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

Send us a Message



 Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper VCMap
Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Ncor1 (nuclear receptor co-repressor 1) Rattus norvegicus
Analyze
Symbol: Ncor1
Name: nuclear receptor co-repressor 1
RGD ID: 3612
Description: Enables 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. Located in nucleus and perinuclear region of cytoplasm. 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: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21046,999,536 - 47,142,294 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1046,999,536 - 47,141,032 (-)Ensembl
Rnor_6.01048,629,121 - 48,772,890 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1048,629,121 - 48,772,890 (-)EnsemblRnor6.0rn6Rnor6.0
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)
aristolochic acid  (ISO)
Aroclor 1254  (ISO)
arsenite(3-)  (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)
cadmium atom  (ISO)
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)
ivermectin  (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 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1046,999,536 - 47,141,032 (-)Ensembl
Rnor_6.01048,629,121 - 48,772,890 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1048,629,121 - 48,772,890 (-)EnsemblRnor6.0rn6Rnor6.0
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 - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11615,442,315 - 15,629,411 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1615,462,640 - 15,628,512 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660595,330,335 - 5,517,916 (-)NCBIVero_WHO_p1.0
Ncor1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248774,203,125 - 4,379,891 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D10Chm61  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21047,118,392 - 47,118,637 (+)MAPPERmRatBN7.2
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
mRatBN7.21047,111,749 - 47,111,927 (+)MAPPERmRatBN7.2
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
mRatBN7.21046,999,579 - 46,999,766 (+)MAPPERmRatBN7.2
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
mRatBN7.21047,014,549 - 47,014,695 (+)MAPPERmRatBN7.2
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
mRatBN7.21047,000,178 - 47,000,360 (+)MAPPERmRatBN7.2
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
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)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101502851360430477Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101527595560275955Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11590666560906665Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101790711351786432Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101816784163167841Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)101960648364606483Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)101960648364606483Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102132980561345413Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102652195761345413Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)102887565052200160Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102929950464155584Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
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)103129743976297439Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
1354614Hpcl1Hepatic cholesterol level QTL 13.3liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)103539226751793994Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103539226764155584Rat
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103539245763642539Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat
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)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)104114263386142633Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104133325886333258Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104194452678307017Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)14232313287323132Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104232313287323132Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)104287676679813922Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104444169989441699Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104444169989441699Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104444169989441699Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104502965095600334Rat

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
mRatBN7.2 Ensembl1046,999,536 - 47,141,032 (-)Ensembl
Rnor_6.0 Ensembl1048,629,121 - 48,772,890 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000104484   ⟹   ENSRNOP00000077615
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1046,999,536 - 47,141,032 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000108770   ⟹   ENSRNOP00000094582
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1046,999,536 - 47,141,032 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000112200   ⟹   ENSRNOP00000083000
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1046,999,536 - 47,141,032 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113406   ⟹   ENSRNOP00000095444
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1046,999,536 - 47,141,032 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000117719   ⟹   ENSRNOP00000084062
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1047,086,795 - 47,141,032 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000118920   ⟹   ENSRNOP00000095016
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1046,999,536 - 47,141,032 (-)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
RefSeq Acc Id: ENSRNOP00000095444   ⟸   ENSRNOT00000113406
RefSeq Acc Id: ENSRNOP00000077615   ⟸   ENSRNOT00000104484
RefSeq Acc Id: ENSRNOP00000095016   ⟸   ENSRNOT00000118920
RefSeq Acc Id: ENSRNOP00000094582   ⟸   ENSRNOT00000108770
RefSeq Acc Id: ENSRNOP00000084062   ⟸   ENSRNOT00000117719
RefSeq Acc Id: ENSRNOP00000083000   ⟸   ENSRNOT00000112200
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 (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)
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
PVG/Seac (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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHR/OlalpcvMcwi (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
SHRSP/A3NCrl (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
SHRSP/Gcrc (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
SR/JrHsd (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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
WAG/RijCrl (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: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (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
WKY/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
WKY/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
WKY/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
WKY/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
WKY/NHsd (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
WN/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
WN/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
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, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000072175 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000081409 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