Runx2 (RUNX family transcription factor 2) - Rat Genome Database

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Gene: Runx2 (RUNX family transcription factor 2) Rattus norvegicus
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Symbol: Runx2
Name: RUNX family transcription factor 2
RGD ID: 2282
Description: Enables DNA-binding transcription factor binding activity; general transcription initiation factor binding activity; and histone deacetylase binding activity. Involved in cellular response to fibroblast growth factor stimulus; osteoblast differentiation; and positive regulation of ossification. Located in nucleus. Human ortholog(s) of this gene implicated in cleidocranial dysplasia and metaphyseal dysplasia-maxillary hypoplasia-brachydacty syndrome. Orthologous to human RUNX2 (RUNX family transcription factor 2); PARTICIPATES IN fibroblast growth factor signaling pathway; transforming growth factor-beta Smad dependent signaling pathway; INTERACTS WITH (20S)-ginsenoside Rg3; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: CBF-alpha-1; Cbfa1; core-binding factor subunit alpha-1; OSF-2; osteoblast-specific transcription factor 2; runt related transcription factor 2; runt-related transcription factor 2
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
mRatBN7.2916,167,504 - 16,492,826 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl916,167,482 - 16,492,167 (+)Ensembl
Rnor_6.0918,564,743 - 18,773,092 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl918,564,927 - 18,773,092 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0917,448,142 - 17,658,373 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4911,869,234 - 12,025,219 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1911,867,896 - 11,943,304 (+)NCBI
Celera913,904,221 - 14,111,920 (+)NCBICelera
Cytogenetic Map9q13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(20S)-ginsenoside Rg3  (EXP)
(R)-camphor  (ISO)
1,4-benzoquinone  (ISO)
1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2-amino-2-deoxy-D-glucopyranose  (ISO)
2-Hydroxy-6-(8,11,14-pentadecatrienyl)benzoic acid  (ISO)
2-trans,6-trans,10-trans-geranylgeranyl diphosphate  (ISO)
2-trans,6-trans-farnesyl diphosphate  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-sulfonyldiphenol  (ISO)
5-fluorouracil  (ISO)
6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxamide  (EXP)
acetamide  (EXP)
adenine  (EXP)
aflatoxin B1  (ISO)
aldehydo-D-glucosamine  (ISO)
aldehydo-D-glucose  (ISO)
alendronic acid  (EXP)
all-trans-retinoic acid  (ISO)
all-trans-retinol  (ISO)
ammonium chloride  (EXP,ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (EXP,ISO)
apocynin  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (EXP,ISO)
azadirachtin A  (ISO)
bafilomycin A1  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
berberine  (ISO)
beta-D-glucosamine  (ISO)
bezafibrate  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
Bisphenol B  (ISO)
bisphenol F  (ISO)
boric acid  (ISO)
Butylparaben  (ISO)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
caffeine  (EXP)
calcidiol  (ISO)
calciol  (ISO)
calcitriol  (EXP,ISO)
camphor  (ISO)
cannabidiol  (ISO)
captopril  (ISO)
celecoxib  (ISO)
CHIR 99021  (ISO)
chitosan  (ISO)
chloroacetaldehyde  (ISO)
chloroquine  (ISO)
chlorpyrifos  (EXP)
choline  (ISO)
chromium(3+) trichloride  (ISO)
cidofovir anhydrous  (ISO)
cisplatin  (ISO)
clodronic acid  (ISO)
cobalt dichloride  (EXP,ISO)
cocaine  (EXP)
colforsin daropate hydrochloride  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
corticosterone  (EXP)
crocidolite asbestos  (ISO)
curcumin  (ISO)
cycloheximide  (ISO)
D-glucose  (ISO)
DDT  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (EXP,ISO)
diarsenic trioxide  (EXP,ISO)
diclofenac  (EXP)
dioxygen  (ISO)
disodium selenite  (ISO)
disulfiram  (EXP)
dorsomorphin  (ISO)
enalapril  (EXP)
ethanol  (EXP,ISO)
Ethoxyacetic acid  (ISO)
Ethylenethiourea  (EXP)
farnesyl diphosphate  (ISO)
fasudil  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
fulvestrant  (EXP,ISO)
gallocatechin  (EXP)
gamma-aminobutyric acid  (EXP)
gamma-Oryzanol (TN)  (EXP)
genistein  (EXP,ISO)
Ginkgoic acid  (ISO)
ginsenoside Rb1  (EXP)
glucose  (ISO)
glycerol 2-phosphate  (EXP,ISO)
glycidol  (EXP)
glycyrrhetinate  (ISO)
glycyrrhetinic acid  (ISO)
hexaconazole  (ISO)
hexadecanoic acid  (EXP)
hydrogen chloride  (ISO)
hydrogen peroxide  (EXP,ISO)
hydroquinone  (ISO)
hydroxyurea  (ISO)
icariin  (EXP,ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indole-3-methanol  (EXP)
ionomycin  (ISO)
isonicotinamide  (ISO)
kaempferol  (ISO)
ketoconazole  (ISO)
L-ascorbic acid  (EXP,ISO)
L-ascorbic acid 2-phosphate  (ISO)
L-methionine  (ISO)
lead nitrate  (ISO)
lead(0)  (EXP,ISO)
lead(2+)  (EXP,ISO)
Licochalcone B  (ISO)
linalool  (EXP)
losartan  (EXP)
manganese(II) chloride  (EXP)
melatonin  (ISO)
menaquinone  (EXP)
mercury dibromide  (ISO)
metformin  (EXP)
methotrexate  (ISO)
methoxychlor  (EXP)
methylmercury chloride  (EXP)
methylparaben  (ISO)
mifepristone  (EXP)
modafinil  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
Monobutylphthalate  (ISO)
montelukast  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-nitrosodiethylamine  (EXP,ISO)
naringin  (EXP,ISO)
neoeriocitrin  (ISO)
niclosamide  (ISO)
nicotinamide  (EXP,ISO)
notoginsenoside R1  (ISO)
NS-398  (ISO)
ochratoxin A  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
PCB138  (EXP,ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenethyl caffeate  (EXP)
phenylmercury acetate  (ISO)
phylloquinone  (EXP)
picene  (ISO)
polaprezinc  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
prostaglandin E2  (ISO)
prostaglandin F2alpha  (ISO)
quercetin  (EXP,ISO)
quercetin 3-O-beta-D-glucofuranoside  (EXP)
quercetin 3-O-beta-D-glucopyranoside  (EXP)
raloxifene  (ISO)
resveratrol  (EXP,ISO)
riboflavin  (ISO)
rotenone  (ISO)
rottlerin  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
Salidroside  (ISO)
SB 203580  (EXP)
SB 431542  (ISO)
sclareol  (ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
sodium fluoride  (EXP,ISO)
streptozocin  (EXP)
succimer  (ISO)
tacrolimus hydrate  (EXP)
tamibarotene  (ISO)
Tanshinone I  (ISO)
tebuconazole  (ISO)
tetrachloromethane  (EXP,ISO)
thromboxane A2  (ISO)
tremolite asbestos  (ISO)
tributyl phosphate  (ISO)
tributylstannane  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
triflumizole  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
tris(2-chloroethyl) phosphate  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
tyrphostin AG 1478  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin K  (EXP)
warfarin  (EXP,ISO)
zinc atom  (EXP)
zinc dichloride  (ISO)
zinc sulfate  (ISO)
zinc(0)  (EXP)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
BMP signaling pathway  (IEA,ISO)
cell maturation  (IEA,ISO)
cell population proliferation  (ISO)
cellular response to BMP stimulus  (ISO)
cellular response to fibroblast growth factor stimulus  (IEP)
chondrocyte development  (IEA,ISO)
chondrocyte differentiation  (IBA,ISO)
embryonic cranial skeleton morphogenesis  (IEA,ISO)
embryonic forelimb morphogenesis  (IEA,ISO)
endochondral ossification  (IEA,ISO)
hemopoiesis  (IBA)
ligamentous ossification  (ISO)
negative regulation of smoothened signaling pathway  (IEA,ISO)
negative regulation of transcription, DNA-templated  (IEA,ISO)
neuron differentiation  (IBA)
odontogenesis of dentin-containing tooth  (IEA,ISO)
ossification  (IBA)
osteoblast development  (IEA,ISO)
osteoblast differentiation  (IMP,ISO)
osteoblast fate commitment  (IEA,ISO)
positive regulation of cell population proliferation  (IEA,ISO)
positive regulation of chondrocyte differentiation  (IEA,ISO)
positive regulation of gene expression  (IEA,ISO)
positive regulation of ossification  (IMP)
positive regulation of osteoblast differentiation  (IEA,ISO,ISS)
positive regulation of transcription by RNA polymerase II  (ISO,ISS)
positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus  (IEA,ISO)
positive regulation of transcription, DNA-templated  (ISO)
regulation of catalytic activity  (IEA)
regulation of cell differentiation  (IBA)
regulation of fibroblast growth factor receptor signaling pathway  (IEA,ISO)
regulation of gene expression  (ISO)
regulation of odontogenesis of dentin-containing tooth  (IEA,ISO)
regulation of ossification  (IEA,ISO)
regulation of osteoblast differentiation  (ISO,TAS)
regulation of transcription by RNA polymerase II  (IBA)
response to L-ascorbic acid  (ISO)
response to sodium phosphate  (ISO)
skeletal system development  (ISO)
skeletal system morphogenesis  (ISO)
stem cell differentiation  (IEA,ISO)
T cell differentiation  (IEA,ISO)

Cellular Component
chromatin  (IEA,ISO)
cytoplasm  (IEA,ISO)
nucleoplasm  (ISO,TAS)
nucleus  (IDA,ISO,ISS)
transcription regulator complex  (IEA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Fu Y, etal., Int J Biochem Cell Biol. 2014 Sep;54:68-77. doi: 10.1016/j.biocel.2014.07.003. Epub 2014 Jul 11.
2. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. GOA data from the GO Consortium
4. Joshi S, etal., Biochim Biophys Acta. 2015 Sep;1852(9):2000-12. doi: 10.1016/j.bbadis.2015.06.020. Epub 2015 Jun 27.
5. Kara M, etal., Gene. 2015 Aug 1;567(1):81-6. doi: 10.1016/j.gene.2015.04.065. Epub 2015 Apr 27.
6. Kim HJ, etal., J Biol Chem. 2003 Jan 3;278(1):319-26. Epub 2002 Oct 25.
7. Massagué J, etal., Genes Dev. 2005 Dec 1;19(23):2783-810.
8. MGD data from the GO Consortium
9. Mundlos S, etal., Cell. 1997 May 30;89(5):773-9.
10. NCBI rat LocusLink and RefSeq merged data July 26, 2002
11. OMIM Disease Annotation Pipeline
12. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
13. RGD automated data pipeline
14. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
15. RGD automated import pipeline for gene-chemical interactions
16. Ross S and Hill CS, Int J Biochem Cell Biol. 2008;40(3):383-408. Epub 2007 Oct 7.
17. Shi N, etal., Arterioscler Thromb Vasc Biol. 2017 Mar;37(3):446-454. doi: 10.1161/ATVBAHA.116.308606. Epub 2017 Jan 5.
18. Shimizu E, etal., J Biol Chem. 2010 Mar 26;285(13):9616-26. doi: 10.1074/jbc.M109.094862. Epub 2010 Jan 22.
19. Shintaku Y, etal., Cells Tissues Organs. 2011;194(1):38-48. doi: 10.1159/000322557. Epub 2011 Jan 22.
20. Sierra J, etal., Mol Cell Biol. 2003 May;23(9):3339-51.
21. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
22. Tonomoto Y, etal., Oncology. 2007;73(5-6):346-56. doi: 10.1159/000135350. Epub 2008 May 26.
23. Wang FS, etal., J Biol Chem. 2002 Mar 29;277(13):10931-7. Epub 2002 Jan 9.
24. Xiao ZS, etal., Gene 1998 Jul 3;214(1-2):187-97.
25. Xue T, etal., Gene Ther. 2010 Mar;17(3):370-9. doi: 10.1038/gt.2009.154. Epub 2009 Nov 26.
26. Young DW, etal., Nature. 2007 Jan 25;445(7126):442-6.
27. Yu S, etal., J Biol Chem. 2008 Feb 29;283(9):5542-53. doi: 10.1074/jbc.M705653200. Epub 2008 Jan 2.
Additional References at PubMed
PMID:7862157   PMID:9182762   PMID:9632804   PMID:10072783   PMID:10213384   PMID:11965546   PMID:12112009   PMID:12369786   PMID:12434156   PMID:12551949   PMID:12807883   PMID:12815054  
PMID:12951324   PMID:14688224   PMID:14982932   PMID:15013103   PMID:15030764   PMID:15050892   PMID:15051730   PMID:15107406   PMID:15107836   PMID:15136142   PMID:15150273   PMID:15175325  
PMID:15225881   PMID:15389629   PMID:15456860   PMID:15537544   PMID:15537653   PMID:15565649   PMID:15668330   PMID:15668335   PMID:15990875   PMID:16099986   PMID:16115867   PMID:16443755  
PMID:16476422   PMID:16543677   PMID:16610234   PMID:16751105   PMID:17182356   PMID:17265428   PMID:17334410   PMID:17352693   PMID:17693062   PMID:17708712   PMID:17950631   PMID:18432284  
PMID:18487609   PMID:18701816   PMID:18804520   PMID:18986983   PMID:19075196   PMID:19121369   PMID:19124839   PMID:19144722   PMID:19170063   PMID:19423655   PMID:19739101   PMID:19822991  
PMID:19893245   PMID:20019778   PMID:20093419   PMID:20128911   PMID:20197312   PMID:20568992   PMID:20628571   PMID:20818503   PMID:20843790   PMID:21221986   PMID:21302441   PMID:21324897  
PMID:21412826   PMID:21628588   PMID:21893222   PMID:22008669   PMID:22009963   PMID:22407386   PMID:22547067   PMID:22713854   PMID:22827283   PMID:22873791   PMID:22906827   PMID:22916278  
PMID:23517179   PMID:24042587   PMID:24349534   PMID:24391920   PMID:24505141   PMID:24520423   PMID:24535991   PMID:24854956   PMID:25159845   PMID:25205373   PMID:25409708   PMID:25823394  
PMID:26345541   PMID:26617945   PMID:26666855   PMID:26743583   PMID:27178636   PMID:27184949   PMID:27216774   PMID:27281956   PMID:27321958   PMID:27503378   PMID:27748856   PMID:28125630  
PMID:28290608   PMID:28419442   PMID:28462510   PMID:28505335   PMID:28703881   PMID:28738062   PMID:30203400   PMID:30320897   PMID:30374602   PMID:30411113   PMID:30430007   PMID:30912295  
PMID:31666602   PMID:31715615   PMID:31960421   PMID:31970784   PMID:32096181   PMID:32459278   PMID:32910396   PMID:33187585  


Genomics

Comparative Map Data
Runx2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2916,167,504 - 16,492,826 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl916,167,482 - 16,492,167 (+)Ensembl
Rnor_6.0918,564,743 - 18,773,092 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl918,564,927 - 18,773,092 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0917,448,142 - 17,658,373 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4911,869,234 - 12,025,219 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1911,867,896 - 11,943,304 (+)NCBI
Celera913,904,221 - 14,111,920 (+)NCBICelera
Cytogenetic Map9q13NCBI
RUNX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl645,328,157 - 45,664,349 (+)EnsemblGRCh38hg38GRCh38
GRCh38645,328,330 - 45,551,082 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37645,296,067 - 45,518,819 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36645,404,032 - 45,626,797 (+)NCBINCBI36hg18NCBI36
Build 34645,498,291 - 45,623,020NCBI
Celera646,849,063 - 47,071,816 (+)NCBI
Cytogenetic Map6p21.1NCBI
HuRef645,018,738 - 45,241,794 (+)NCBIHuRef
CHM1_1645,298,649 - 45,521,390 (+)NCBICHM1_1
Runx2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391744,806,874 - 45,125,684 (-)NCBIGRCm39mm39
GRCm39 Ensembl1744,806,874 - 45,125,684 (-)Ensembl
GRCm381744,495,987 - 44,814,797 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1744,495,987 - 44,814,797 (-)EnsemblGRCm38mm10GRCm38
MGSCv371744,740,950 - 44,951,746 (-)NCBIGRCm37mm9NCBIm37
MGSCv361744,067,056 - 44,277,682 (-)NCBImm8
Celera1748,040,272 - 48,252,046 (-)NCBICelera
Cytogenetic Map17B3NCBI
cM Map1721.33NCBI
Runx2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543710,598,145 - 10,800,560 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543710,598,145 - 10,885,858 (+)NCBIChiLan1.0ChiLan1.0
RUNX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1646,189,426 - 46,411,889 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl646,189,432 - 46,524,389 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0645,003,962 - 45,133,148 (+)NCBIMhudiblu_PPA_v0panPan3
RUNX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11213,723,535 - 13,842,565 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1213,628,539 - 13,840,785 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1213,628,539 - 13,840,785 (+)NCBICanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1213,657,403 - 13,875,716 (+)NCBI
ROS_Cfam_1.01214,116,775 - 14,343,464 (+)NCBI
UMICH_Zoey_3.11213,641,535 - 13,967,483 (+)NCBI
UNSW_CanFamBas_1.01213,729,537 - 14,055,648 (+)NCBI
UU_Cfam_GSD_1.01213,825,170 - 14,151,515 (+)NCBI
Runx2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494649,141,956 - 49,373,718 (+)NCBI
SpeTri2.0NW_00493647614,695,965 - 14,818,246 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RUNX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl740,106,513 - 40,459,686 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1740,106,581 - 40,353,304 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2746,278,416 - 46,417,291 (+)NCBISscrofa10.2Sscrofa10.2susScr3
RUNX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11726,679,386 - 26,807,812 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1726,683,175 - 26,807,319 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604445,423,449 - 45,552,140 (+)NCBIVero_WHO_p1.0
Runx2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462475414,601,574 - 14,868,469 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
BE116846  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2916,364,443 - 16,364,597 (+)MAPPERmRatBN7.2
Rnor_6.0918,761,793 - 18,761,946NCBIRnor6.0
Rnor_5.0917,647,074 - 17,647,227UniSTSRnor5.0
RGSC_v3.4912,013,930 - 12,014,083UniSTSRGSC3.4
Celera914,100,624 - 14,100,777UniSTS
RH 3.4 Map988.5UniSTS
Cytogenetic Map9q12UniSTS
PMC150810P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2916,371,765 - 16,371,868 (+)MAPPERmRatBN7.2
Rnor_6.0918,769,113 - 18,769,215NCBIRnor6.0
Rnor_5.0917,654,394 - 17,654,496UniSTSRnor5.0
RGSC_v3.4912,021,250 - 12,021,352UniSTSRGSC3.4
Celera914,107,941 - 14,108,043UniSTS
Cytogenetic Map9q12UniSTS
Runx2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2916,167,726 - 16,168,035 (+)MAPPERmRatBN7.2
Rnor_6.0918,565,038 - 18,565,346NCBIRnor6.0
Rnor_5.0917,451,099 - 17,451,407UniSTSRnor5.0
RGSC_v3.4911,792,215 - 11,792,523UniSTSRGSC3.4
Celera913,904,332 - 13,904,640UniSTS
Cytogenetic Map9q12UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70226Eae4Experimental allergic encephalomyelitis QTL 4nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)9125661317Rat
9589055Scfw5Subcutaneous fat weight QTL 55.550.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)9137999212Rat
7411592Foco8Food consumption QTL 87.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9137999212Rat
9589158Gluco65Glucose level QTL 656.820.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)9137999212Rat
1300124Cm4Cardiac mass QTL 43.55heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)9140594091Rat
1298088Edpm11Estrogen-dependent pituitary mass QTL 112.5pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)9143718459Rat
1641911Alcrsp13Alcohol response QTL 13response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)9143718459Rat
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
1331757Cdexp1CD45RC expression in CD8 T cells QTL 14.3CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)9102453767509080Rat
1354650Despr5Despair related QTL 54.010.0017locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)9125408446254084Rat
2303559Gluco54Glucose level QTL 542blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)9125408446254084Rat
61425Cia15Collagen induced arthritis QTL 154.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)9510982642921101Rat
631211Bw4Body weight QTL45.31retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)9510982650109826Rat
11353947Bp392Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)9728325252283252Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)9795472022071169Rat
9589133Insul26Insulin level QTL 2617.960.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)9895256053952560Rat
7411609Foco16Food consumption QTL 1625.60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)9895256053952560Rat
1600365Mcs20Mammary carcinoma susceptibility QTL 203mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)91353377042791750Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1025
Count of miRNA genes:318
Interacting mature miRNAs:458
Transcripts:ENSRNOT00000061014
Prediction methods:Microtar, Miranda, 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 2
Low 3 10 28 12 19 12 2 2 56 34 37 11 2
Below cutoff 33 29 29 29 6 9 18 1 2 6

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001278483 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001278484 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006244549 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006244550 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006244551 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006244554 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596547 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596548 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596549 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596551 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017596552 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039083954 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039083955 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039083956 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039083957 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB025797 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB115745 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB115746 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB573881 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB573882 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF053950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF053953 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF325502 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473987 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000213 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000061014   ⟹   ENSRNOP00000057733
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl916,167,482 - 16,375,745 (+)Ensembl
Rnor_6.0 Ensembl918,564,927 - 18,773,092 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000097660   ⟹   ENSRNOP00000079678
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl916,167,482 - 16,375,745 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000098417   ⟹   ENSRNOP00000077713
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl916,245,814 - 16,375,745 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000104855   ⟹   ENSRNOP00000079713
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl916,167,616 - 16,492,167 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000116490   ⟹   ENSRNOP00000097985
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl916,167,616 - 16,371,898 (+)Ensembl
RefSeq Acc Id: NM_001278483   ⟹   NP_001265412
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,167,616 - 16,375,745 (+)NCBI
Rnor_6.0918,564,927 - 18,773,092 (+)NCBI
Rnor_5.0917,448,142 - 17,658,373 (+)NCBI
Celera913,904,221 - 14,111,920 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001278484   ⟹   NP_001265413
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,245,814 - 16,375,745 (+)NCBI
Rnor_6.0918,643,570 - 18,773,092 (+)NCBI
Rnor_5.0917,448,142 - 17,658,373 (+)NCBI
Celera913,982,280 - 14,111,920 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006244549   ⟹   XP_006244611
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,167,650 - 16,382,560 (+)NCBI
Rnor_6.0918,565,007 - 18,773,083 (+)NCBI
Rnor_5.0917,448,142 - 17,658,373 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006244550   ⟹   XP_006244612
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,167,520 - 16,382,560 (+)NCBI
Rnor_6.0918,564,743 - 18,773,083 (+)NCBI
Rnor_5.0917,448,142 - 17,658,373 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006244554   ⟹   XP_006244616
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,245,403 - 16,382,560 (+)NCBI
Rnor_6.0918,643,551 - 18,773,083 (+)NCBI
Rnor_5.0917,448,142 - 17,658,373 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017596547   ⟹   XP_017452036
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,167,649 - 16,382,560 (+)NCBI
Rnor_6.0918,565,007 - 18,773,083 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017596548   ⟹   XP_017452037
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,167,648 - 16,382,560 (+)NCBI
Rnor_6.0918,565,007 - 18,773,083 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017596549   ⟹   XP_017452038
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,167,647 - 16,382,560 (+)NCBI
Rnor_6.0918,565,007 - 18,773,083 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017596551   ⟹   XP_017452040
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,245,403 - 16,382,560 (+)NCBI
Rnor_6.0918,643,551 - 18,773,083 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017596552   ⟹   XP_017452041
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,245,403 - 16,382,560 (+)NCBI
Rnor_6.0918,643,551 - 18,773,083 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039083954   ⟹   XP_038939882
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,167,647 - 16,492,826 (+)NCBI
RefSeq Acc Id: XM_039083955   ⟹   XP_038939883
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,167,504 - 16,492,826 (+)NCBI
RefSeq Acc Id: XM_039083956   ⟹   XP_038939884
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,167,504 - 16,492,826 (+)NCBI
RefSeq Acc Id: XM_039083957   ⟹   XP_038939885
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2916,167,647 - 16,492,826 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001265412   ⟸   NM_001278483
- Peptide Label: isoform 1
- UniProtKB: F1M9C5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001265413   ⟸   NM_001278484
- Peptide Label: isoform 2
- Sequence:
RefSeq Acc Id: XP_006244612   ⟸   XM_006244550
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006244611   ⟸   XM_006244549
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006244616   ⟸   XM_006244554
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_017452036   ⟸   XM_017596547
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017452037   ⟸   XM_017596548
- Peptide Label: isoform X8
- Sequence:
RefSeq Acc Id: XP_017452038   ⟸   XM_017596549
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017452040   ⟸   XM_017596551
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017452041   ⟸   XM_017596552
- Peptide Label: isoform X12
- Sequence:
RefSeq Acc Id: ENSRNOP00000057733   ⟸   ENSRNOT00000061014
RefSeq Acc Id: XP_038939883   ⟸   XM_039083955
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038939884   ⟸   XM_039083956
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038939882   ⟸   XM_039083954
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038939885   ⟸   XM_039083957
- Peptide Label: isoform X7
RefSeq Acc Id: ENSRNOP00000097985   ⟸   ENSRNOT00000116490
RefSeq Acc Id: ENSRNOP00000079713   ⟸   ENSRNOT00000104855
RefSeq Acc Id: ENSRNOP00000079678   ⟸   ENSRNOT00000097660
RefSeq Acc Id: ENSRNOP00000077713   ⟸   ENSRNOT00000098417
Protein Domains
Runt

Transcriptome

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


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)
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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
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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/FarMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
HXB10/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LEXF10A/StmMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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)
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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)
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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
9 17654242 17654243 G A snv SBH/Ygl (KNAW), SBH/Ygl (MCW)


Assembly: Rnor_6.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
9 18768961 18768962 G A snv SBH/Ygl (RGD), SBH/Ygl (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2282 AgrOrtholog
Ensembl Genes ENSRNOG00000020193 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000057733 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061014 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.720 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  4.10.770.10 UniProtKB/TrEMBL
InterPro AML1_Runt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  p53-like_TF_DNA-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  p53/RUNT-type_TF_DNA-bd_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Runt_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Runx_central_dom UniProtKB/TrEMBL
  RunxI UniProtKB/TrEMBL
  TF_Runt-rel_RUNX UniProtKB/TrEMBL
KEGG Report rno:367218 UniProtKB/TrEMBL
NCBI Gene 367218 ENTREZGENE
PANTHER PTHR11950 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Runt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RunxI UniProtKB/TrEMBL
PhenoGen Runx2 PhenoGen
PIRSF TF_Runt-rel_RUNX UniProtKB/TrEMBL
PRINTS ONCOGENEAML1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE RUNT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49417 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC202826
UniProt F1M9C5 ENTREZGENE, UniProtKB/TrEMBL