Ncor1 (nuclear receptor co-repressor 1) - Rat Genome Database

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Gene: Ncor1 (nuclear receptor co-repressor 1) Rattus norvegicus
Analyze
Symbol: Ncor1
Name: nuclear receptor co-repressor 1
RGD ID: 3612
Description: Exhibits several functions, including RNA polymerase II transcription regulatory region sequence-specific DNA binding activity; nuclear receptor binding activity; and peroxisome proliferator activated receptor binding activity. Involved in animal organ development; negative regulation of macromolecule metabolic process; and positive regulation of cell population proliferation. Localizes to nucleus and perinuclear region of cytoplasm. Predicted to colocalize with Sin3 complex. Used to study anxiety disorder and polycystic ovary syndrome. Biomarker of hypothyroidism and polycystic ovary syndrome. Orthologous to human NCOR1 (nuclear receptor corepressor 1); PARTICIPATES IN aldosterone signaling pathway; androgen signaling pathway; cortisol signaling pathway; INTERACTS WITH 17beta-estradiol; 2,4-dinitrotoluene; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: MGC116328; N-CoR; N-Cor/SMRT corepressor Rip13; N-Cor/SMRT corepressor, Rip13; N-CoR1; NCoR; nuclear receptor corepressor 1; Rxrip13
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
mRatBN7.21046,999,536 - 47,142,294 (-)NCBI
Rnor_6.0 Ensembl1048,629,121 - 48,772,890 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01048,629,121 - 48,772,890 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01048,417,490 - 48,559,309 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41048,481,110 - 48,628,538 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11048,495,233 - 48,511,932 (-)NCBI
Celera1046,245,514 - 46,388,593 (-)NCBICelera
Cytogenetic Map10q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-17-methylestra-4,9,11-trien-3-one  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
3,3',5,5'-tetraiodothyroacetic acid  (ISO)
3,3',5-triiodo-L-thyronine  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
acrolein  (ISO)
afimoxifene  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
alpha-tocotrienol  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
aspartame  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-tocotrienol  (ISO)
bis(2-chloroethyl) sulfide  (EXP)
bisphenol A  (EXP,ISO)
butanal  (ISO)
C60 fullerene  (EXP)
calciol  (EXP)
calcitriol  (ISO)
carbamazepine  (ISO)
chenodeoxycholic acid  (ISO)
chloroprene  (EXP)
choline  (ISO)
cisplatin  (ISO)
clotrimazole  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
cyproterone acetate  (ISO)
decabromodiphenyl ether  (EXP)
delta-tocotrienol  (ISO)
dexamethasone  (ISO)
dichloromethane  (ISO)
dicrotophos  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
finasteride  (EXP)
flutamide  (EXP)
folic acid  (ISO)
fulvestrant  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
glafenine  (EXP)
hexadecanoic acid  (ISO)
hydralazine  (ISO)
indometacin  (ISO)
irinotecan  (ISO)
L-methionine  (ISO)
lithocholic acid  (ISO)
methapyrilene  (EXP)
methoxychlor  (ISO)
methylseleninic acid  (ISO)
mifepristone  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monosodium L-glutamate  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
nefazodone  (EXP)
nicotinamide  (ISO)
okadaic acid  (ISO)
ormeloxifene  (EXP)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
paricalcitol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenethyl isothiocyanate  (EXP)
phenobarbital  (ISO)
phosphorus atom  (ISO)
phosphorus(.)  (ISO)
pirinixic acid  (ISO)
PK-11195  (ISO)
rifampicin  (ISO)
sarin  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (EXP)
thyroxine  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
tributylstannane  (EXP)
trichloroethene  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
valproic acid  (EXP,ISO)
vinclozolin  (EXP)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
1. Bosquiazzo VL, etal., Biol Reprod. 2010 Jan;82(1):86-95. Epub 2009 Aug 19.
2. Boutell JM, etal., Hum Mol Genet. 1999 Sep;8(9):1647-55.
3. Chmelar R, etal., Int J Cancer. 2007 Feb 15;120(4):719-33.
4. Daverey A, etal., J Steroid Biochem Mol Biol. 2009 Aug;116(1-2):93-101. Epub 2009 May 19.
5. Doyon G, etal., J Biol Chem. 2009 Sep 11;284(37):25220-9. Epub 2009 Jul 16.
6. Evert BO, etal., J Neurosci. 2006 Nov 1;26(44):11474-86.
7. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. Girault I, etal., Maturitas. 2006 Jul 20;54(4):342-51. Epub 2006 Jul 5.
9. GOA data from the GO Consortium
10. Hall JM and McDonnell DP, Mol Interv. 2005 Dec;5(6):343-57.
11. Heinzel T, etal., Nature. 1997 May 1;387(6628):43-8.
12. Hermanson O, etal., Nature 2002 Oct 31;419(6910):934-9.
13. Iannacone EA, etal., Mol Cell Endocrinol. 2002 Jan 15;186(1):49-59.
14. Jessen HM, etal., Endocrinology. 2010 Mar;151(3):1212-20. Epub 2010 Jan 5.
15. Ki SH, etal., Mol Cell Biol. 2005 May;25(10):4150-65.
16. Macejova D, etal., Life Sci. 2005 Sep 30;77(20):2584-93.
17. Malik IA, etal., Cell Tissue Res. 2010 Nov;342(2):261-72. doi: 10.1007/s00441-010-1067-4. Epub 2010 Oct 15.
18. Martinez de Arrieta C, etal., Endocrinology. 2000 May;141(5):1693-8.
19. MGD data from the GO Consortium
20. NCBI rat LocusLink and RefSeq merged data July 26, 2002
21. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
22. Qu F, etal., J Mol Med (Berl). 2012 Feb 21.
23. RGD automated data pipeline
24. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
25. RGD automated import pipeline for gene-chemical interactions
26. RGD comprehensive gene curation
27. Rochette-Egly C and Germain P, Nucl Recept Signal. 2009 May 8;7:e005.
28. Sardi SP, etal., Cell. 2006 Oct 6;127(1):185-97.
29. Schuler MJ and Pette D, Eur J Biochem. 1998 Nov 1;257(3):607-14.
30. Schuler MJ, etal., Eur J Biochem 1999 Sep;264(3):982-8.
31. Simons SS Jr Curr Opin Pharmacol. 2010 Dec;10(6):613-9. Epub 2010 Aug 26.
32. van der Laan S, etal., Brain Res. 2005 Oct 19;1059(2):113-21. Epub 2005 Oct 5.
33. Voss TC, etal., J Cell Sci. 2005 Aug 1;118(Pt 15):3277-88. Epub 2005 Jul 19.
34. Wang D, etal., PLoS One. 2010 Mar 24;5(3):e9853.
35. Wang L, etal., Arch Biochem Biophys. 2004 Aug 1;428(1):92-8.
36. Yang J and Fuller PJ, Mol Cell Endocrinol. 2012 Mar 24;350(2):196-205. doi: 10.1016/j.mce.2011.07.001. Epub 2011 Jul 18.
Additional References at PubMed
PMID:7566114   PMID:7760852   PMID:8961273   PMID:9328355   PMID:10049357   PMID:11030619   PMID:11092755   PMID:11328825   PMID:11486045   PMID:11804585   PMID:11931768   PMID:12477932  
PMID:12628926   PMID:14980219   PMID:15175761   PMID:15219413   PMID:15681609   PMID:15695367   PMID:15701601   PMID:15862975   PMID:16127449   PMID:16421255   PMID:17182846   PMID:17392792  
PMID:17505061   PMID:17606624   PMID:17928865   PMID:18052923   PMID:18063853   PMID:18326024   PMID:19037247   PMID:19052228   PMID:19299558   PMID:19946888   PMID:19955185   PMID:20388878  
PMID:20427468   PMID:20812024   PMID:21695276   PMID:23083128   PMID:24550004   PMID:24794873   PMID:26019118  


Genomics

Candidate Gene Status
Ncor1 is a candidate Gene for QTL Pia26
Comparative Map Data
Ncor1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21046,999,536 - 47,142,294 (-)NCBI
Rnor_6.0 Ensembl1048,629,121 - 48,772,890 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01048,629,121 - 48,772,890 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01048,417,490 - 48,559,309 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41048,481,110 - 48,628,538 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11048,495,233 - 48,511,932 (-)NCBI
Celera1046,245,514 - 46,388,593 (-)NCBICelera
Cytogenetic Map10q23NCBI
NCOR1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1716,029,157 - 16,218,185 (-)EnsemblGRCh38hg38GRCh38
GRCh381716,029,157 - 16,216,475 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371715,932,471 - 16,118,848 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361715,875,983 - 16,059,570 (-)NCBINCBI36hg18NCBI36
Build 341715,875,983 - 16,059,570NCBI
Celera1715,836,413 - 16,021,797 (-)NCBI
Cytogenetic Map17p12-p11.2NCBI
HuRef1715,800,450 - 15,985,911 (-)NCBIHuRef
CHM1_11715,943,234 - 16,128,660 (-)NCBICHM1_1
Ncor1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391162,207,132 - 62,348,200 (-)NCBIGRCm39mm39
GRCm39 Ensembl1162,207,252 - 62,349,367 (-)Ensembl
GRCm381162,315,663 - 62,457,414 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1162,316,426 - 62,458,541 (-)EnsemblGRCm38mm10GRCm38
MGSCv371162,130,192 - 62,270,834 (-)NCBIGRCm37mm9NCBIm37
MGSCv361162,132,885 - 62,273,527 (-)NCBImm8
Celera1169,235,609 - 69,376,529 (-)NCBICelera
Cytogenetic Map11B2NCBI
Ncor1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554671,409,281 - 1,546,842 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554671,408,292 - 1,568,539 (-)NCBIChiLan1.0ChiLan1.0
NCOR1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A110,362,694 - 110,416,423 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01734,934,452 - 35,121,195 (-)NCBIMhudiblu_PPA_v0panPan3
NCOR1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1539,687,530 - 39,837,003 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl539,687,543 - 39,836,464 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha539,833,877 - 39,983,347 (+)NCBI
ROS_Cfam_1.0539,797,954 - 39,946,806 (+)NCBI
UMICH_Zoey_3.1539,769,594 - 39,919,058 (+)NCBI
UNSW_CanFamBas_1.0539,714,886 - 39,864,318 (+)NCBI
UU_Cfam_GSD_1.0539,906,752 - 40,055,598 (+)NCBI
Ncor1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560259,273,377 - 59,429,898 (-)NCBI
SpeTri2.0NW_004936821382,756 - 538,254 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NCOR1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11259,256,868 - 59,392,564 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21262,387,195 - 62,538,538 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NCOR1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11615,442,315 - 15,629,411 (+)NCBI
ChlSab1.1 Ensembl1615,462,640 - 15,628,512 (+)Ensembl
Ncor1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248774,203,125 - 4,379,891 (+)NCBI

Position Markers
D10Chm61  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01048,748,821 - 48,749,065NCBIRnor6.0
Rnor_5.01048,536,829 - 48,537,073UniSTSRnor5.0
RGSC_v3.41048,605,377 - 48,605,621UniSTSRGSC3.4
Celera1046,364,148 - 46,364,392UniSTS
Cytogenetic Map10q24UniSTS
BE115478  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01048,742,179 - 48,742,356NCBIRnor6.0
Rnor_5.01048,530,187 - 48,530,364UniSTSRnor5.0
RGSC_v3.41048,598,734 - 48,598,911UniSTSRGSC3.4
Celera1046,357,512 - 46,357,689UniSTS
RH 3.4 Map10547.4UniSTS
Cytogenetic Map10q24UniSTS
RH128597  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01048,629,165 - 48,629,351NCBIRnor6.0
Rnor_5.01048,417,534 - 48,417,720UniSTSRnor5.0
RGSC_v3.41048,480,819 - 48,481,005UniSTSRGSC3.4
Celera1046,245,558 - 46,245,744UniSTS
RH 3.4 Map10543.8UniSTS
Cytogenetic Map10q24UniSTS
BF405607  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01048,643,917 - 48,644,062NCBIRnor6.0
Rnor_5.01048,432,286 - 48,432,431UniSTSRnor5.0
RGSC_v3.41048,496,502 - 48,496,647UniSTSRGSC3.4
Celera1046,260,554 - 46,260,699UniSTS
RH 3.4 Map10544.2UniSTS
Cytogenetic Map10q24UniSTS
RH141290  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.01048,629,764 - 48,629,945NCBIRnor6.0
Rnor_5.01048,418,133 - 48,418,314UniSTSRnor5.0
RGSC_v3.41048,481,418 - 48,481,599UniSTSRGSC3.4
Celera1046,246,157 - 46,246,338UniSTS
RH 3.4 Map10542.7UniSTS
Cytogenetic Map10q24UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1076442166221621Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10587753664401490Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10622909575983805Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10752145052521450Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101263951357639513Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101482789492423564Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101537547462469074Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101646873661468736Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101824639453637634Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101940281464402814Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)1020170031102897474Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102152390683549467Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)12152390690312401Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102152390690312401Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102170776664648311Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102290149793886300Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102386101566539843Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1023861015112626471Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102723753064648311Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)1027237530101482600Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1027237530102427718Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102878928073789280Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)103002135454057745Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103098380575983805Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103191939778343192Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103317903078179030Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103334319278343192Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103513942480139424Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)103618592982675365Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103618592995845311Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103658437353645194Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103658437366539843Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103658456066015527Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)104051404485514044Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)104051404485514044Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1041260363106105607Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104318865981042642Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1043289657108540162Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104370495588704955Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104659302198939209Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104684834691848346Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104684834691848346Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104684834691848346Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:314
Count of miRNA genes:177
Interacting mature miRNAs:213
Transcripts:ENSRNOT00000003120, ENSRNOT00000003133, ENSRNOT00000057680, ENSRNOT00000057681, ENSRNOT00000057682
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 3 43 57 41 19 41 8 10 74 35 41 11 8
Low 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001271103 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086672 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086674 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086675 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086676 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086677 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086678 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086679 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086680 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086681 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086683 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086684 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086686 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086687 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086688 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086690 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086691 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086692 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086694 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086696 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086698 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086699 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086700 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086701 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086702 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086703 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086704 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086705 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039086706 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005489929 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AF059311 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF124821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC100263 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225703 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227704 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231645 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233813 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000220 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000081409   ⟹   ENSRNOP00000072175
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1048,629,121 - 48,772,890 (-)Ensembl
RefSeq Acc Id: NM_001271103   ⟹   NP_001258032
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,536 - 47,141,032 (-)NCBI
Rnor_6.01048,629,121 - 48,772,890 (-)NCBI
Rnor_5.01048,417,490 - 48,559,309 (-)NCBI
Celera1046,245,514 - 46,388,593 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039086672   ⟹   XP_038942600
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086673   ⟹   XP_038942601
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086674   ⟹   XP_038942602
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,126,969 (-)NCBI
RefSeq Acc Id: XM_039086675   ⟹   XP_038942603
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,289 (-)NCBI
RefSeq Acc Id: XM_039086676   ⟹   XP_038942604
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,142,294 (-)NCBI
RefSeq Acc Id: XM_039086677   ⟹   XP_038942605
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,502 (-)NCBI
RefSeq Acc Id: XM_039086678   ⟹   XP_038942606
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086679   ⟹   XP_038942607
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086680   ⟹   XP_038942608
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086681   ⟹   XP_038942609
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086682   ⟹   XP_038942610
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086683   ⟹   XP_038942611
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086684   ⟹   XP_038942612
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086685   ⟹   XP_038942613
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086686   ⟹   XP_038942614
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086687   ⟹   XP_038942615
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086688   ⟹   XP_038942616
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086689   ⟹   XP_038942617
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086690   ⟹   XP_038942618
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086691   ⟹   XP_038942619
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086692   ⟹   XP_038942620
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086693   ⟹   XP_038942621
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086694   ⟹   XP_038942622
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086695   ⟹   XP_038942623
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086696   ⟹   XP_038942624
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086697   ⟹   XP_038942625
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086698   ⟹   XP_038942626
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086699   ⟹   XP_038942627
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086700   ⟹   XP_038942628
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086701   ⟹   XP_038942629
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086702   ⟹   XP_038942630
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086703   ⟹   XP_038942631
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,085,069 (-)NCBI
RefSeq Acc Id: XM_039086704   ⟹   XP_038942632
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086705   ⟹   XP_038942633
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XM_039086706   ⟹   XP_038942634
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21046,999,547 - 47,141,061 (-)NCBI
RefSeq Acc Id: XR_005489929
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21047,083,825 - 47,141,062 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001258032 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942600 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942601 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942602 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942603 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942604 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942605 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942606 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942607 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942608 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942609 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942610 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942611 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942612 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942613 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942614 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942615 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942616 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942617 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942618 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942619 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942620 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942621 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942622 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942623 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942624 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942625 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942626 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942627 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942628 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942629 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942630 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942631 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942632 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942633 (Get FASTA)   NCBI Sequence Viewer  
  XP_038942634 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC14567 (Get FASTA)   NCBI Sequence Viewer  
  AAD32566 (Get FASTA)   NCBI Sequence Viewer  
  EDM04703 (Get FASTA)   NCBI Sequence Viewer  
  EDM04704 (Get FASTA)   NCBI Sequence Viewer  
  EDM04705 (Get FASTA)   NCBI Sequence Viewer  
  EDM04706 (Get FASTA)   NCBI Sequence Viewer  
  Q9WUB5 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001258032   ⟸   NM_001271103
- UniProtKB: A0A0G2K2B4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000072175   ⟸   ENSRNOT00000081409
RefSeq Acc Id: XP_038942604   ⟸   XM_039086676
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038942605   ⟸   XM_039086677
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038942603   ⟸   XM_039086675
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038942632   ⟸   XM_039086704
- Peptide Label: isoform X28
RefSeq Acc Id: XP_038942628   ⟸   XM_039086700
- Peptide Label: isoform X24
RefSeq Acc Id: XP_038942627   ⟸   XM_039086699
- Peptide Label: isoform X23
RefSeq Acc Id: XP_038942634   ⟸   XM_039086706
- Peptide Label: isoform X30
RefSeq Acc Id: XP_038942626   ⟸   XM_039086698
- Peptide Label: isoform X22
RefSeq Acc Id: XP_038942633   ⟸   XM_039086705
- Peptide Label: isoform X29
RefSeq Acc Id: XP_038942630   ⟸   XM_039086702
- Peptide Label: isoform X26
RefSeq Acc Id: XP_038942620   ⟸   XM_039086692
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038942619   ⟸   XM_039086691
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038942616   ⟸   XM_039086688
- Peptide Label: isoform X12
RefSeq Acc Id: XP_038942615   ⟸   XM_039086687
- Peptide Label: isoform X11
RefSeq Acc Id: XP_038942617   ⟸   XM_039086689
- Peptide Label: isoform X13
RefSeq Acc Id: XP_038942614   ⟸   XM_039086686
- Peptide Label: isoform X10
RefSeq Acc Id: XP_038942613   ⟸   XM_039086685
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038942606   ⟸   XM_039086678
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038942625   ⟸   XM_039086697
- Peptide Label: isoform X21
RefSeq Acc Id: XP_038942621   ⟸   XM_039086693
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038942612   ⟸   XM_039086684
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038942623   ⟸   XM_039086695
- Peptide Label: isoform X19
RefSeq Acc Id: XP_038942618   ⟸   XM_039086690
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038942624   ⟸   XM_039086696
- Peptide Label: isoform X20
RefSeq Acc Id: XP_038942622   ⟸   XM_039086694
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038942611   ⟸   XM_039086683
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038942607   ⟸   XM_039086679
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038942610   ⟸   XM_039086682
- Peptide Label: isoform X6
RefSeq Acc Id: XP_038942629   ⟸   XM_039086701
- Peptide Label: isoform X25
RefSeq Acc Id: XP_038942608   ⟸   XM_039086680
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038942609   ⟸   XM_039086681
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038942600   ⟸   XM_039086672
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038942601   ⟸   XM_039086673
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038942602   ⟸   XM_039086674
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038942631   ⟸   XM_039086703
- Peptide Label: isoform X27
Protein Domains
SANT

Transcriptome

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

Promoters
RGD ID:13697272
Promoter ID:EPDNEW_R7797
Type:multiple initiation site
Name:Ncor1_1
Description:nuclear receptor co-repressor 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_6.01048,772,886 - 48,772,946EPDNEW

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)
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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
BBDP/Wor (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
BN/SsN (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
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
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
10 48516530 48516531 T C snv DOB/Oda (KyushuU)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
10 48649591 48649592 T G snv SR/JrHsd (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3612 AgrOrtholog
Ensembl Genes ENSRNOG00000055246 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000072175 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000081409 ENTREZGENE, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7381908 IMAGE-MGC_LOAD
InterPro Homeodomain-like UniProtKB/TrEMBL
  N-CoR_GPS2_interact UniProtKB/TrEMBL
  SANT/Myb UniProtKB/TrEMBL
  SANT_dom UniProtKB/TrEMBL
KEGG Report rno:54299 UniProtKB/TrEMBL
MGC_CLONE MGC:116328 IMAGE-MGC_LOAD
NCBI Gene 54299 ENTREZGENE
Pfam GPS2_interact UniProtKB/TrEMBL
PhenoGen Ncor1 PhenoGen
PROSITE SANT UniProtKB/TrEMBL
SMART SANT UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
UniProt A0A0G2K2B4 ENTREZGENE, UniProtKB/TrEMBL
  NCOR1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary O70463 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2001-06-26 Ncor1  nuclear receptor co-repressor 1      Symbol and Name updated to reflect Human and Mouse nomenclature 67952 APPROVED
2001-06-26 Rxrip13  N-Cor/SMRT corepressor, Rip13      Symbol and Name withdrawn 67952 WITHDRAWN

RGD Curation Notes
Note Type Note Reference
gene_function co-repressor for many transcription factors including CBF1  
gene_process co-repressor for many transcription factors including CBF1 625728
gene_process mediates differentiation of neural stem cells into astrocytes 625728
gene_regulation phosphorylation status correlates with its subcellular localization 625728
gene_regulation activity is regulated by Akt1 and PP-1 625728
gene_transcript contains a consensus interaction site for protein phosphatase-1 (PP-1), RVKF 625728