2001 Dec;117(6):1554-8.
80. Zaravinos A, etal., PLoS One. 2011 Apr 5;6(4):e18255.
81. Zhang ZX, etal., J Immunol. 2010 Jul 15;185(2):967-73. Epub 2010 Jun 14.
82. Zhou C, etal., Am J Nephrol. 2010;32(4):324-31. Epub 2010 Aug 19.
83. Zhu XL, etal., Biochem Cell Biol 2001;79(6):737-46.
84. Zohar R, etal., Am J Physiol Heart Circ Physiol. 2004 Oct;287(4):H1730-9. Epub 2004 May 27.
85. Zuo J, etal., Nephrol Dial Transplant. 2011 Jun;26(6):1785-96. Epub 2011 Mar 4.
Additional References at PubMed
PMID:2736258   PMID:3167835   PMID:3469201   PMID:8408622   PMID:8889548   PMID:11967208   PMID:12505755   PMID:15121739   PMID:15153550   PMID:15482851   PMID:15489334   PMID:15516325  
PMID:15548430   PMID:15557322   PMID:15865444   PMID:16187297   PMID:16253490   PMID:16502470   PMID:16518820   PMID:16720713   PMID:16753026   PMID:16807234   PMID:16883060   PMID:17546625  
PMID:17643430   PMID:17868879   PMID:17898038   PMID:17973907   PMID:18036861   PMID:18041732   PMID:18158341   PMID:18180311   PMID:18235026   PMID:18378437   PMID:18415800   PMID:18471361  
PMID:18638458   PMID:18703563   PMID:18703867   PMID:18712054   PMID:18728346   PMID:18757743   PMID:19032867   PMID:19076167   PMID:19124839   PMID:19686792   PMID:19723557   PMID:19901966  
PMID:20211246   PMID:20392802   PMID:20396353   PMID:20407481   PMID:20417179   PMID:20439489   PMID:20450731   PMID:20596651   PMID:20626561   PMID:20714131   PMID:20838370   PMID:21264948  
PMID:21283687   PMID:21321126   PMID:21806466   PMID:21940634   PMID:21949681   PMID:22036853   PMID:22049796   PMID:22087764   PMID:22496158   PMID:22552891   PMID:22692550   PMID:22779921  
PMID:22814749   PMID:22847642   PMID:23161527   PMID:23241663   PMID:23376485   PMID:23457612   PMID:23466073   PMID:23467880   PMID:23498805   PMID:23533145   PMID:23788374   PMID:24247243  
PMID:24449951   PMID:24687376   PMID:24841674   PMID:25146847   PMID:25467747   PMID:25839998   PMID:26099282   PMID:26216642   PMID:26482249   PMID:26581507   PMID:27026710   PMID:27089830  
PMID:27262843   PMID:27486809   PMID:27585571   PMID:27659347   PMID:27717860   PMID:27743892   PMID:28270094   PMID:28302392   PMID:28442375   PMID:28978514   PMID:29337251   PMID:29602294  
PMID:30758811   PMID:30893567   PMID:31544532   PMID:31914633  


Genomics

Comparative Map Data
Spp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0146,673,686 - 6,679,965 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl146,673,686 - 6,679,901 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0146,653,086 - 6,658,937 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.1146,422,741 - 6,426,400 (-)NCBI
Celera145,447,814 - 5,453,553 (-)NCBICelera
Cytogenetic Map14p22NCBI
RH 3.4 Map1484.5RGD
SPP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl487,975,650 - 87,983,426 (+)EnsemblGRCh38hg38GRCh38
GRCh38487,975,714 - 87,983,411 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37488,896,802 - 88,904,563 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36489,115,826 - 89,123,587 (+)NCBINCBI36hg18NCBI36
Build 34489,253,980 - 89,261,741NCBI
Celera486,188,727 - 86,196,490 (+)NCBI
Cytogenetic Map4q22.1NCBI
HuRef484,643,231 - 84,650,994 (+)NCBIHuRef
CHM1_1488,873,591 - 88,881,352 (+)NCBICHM1_1
Spp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395104,582,977 - 104,588,919 (+)NCBI
GRCm385104,435,111 - 104,441,053 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5104,435,118 - 104,441,050 (+)EnsemblGRCm38mm10GRCm38
MGSCv375104,864,137 - 104,870,069 (+)NCBIGRCm37mm9NCBIm37
MGSCv365104,657,300 - 104,681,345 (+)NCBImm8
Celera5101,744,286 - 101,750,760 (+)NCBICelera
Cytogenetic Map5E5NCBI
cM Map550.68NCBI
Spp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554741,913,829 - 1,922,016 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554741,914,477 - 1,922,025 (-)NCBIChiLan1.0ChiLan1.0
SPP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1490,988,200 - 90,995,935 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl490,988,200 - 90,995,935 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0480,263,711 - 80,271,466 (+)NCBI
SPP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl3211,353,953 - 11,362,069 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.13211,354,070 - 11,362,325 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Spp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_004936905148,956 - 156,023 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SPP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8131,077,786 - 131,085,340 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18131,077,786 - 131,085,334 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28140,307,933 - 140,315,453 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap8qNCBI
SPP1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl736,338,386 - 36,344,407 (+)Ensembl
ChlSab1.1736,337,165 - 36,344,927 (+)NCBI
Spp1
(Heterocephalus glaber - naked mole-rat)
No map positions available.

Position Markers
RH94678  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0146,673,810 - 6,673,974NCBIRnor6.0
Rnor_5.0146,653,210 - 6,653,374UniSTSRnor5.0
Celera145,447,938 - 5,448,102UniSTS
Cytogenetic Map14p22UniSTS
RH 3.4 Map1484.5UniSTS
RH129494  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0146,673,818 - 6,674,035NCBIRnor6.0
Rnor_5.0146,653,218 - 6,653,435UniSTSRnor5.0
Celera145,447,946 - 5,448,163UniSTS
Cytogenetic Map14p22UniSTS
RH136964  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0146,673,692 - 6,673,901NCBIRnor6.0
Rnor_5.0146,653,092 - 6,653,301UniSTSRnor5.0
Celera145,447,820 - 5,448,029UniSTS
Cytogenetic Map14p22UniSTS
RH 3.4 Map1488.1UniSTS
PMC316977P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0146,674,226 - 6,674,570NCBIRnor6.0
Rnor_5.0146,653,626 - 6,653,970UniSTSRnor5.0
Celera145,448,354 - 5,448,698UniSTS
Cytogenetic Map14p22UniSTS
UniSTS:280407  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0146,675,426 - 6,676,829NCBIRnor6.0
Rnor_5.0146,654,826 - 6,656,229UniSTSRnor5.0
RGSC_v3.4146,423,677 - 6,425,080UniSTSRGSC3.4
Celera145,449,554 - 5,450,957UniSTS
Cytogenetic Map14p22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14127597761Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14127597761Rat
619619Rf4Renal disease susceptibility QTL 44.10.002total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14134403399Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14141333960Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14141333960Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14142766285Rat
71115Niddm15Non-insulin dependent diabetes mellitus QTL 154.8blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14222782512680613Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14222782519230541Rat
724541Niddm53Non-insulin dependent diabetes mellitus QTL 530.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14483323310729268Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)14483323319909932Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14483323319909932Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14483323323004027Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14483323326466248Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14483323333040042Rat


Genetic Models
This gene Spp1 is modified in the following models/strains
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:400
Count of miRNA genes:226
Interacting mature miRNAs:264
Transcripts:ENSRNOT00000067875
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


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 1
Medium 20 8 26 34 21 2
Low 2 21 41 33 16 33 8 10 48 20 9 8
Below cutoff 1 2 8 8 2 8 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000067875   ⟹   ENSRNOP00000062358
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl146,673,686 - 6,679,901 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000075989   ⟹   ENSRNOP00000068511
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl146,673,746 - 6,679,878 (-)Ensembl
RefSeq Acc Id: NM_012881   ⟹   NP_037013
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0146,673,686 - 6,679,921 (-)NCBI
Rnor_5.0146,653,086 - 6,658,937 (-)NCBI
Celera145,447,814 - 5,453,553 (-)RGD
Sequence:
RefSeq Acc Id: XM_008769996   ⟹   XP_008768218
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0146,673,686 - 6,679,965 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_037013   ⟸   NM_012881
- Peptide Label: precursor
- UniProtKB: P08721 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008768218   ⟸   XM_008769996
- Peptide Label: isoform X1
- UniProtKB: P08721 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000062358   ⟸   ENSRNOT00000067875
RefSeq Acc Id: ENSRNOP00000068511   ⟸   ENSRNOT00000075989

Transcriptome

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

Promoters
RGD ID:13699171
Promoter ID:EPDNEW_R9696
Type:multiple initiation site
Name:Spp1_1
Description:secreted phosphoprotein 1
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_6.0146,679,910 - 6,679,970EPDNEW

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)
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
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
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)
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
F344/NRrrc (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
FHH/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)
FHH/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
FHL/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)
FHL/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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
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:3752 AgrOrtholog
Ensembl Genes ENSRNOG00000043451 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000062358 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000068511 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000067875 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000075989 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7110677 IMAGE-MGC_LOAD
InterPro Osteopontin UniProtKB/Swiss-Prot
  Osteopontin_CS UniProtKB/Swiss-Prot
KEGG Report rno:25353 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93552 IMAGE-MGC_LOAD
NCBI Gene 25353 ENTREZGENE
PANTHER PTHR10607 UniProtKB/Swiss-Prot
Pfam Osteopontin UniProtKB/Swiss-Prot
PhenoGen Spp1 PhenoGen
PRINTS OSTEOPONTIN UniProtKB/Swiss-Prot
PROSITE OSTEOPONTIN UniProtKB/Swiss-Prot
SMART OSTEO UniProtKB/Swiss-Prot
TIGR TC216845
UniGene Rn.8871 ENTREZGENE
UniProt OSTP_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-29 Spp1  secreted phosphoprotein 1  LOC100359743  osteopontin-like  Data Merged 737654 PROVISIONAL
2010-05-06 LOC100359743  osteopontin-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2002-06-10 Spp1  secreted phosphoprotein 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization intracellular form colocalizes with CD44 730240
gene_expression expressed in osteoclasts 730240
gene_expression expressed in osteosarcoma cell line ROS 17/2.8 70021
gene_expression expressed in normal kidney cells and expressed at a lower level in Kirsten sarcoma virus-transformed kidney cells 729935
gene_expression expressed in vibrissa dermal papilla (hair follicle cells) but not detected in cultured skin fibroblasts 1299048
gene_function extracellular matrix protein that binds cells 70021
gene_process may serve to aggregate dermal papilla cells and may protect dermal papilla cells from cytokine- or hypoxia-induced apoptosis 1299048
gene_protein 317 amino acid protein; may be both O- and N-glycosylated 70021
gene_transcript alternative transcript produced in kidney cells which is not expressed in osteosarcoma cells 729935
 



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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.