Ucp1 (uncoupling protein 1) - Rat Genome Database

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Gene: Ucp1 (uncoupling protein 1) Rattus norvegicus
Analyze
Symbol: Ucp1
Name: uncoupling protein 1
RGD ID: 3931
Description: Enables GDP binding activity; GTP binding activity; and oxidative phosphorylation uncoupler activity. Involved in several processes, including cellular response to hormone stimulus; cellular response to lipid; and proton transmembrane transport. Located in mitochondrion. Biomarker of prediabetes syndrome. Human ortholog(s) of this gene implicated in hypertension and type 2 diabetes mellitus. Orthologous to human UCP1 (uncoupling protein 1); PARTICIPATES IN eicosanoid signaling pathway via peroxisome proliferator-activated receptor gamma; Huntington's disease pathway; INTERACTS WITH (+)-taxifolin; (R)-noradrenaline; (S)-naringenin.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LOC100909612; MGC108736; mitochondrial brown fat uncoupling protein 1; mitochondrial brown fat uncoupling protein 1-like; solute carrier family 25 member 7; thermogenin; Ucp; UCP 1; Ucpa; Uncoupling protein; uncoupling protein 1 (mitochondrial, proton carrier); uncoupling protein 1 mitochondrial; uncoupling protein 1, mitochondrial; Uncp
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21924,808,782 - 24,816,853 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1924,808,783 - 24,816,852 (-)Ensembl
Rnor_6.01924,456,976 - 24,464,808 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1924,456,976 - 24,464,807 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01935,434,980 - 35,442,812 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41926,527,548 - 26,535,621 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11926,532,373 - 26,540,447 (-)NCBI
Celera1924,348,444 - 24,356,517 (-)NCBICelera
Cytogenetic Map19q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-taxifolin  (EXP)
(R)-noradrenaline  (EXP,ISO)
(S)-naringenin  (EXP)
(S)-nicotine  (EXP,ISO)
15-acetyldeoxynivalenol  (ISO)
17beta-estradiol  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,4-dinitrophenol  (ISO)
3,3',5-triiodo-L-thyronine  (EXP,ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
9-cis-retinoic acid  (EXP,ISO)
abacavir  (ISO)
albuterol  (ISO)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (ISO)
all-trans-retinol  (EXP)
ammonium chloride  (EXP)
arotinoid acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
ATP  (EXP,ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bucladesine  (EXP)
capsaicin  (EXP)
carbon nanotube  (ISO)
chlordecone  (ISO)
chromium atom  (ISO)
chrysene  (ISO)
clenbuterol  (ISO)
clofibrate  (ISO)
cobalt dichloride  (ISO)
cortisol  (ISO)
curcumin  (ISO)
Cyclopamine  (ISO)
cyclophosphamide  (ISO)
D-glucose  (EXP,ISO)
dehydroepiandrosterone  (EXP)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dioxygen  (ISO)
divanadium pentaoxide  (ISO)
dorsomorphin  (ISO)
enniatin  (ISO)
flavonoids  (EXP)
fonofos  (ISO)
fructose  (EXP)
Ganoderic acid A  (ISO)
glucose  (EXP,ISO)
glutathione  (EXP)
harmine  (ISO)
hexadecanoic acid  (EXP)
Indeno[1,2,3-cd]pyrene  (ISO)
indinavir  (ISO)
indometacin  (ISO)
Iopanoic acid  (EXP)
isoprenaline  (EXP)
kaempferol  (EXP)
Licarin A  (ISO)
LY294002  (EXP)
mangiferin  (ISO)
mercury dichloride  (EXP)
methimazole  (EXP)
methoprene  (ISO)
methotrexate  (ISO)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N,N-diethyl-m-toluamide  (EXP)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (EXP,ISO)
nevirapine  (ISO)
nickel sulfate  (ISO)
nicotine  (EXP,ISO)
nicotinic acid  (ISO)
ochratoxin A  (ISO)
olanzapine  (EXP)
orlistat  (ISO)
ozone  (EXP,ISO)
paracetamol  (ISO)
parathion  (ISO)
PD 0325901  (ISO)
perfluorooctane-1-sulfonic acid  (EXP,ISO)
perfluorooctanoic acid  (ISO)
permethrin  (EXP)
pirinixic acid  (EXP,ISO)
platycodin D  (ISO)
Prenalterol  (ISO)
prostaglandin E2  (EXP)
protein kinase inhibitor  (ISO)
Pyridostigmine bromide  (EXP)
quercetin  (EXP,ISO)
reactive oxygen species  (EXP)
resveratrol  (EXP,ISO)
selumetinib  (ISO)
stavudine  (ISO)
superoxide  (EXP)
T-2 toxin  (EXP)
telmisartan  (ISO)
terbufos  (ISO)
testosterone  (ISO)
tetraphene  (ISO)
titanium dioxide  (ISO)
tofacitinib  (ISO)
tributylstannane  (ISO)
trichostatin A  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vanadium atom  (EXP)
vanadium(0)  (EXP)
zidovudine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Bouillaud F, etal., Biochem Biophys Res Commun 1988 Dec 15;157(2):783-92.
2. Bouillaud F, etal., J Biol Chem 1986 Feb 5;261(4):1487-90.
3. Cettour-Rose P, etal., Am J Physiol Endocrinol Metab 2002 Nov;283(5):E980-7.
4. Clement K, etal., Int J Obes Relat Metab Disord. 1996 Dec;20(12):1062-6.
5. Cornelius C, etal., Immun Ageing. 2013 Oct 17;10(1):41. doi: 10.1186/1742-4933-10-41.
6. Couplan E, etal., J Biol Chem 2002 Nov 8;277(45):43079-88.
7. Divakaruni AS, etal., J Biol Chem. 2012 Oct 26;287(44):36845-53. doi: 10.1074/jbc.M112.381780. Epub 2012 Sep 5.
8. Dlaskova A, etal., Biochim Biophys Acta. 2010 Aug;1797(8):1470-6. doi: 10.1016/j.bbabio.2010.04.008. Epub 2010 Apr 21.
9. Echtay KS, etal., Nature 2002 Jan 3;415(6867):96-9.
10. Esteves TC, etal., Biochem J. 2006 May 1;395(3):619-28.
11. Fukuda H, etal., J Nutr Sci Vitaminol (Tokyo). 2007 Oct;53(5):426-31.
12. Fukuyama K, etal., Biochem Biophys Res Commun. 2006 Jan 27;339(4):1212-6. Epub 2005 Dec 5.
13. Garcia B and Obregon MJ, Am J Physiol Cell Physiol 2002 Jan;282(1):C105-12.
14. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
15. GOA data from the GO Consortium
16. Gullicksen PS, etal., Physiol Behav 2002 Apr 1;75(4):473-82.
17. Ho DJ, etal., Exp Neurol. 2010 Sep;225(1):74-84. doi: 10.1016/j.expneurol.2010.05.006. Epub 2010 Jun 1.
18. Jimenez-Jimenez J, etal., Biochim Biophys Acta. 2006 Sep-Oct;1757(9-10):1292-6. Epub 2006 May 24.
19. Kazak L, etal., Proc Natl Acad Sci U S A. 2017 Jul 25;114(30):7981-7986. doi: 10.1073/pnas.1705406114. Epub 2017 Jun 19.
20. Kotani K, etal., Clin Chem Lab Med. 2007;45(9):1186-9.
21. Lindholm E, etal., J Diabetes Complications. 2004 Mar-Apr;18(2):103-7.
22. MGD data from the GO Consortium
23. Mori H, etal., Diabetologia. 2001 Mar;44(3):373-6.
24. NCBI rat LocusLink and RefSeq merged data July 26, 2002
25. OMIM Disease Annotation Pipeline
26. Pipeline to import KEGG annotations from KEGG into RGD
27. RGD automated data pipeline
28. RGD automated import pipeline for gene-chemical interactions
29. Ridley RG, etal., Nucleic Acids Res 1986 May 27;14(10):4025-35.
30. Ryu JW, etal., Biochem Biophys Res Commun. 2003 Apr 4;303(2):726-31.
31. Szpirer C, etal., Mamm Genome 1998 Sep;9(9):721-34
32. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
33. Teruel T, etal., J Biol Chem 2003 Jan 3;278(1):263-9.
34. Urbankova E, etal., Int J Biochem Cell Biol. 2003 Feb;35(2):212-20.
35. Weydt P, etal., Cell Metab. 2006 Nov;4(5):349-62. Epub 2006 Oct 19.
Additional References at PubMed
PMID:2421800   PMID:7691596   PMID:9054939   PMID:9139827   PMID:11748291   PMID:11940593   PMID:12127082   PMID:12477932   PMID:12603007   PMID:12678439   PMID:12706490   PMID:12734183  
PMID:12910269   PMID:12912909   PMID:12960080   PMID:14529581   PMID:14605003   PMID:14651853   PMID:14766012   PMID:15099666   PMID:15262832   PMID:15489334   PMID:15567149   PMID:15695816  
PMID:15720470   PMID:15727948   PMID:15887043   PMID:15891081   PMID:15896707   PMID:16291746   PMID:17592729   PMID:17670746   PMID:17686539   PMID:17878603   PMID:17923681   PMID:18239634  
PMID:18471433   PMID:18479902   PMID:18614015   PMID:18626658   PMID:19187776   PMID:19227473   PMID:19747168   PMID:20719854   PMID:20948513   PMID:22226924   PMID:22531154   PMID:23063128  
PMID:23084644   PMID:23169784   PMID:23404793   PMID:24196960   PMID:25132457   PMID:25858881   PMID:26129910   PMID:26767982   PMID:27027295   PMID:27438137   PMID:27560796   PMID:27686967  
PMID:27750036   PMID:27916641   PMID:28763438   PMID:30624981   PMID:33202085   PMID:33441773  


Genomics

Comparative Map Data
Ucp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21924,808,782 - 24,816,853 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1924,808,783 - 24,816,852 (-)Ensembl
Rnor_6.01924,456,976 - 24,464,808 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1924,456,976 - 24,464,807 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01935,434,980 - 35,442,812 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41926,527,548 - 26,535,621 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11926,532,373 - 26,540,447 (-)NCBI
Celera1924,348,444 - 24,356,517 (-)NCBICelera
Cytogenetic Map19q11NCBI
UCP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl4140,559,431 - 140,568,961 (-)EnsemblGRCh38hg38GRCh38
GRCh384140,555,770 - 140,568,961 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh374141,480,585 - 141,490,115 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364141,700,500 - 141,709,457 (-)NCBINCBI36hg18NCBI36
Build 344141,838,654 - 141,847,612NCBI
Celera4138,811,044 - 138,819,947 (-)NCBI
Cytogenetic Map4q31.1NCBI
HuRef4137,211,503 - 137,220,406 (-)NCBIHuRef
CHM1_14141,458,398 - 141,467,306 (-)NCBICHM1_1
Ucp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39884,016,977 - 84,025,085 (+)NCBIGRCm39mm39
GRCm39 Ensembl884,016,981 - 84,025,081 (+)Ensembl
GRCm38883,290,348 - 83,298,456 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl883,290,352 - 83,298,452 (+)EnsemblGRCm38mm10GRCm38
MGSCv37885,814,247 - 85,822,355 (+)NCBIGRCm37mm9NCBIm37
MGSCv36886,180,467 - 86,188,157 (+)NCBImm8
Celera887,564,747 - 87,572,801 (+)NCBICelera
Cytogenetic Map8C2NCBI
cM Map839.65NCBI
Ucp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554283,274,810 - 3,283,237 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554283,253,363 - 3,282,518 (+)NCBIChiLan1.0ChiLan1.0
UCP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.14144,230,858 - 144,239,803 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4144,230,858 - 144,240,178 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v04132,921,033 - 132,930,714 (-)NCBIMhudiblu_PPA_v0panPan3
UCP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1192,254,881 - 2,289,902 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha192,528,227 - 2,536,537 (+)NCBI
ROS_Cfam_1.0192,346,071 - 2,354,913 (+)NCBI
UMICH_Zoey_3.1192,283,269 - 2,291,546 (+)NCBI
UNSW_CanFamBas_1.0192,644,470 - 2,652,732 (+)NCBI
UU_Cfam_GSD_1.0193,000,436 - 3,008,747 (+)NCBI
Ucp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530149,820,808 - 49,828,140 (+)NCBI
SpeTri2.0NW_0049365357,258,146 - 7,265,475 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UCP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1886,522,028 - 86,526,162 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2891,981,524 - 91,985,738 (-)NCBISscrofa10.2Sscrofa10.2susScr3
UCP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1787,492,444 - 87,502,894 (-)NCBI
ChlSab1.1 Ensembl787,492,195 - 87,502,665 (-)Ensembl
Vero_WHO_p1.0NW_02366603767,019,274 - 67,029,935 (-)NCBI
Ucp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004625006155,179 - 162,544 (-)NCBI

Position Markers
D19Mit9  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21924,816,041 - 24,816,202 (-)MAPPERmRatBN7.2
Rnor_6.01924,457,627 - 24,457,787NCBIRnor6.0
Rnor_5.01935,435,631 - 35,435,791UniSTSRnor5.0
RGSC_v3.41926,534,810 - 26,534,971RGDRGSC3.4
RGSC_v3.41926,534,809 - 26,534,971UniSTSRGSC3.4
RGSC_v3.11926,539,634 - 26,539,797RGD
Celera1924,355,706 - 24,355,866UniSTS
Cytogenetic Map19p11-q11UniSTS
D19Wox8  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21924,817,978 - 24,818,103 (-)MAPPERmRatBN7.2
Rnor_6.01924,455,726 - 24,455,850NCBIRnor6.0
Rnor_5.01935,433,730 - 35,433,854UniSTSRnor5.0
RGSC_v3.41926,536,747 - 26,536,872RGDRGSC3.4
RGSC_v3.41926,536,748 - 26,536,872UniSTSRGSC3.4
RGSC_v3.11926,541,573 - 26,541,698RGD
Celera1924,357,643 - 24,357,761UniSTS
Cytogenetic Map19p11-q11UniSTS
D19Arb8  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21924,813,116 - 24,813,393 (-)MAPPERmRatBN7.2
mRatBN7.21924,813,116 - 24,813,393 (+)MAPPERmRatBN7.2
Rnor_6.01929,400,398 - 29,400,674NCBIRnor6.0
Rnor_6.01924,460,436 - 24,460,712NCBIRnor6.0
Rnor_5.01935,438,440 - 35,438,716UniSTSRnor5.0
Rnor_5.01940,308,557 - 40,308,833UniSTSRnor5.0
RGSC_v3.41926,531,884 - 26,532,160UniSTSRGSC3.4
RGSC_v3.41926,531,883 - 26,532,160RGDRGSC3.4
RGSC_v3.11926,536,709 - 26,536,986RGD
Celera1924,352,781 - 24,353,057UniSTS
SHRSP x BN Map1918.5999RGD
SHRSP x BN Map1918.5999UniSTS
FHH x ACI Map1921.16RGD
Cytogenetic Map19p11-q11UniSTS
AI385626  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21924,816,612 - 24,816,715 (-)MAPPERmRatBN7.2
Rnor_6.01924,457,114 - 24,457,216NCBIRnor6.0
Rnor_5.01935,435,118 - 35,435,220UniSTSRnor5.0
RGSC_v3.41926,535,382 - 26,535,484UniSTSRGSC3.4
Celera1924,356,277 - 24,356,379UniSTS
Cytogenetic Map19p11-q11UniSTS
RH94828  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21924,815,082 - 24,815,182 (-)MAPPERmRatBN7.2
Rnor_6.01924,458,647 - 24,458,746NCBIRnor6.0
Rnor_5.01935,436,651 - 35,436,750UniSTSRnor5.0
RGSC_v3.41926,533,850 - 26,533,949UniSTSRGSC3.4
Celera1924,354,747 - 24,354,846UniSTS
Cytogenetic Map19p11-q11UniSTS
RH94640  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21924,815,524 - 24,815,690 (-)MAPPERmRatBN7.2
Rnor_6.01924,458,139 - 24,458,304NCBIRnor6.0
Rnor_5.01935,436,143 - 35,436,308UniSTSRnor5.0
RGSC_v3.41926,534,292 - 26,534,457UniSTSRGSC3.4
Celera1924,355,189 - 24,355,354UniSTS
Cytogenetic Map19p11-q11UniSTS
RH94528  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21924,808,802 - 24,808,876 (-)MAPPERmRatBN7.2
mRatBN7.21924,808,802 - 24,808,876 (+)MAPPERmRatBN7.2
Rnor_6.01924,464,714 - 24,464,787NCBIRnor6.0
Rnor_6.01929,396,084 - 29,396,157NCBIRnor6.0
Rnor_5.01940,304,243 - 40,304,316UniSTSRnor5.0
Rnor_5.01935,442,718 - 35,442,791UniSTSRnor5.0
RGSC_v3.41926,527,568 - 26,527,641UniSTSRGSC3.4
Celera1924,348,465 - 24,348,538UniSTS
Cytogenetic Map19p11-q11UniSTS
Ucp1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21924,815,774 - 24,816,631 (-)MAPPERmRatBN7.2
Rnor_6.01924,457,198 - 24,458,054NCBIRnor6.0
Rnor_5.01935,435,202 - 35,436,058UniSTSRnor5.0
RGSC_v3.41926,534,542 - 26,535,400UniSTSRGSC3.4
Celera1924,355,439 - 24,356,295UniSTS
Cytogenetic Map19p11-q11UniSTS
D19Mit9  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21924,816,042 - 24,816,202 (-)MAPPERmRatBN7.2
Rnor_6.01924,457,627 - 24,457,786NCBIRnor6.0
Rnor_5.01935,435,631 - 35,435,790UniSTSRnor5.0
RGSC_v3.41926,534,810 - 26,534,971UniSTSRGSC3.4
Celera1924,355,707 - 24,355,866UniSTS
Cytogenetic Map15p11UniSTS
Cytogenetic Map19p11-q11UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127355345Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)191392640130303727Rat
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)191511459834521833Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
61328Eae8Experimental allergic encephalomyelitis QTL 84nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)192481604133061905Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:66
Count of miRNA genes:51
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000004900
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
Medium 8 15 8 12 7
Low 8 5 4 1 4 5 5 5 5 2 5
Below cutoff 2 1 4 4 8 4 3 3 9 3 17 2 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004900   ⟹   ENSRNOP00000004900
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1924,808,783 - 24,816,852 (-)Ensembl
Rnor_6.0 Ensembl1924,456,976 - 24,464,807 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000072100   ⟹   ENSRNOP00000065918
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1929,396,157 - 29,400,355 (-)Ensembl
RefSeq Acc Id: NM_012682   ⟹   NP_036814
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21924,808,782 - 24,816,853 (-)NCBI
Rnor_6.01924,456,976 - 24,464,808 (+)NCBI
Rnor_5.01935,434,980 - 35,442,812 (+)NCBI
RGSC_v3.41926,527,548 - 26,535,621 (-)RGD
Celera1924,348,444 - 24,356,517 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_036814   ⟸   NM_012682
- UniProtKB: P04633 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004900   ⟸   ENSRNOT00000004900
RefSeq Acc Id: ENSRNOP00000065918   ⟸   ENSRNOT00000072100

Transcriptome

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

Promoters
RGD ID:13700995
Promoter ID:EPDNEW_R11518
Type:single initiation site
Name:Ucp1_1
Description:uncoupling protein 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_6.01924,456,978 - 24,457,038EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/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
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/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
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/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/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/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/MavRrrcAek (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/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
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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:3931 AgrOrtholog
Ensembl Genes ENSRNOG00000003580 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00000046239 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000004900 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000065918 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004900 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000072100 UniProtKB/TrEMBL
Gene3D-CATH 1.50.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7380759 IMAGE-MGC_LOAD
InterPro Mit_uncoupling_UCP-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Mitochondrial_sb/sol_carrier UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Mt_carrier_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UCP1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24860 UniProtKB/Swiss-Prot
MGC_CLONE MGC:108736 IMAGE-MGC_LOAD
NCBI Gene 24860 ENTREZGENE
PANTHER PTHR45618:SF19 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Mito_carr UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ucp1 PhenoGen
PRINTS MTUNCOUPLING UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE SOLCAR UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF103506 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC218948
UniProt M0R8W3_RAT UniProtKB/TrEMBL
  P04633 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Ucp1  uncoupling protein 1  LOC100909612  mitochondrial brown fat uncoupling protein 1-like  Data Merged 737654 PROVISIONAL
2016-05-05 Ucp1  uncoupling protein 1  Ucp1  uncoupling protein 1 (mitochondrial, proton carrier)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-05 LOC100909612  mitochondrial brown fat uncoupling protein 1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-30 Ucp1  uncoupling protein 1 (mitochondrial, proton carrier)    uncoupling protein 1  Name updated 1299863 APPROVED
2004-12-14 Ucp1  uncoupling protein 1      Symbol and Name status set to approved 1299863 APPROVED
2002-06-10 Ucp1  uncoupling protein 1      Name updated 70585 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed only in the inner mitochondrial membrane of brown adipocytes 70670
gene_function inner mitochondrial membrane transporter 70670
gene_pathway increased mRNA expression is induced by activation of the retinoic acid and retinoid X receptors and occurs via activation of a MAP kinase signaling pathway 730207
gene_process T3 by itself induces the transcription of Ucp1 70670
gene_process uncouples electron transport from oxidative phosphorylation 70670
gene_regulation aFGF and bFGF increase the expression, EGF and vasopressin decrease the expression 70670
gene_regulation triiodothyronine (T3) inhibits the mitogenic activity of aFGF and bFGF 70670
gene_regulation mRNA expression is upregulated by leptin 631305