Rock1 (Rho-associated coiled-coil containing protein kinase 1) - Rat Genome Database

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Gene: Rock1 (Rho-associated coiled-coil containing protein kinase 1) Rattus norvegicus
Analyze
Symbol: Rock1
Name: Rho-associated coiled-coil containing protein kinase 1
RGD ID: 620424
Description: Enables small GTPase binding activity. Involved in cytoskeleton organization; positive regulation of gene expression; and response to transforming growth factor beta. Acts upstream of or within Rho protein signal transduction. Predicted to be located in lamellipodium; plasma membrane; and ruffle. Predicted to be part of amyloid-beta complex. Predicted to be active in cytoplasmic stress granule and cytoskeleton. Orthologous to human ROCK1 (Rho associated coiled-coil containing protein kinase 1); PARTICIPATES IN E-cadherin signaling pathway; eicosanoid signaling pathway; ephrin - ephrin receptor bidirectional signaling axis; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: liver regeneration-related protein LRRG199; p150 RhoA-binding kinase ROK beta; p160 ROCK-1; P160Rock; Rho-associated coiled-coil forming kinase 1; Rho-associated kinase beta; rho-associated protein kinase 1; rho-associated, coiled-coil-containing protein kinase 1; rho-associated, coiled-coil-containing protein kinase I; ROCK-I
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
mRatBN7.2181,114,532 - 1,236,345 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl181,115,905 - 1,235,571 (-)Ensembl
Rnor_6.0181,273,490 - 1,390,790 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl181,273,453 - 1,390,190 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0181,316,022 - 1,433,175 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4181,391,751 - 1,511,865 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1181,391,824 - 1,511,866 (-)NCBI
Celera181,001,677 - 1,120,847 (-)NCBICelera
Cytogenetic Map18p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,8-cineole  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,4-methylenedioxymethamphetamine  (ISO)
4-vinylcyclohexene dioxide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
aflatoxin M1  (ISO)
aldehydo-D-glucose  (EXP,ISO)
Alkannin  (ISO)
all-trans-retinoic acid  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
aspartame  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP)
Brodifacoum  (EXP)
bufalin  (ISO)
cadmium dichloride  (EXP,ISO)
calciol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
chloroprene  (EXP)
chromium atom  (EXP)
cisplatin  (ISO)
clobetasol  (ISO)
clofibric acid  (EXP)
cobalt dichloride  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
D-glucose  (EXP,ISO)
daunorubicin  (EXP)
deguelin  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
diclofenac  (ISO)
dicrotophos  (ISO)
dimethylarsinic acid  (EXP)
dioxygen  (EXP,ISO)
disodium selenite  (ISO)
doxorubicin  (ISO)
emodin  (ISO)
endosulfan  (EXP,ISO)
ethanol  (ISO)
fasudil  (EXP,ISO)
Ginkgoic acid  (ISO)
glucose  (EXP,ISO)
glycyrrhetinate  (ISO)
glycyrrhetinic acid  (ISO)
hyaluronic acid  (ISO)
hypochlorous acid  (ISO)
ivermectin  (ISO)
lead diacetate  (ISO)
maneb  (ISO)
methoxychlor  (ISO)
methylmercury chloride  (ISO)
methylmercury(1+)  (ISO)
miconazole  (ISO)
monosodium L-glutamate  (ISO)
N-nitrosodiethylamine  (EXP)
niclosamide  (ISO)
notoginsenoside R1  (EXP)
ochratoxin A  (ISO)
ouabain  (ISO)
paclitaxel  (ISO)
pamidronate  (ISO)
paraquat  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenethyl isothiocyanate  (EXP)
phenobarbital  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
propiconazole  (ISO)
pyridaben  (ISO)
pyrimidifen  (ISO)
quercetin  (ISO)
quercitrin  (ISO)
raloxifene  (EXP)
resveratrol  (ISO)
rotenone  (ISO)
silicon dioxide  (ISO)
sodium arsenate  (ISO)
sorafenib  (EXP)
streptozocin  (EXP)
succimer  (ISO)
testosterone  (EXP,ISO)
tipifarnib  (EXP)
tributylstannane  (ISO)
Tributyltin oxide  (ISO)
Triptolide  (EXP,ISO)
troglitazone  (ISO)
tungsten  (ISO)
valproic acid  (EXP,ISO)
Y-27632  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
actin cytoskeleton organization  (IEA,ISO)
actomyosin structure organization  (IBA)
aortic valve morphogenesis  (ISO)
apical constriction  (IEA,ISO)
apoptotic process  (IEA)
bleb assembly  (IEA,ISO)
blood vessel diameter maintenance  (IEA,ISO)
cellular response to transforming growth factor beta stimulus  (ISO)
cortical actin cytoskeleton organization  (IBA,IEA,ISO)
cytoskeleton organization  (IMP)
embryonic morphogenesis  (IBA)
epithelial to mesenchymal transition  (IEA,ISO)
glomerular visceral epithelial cell migration  (IEA,ISO,ISS)
I-kappaB kinase/NF-kappaB signaling  (IEA,ISO)
leukocyte cell-cell adhesion  (ISO)
leukocyte migration  (ISO)
leukocyte tethering or rolling  (IEA,ISO)
membrane to membrane docking  (IEA,ISO)
mitotic cytokinesis  (IBA)
mRNA destabilization  (IEA,ISO)
myoblast migration  (IEA,ISO,ISS)
negative regulation of amyloid precursor protein catabolic process  (ISO)
negative regulation of amyloid-beta formation  (IEA,ISO)
negative regulation of angiogenesis  (IEA,ISO)
negative regulation of bicellular tight junction assembly  (IEA,ISO)
negative regulation of biomineral tissue development  (ISO)
negative regulation of endopeptidase activity  (IEA)
negative regulation of myosin-light-chain-phosphatase activity  (IEA,ISO)
negative regulation of neuron apoptotic process  (IEA,ISO)
negative regulation of phosphorylation  (IEA,ISO,ISS)
negative regulation of protein binding  (IEA,ISO)
neuron projection arborization  (IEA,ISO)
neuron projection development  (ISO)
peptidyl-serine phosphorylation  (IEA,ISO)
peptidyl-threonine phosphorylation  (IBA)
positive regulation of amyloid-beta clearance  (IEA,ISO)
positive regulation of autophagy  (IEA,ISO)
positive regulation of cardiac muscle hypertrophy  (IEA,ISO)
positive regulation of connective tissue replacement  (IEA,ISO)
positive regulation of dephosphorylation  (ISO)
positive regulation of focal adhesion assembly  (IEA,ISO,ISS)
positive regulation of gene expression  (IEA,IMP,ISO)
positive regulation of MAPK cascade  (IEA,ISO)
positive regulation of phosphatase activity  (ISO)
positive regulation of protein localization to nucleus  (ISO)
protein localization to plasma membrane  (IEA,ISO)
protein phosphorylation  (IEA,ISO,ISS)
regulation of actin cytoskeleton organization  (IEA,ISO,ISS)
regulation of actin filament-based process  (ISO)
regulation of angiotensin-activated signaling pathway  (IEA,ISO)
regulation of cell junction assembly  (IBA)
regulation of cell migration  (IEA,ISO,ISS)
regulation of establishment of endothelial barrier  (IEA,ISO)
regulation of keratinocyte differentiation  (IEA,ISO)
regulation of microtubule cytoskeleton organization  (IEA,ISO,ISS)
regulation of neuron differentiation  (IEA,ISO)
regulation of synaptic vesicle endocytosis  (IEA,ISO)
response to angiotensin  (IEA,ISO)
response to transforming growth factor beta  (IEA,IGI,ISO)
Rho protein signal transduction  (IBA,IEA,IMP,ISO)

Cellular Component
amyloid-beta complex  (IEA,ISO)
bleb  (IEA)
centriole  (IEA)
cytoplasm  (IBA,IEA)
cytoplasmic stress granule  (IBA,IEA,ISO)
cytoskeleton  (IBA,IEA,ISO,ISS)
Golgi membrane  (IEA)
lamellipodium  (IEA,ISO,ISS)
plasma membrane  (IEA,ISO,ISS)
ruffle  (IEA,ISO,ISS)

References

Additional References at PubMed
PMID:9353125   PMID:10652353   PMID:11018042   PMID:11956230   PMID:12082081   PMID:15071095   PMID:15336547   PMID:15476589   PMID:15834419   PMID:15857906   PMID:15865439   PMID:15988321  
PMID:16249236   PMID:16322374   PMID:16390872   PMID:16396994   PMID:16741948   PMID:16890527   PMID:16904666   PMID:17065553   PMID:17071121   PMID:17135244   PMID:17177859   PMID:17220176  
PMID:17554619   PMID:17654484   PMID:18316075   PMID:18356698   PMID:18469113   PMID:18573880   PMID:18599801   PMID:18640982   PMID:18694941   PMID:18819929   PMID:19036714   PMID:19052484  
PMID:19080536   PMID:19106222   PMID:19131646   PMID:19181962   PMID:19427347   PMID:19524675   PMID:19746421   PMID:19782753   PMID:19799911   PMID:19915157   PMID:19942308   PMID:19997641  
PMID:20086008   PMID:20665664   PMID:20724941   PMID:20970835   PMID:21297020   PMID:21385940   PMID:21685893   PMID:21920940   PMID:22031832   PMID:22215561   PMID:22219271   PMID:22235829  
PMID:22566503   PMID:22883550   PMID:22987919   PMID:23093407   PMID:23258382   PMID:23325464   PMID:23402758   PMID:23826343   PMID:23899007   PMID:24305806   PMID:24398620   PMID:24637663  
PMID:24792035   PMID:24982890   PMID:25121106   PMID:25150189   PMID:25264049   PMID:25460182   PMID:25695625   PMID:25712270   PMID:25807302   PMID:25816133   PMID:25911094   PMID:25922200  
PMID:26010004   PMID:26169356   PMID:26194354   PMID:26342084   PMID:26377600   PMID:26391686   PMID:26634652   PMID:27075764   PMID:27094551   PMID:27160703   PMID:27333569   PMID:27351828  
PMID:27430620   PMID:27760762   PMID:27853422   PMID:28054559   PMID:28131915   PMID:28277985   PMID:28300565   PMID:28656263   PMID:28820400   PMID:28821742   PMID:29029794   PMID:29219181  
PMID:29353861   PMID:29383848   PMID:29791873   PMID:29795210   PMID:30132575   PMID:30212830   PMID:30546117   PMID:31078707   PMID:31625671   PMID:31904090   PMID:31940260   PMID:31970784  
PMID:32031069   PMID:32308124   PMID:32813542   PMID:33283391   PMID:33450132   PMID:33495839   PMID:33538509  


Genomics

Comparative Map Data
Rock1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2181,114,532 - 1,236,345 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl181,115,905 - 1,235,571 (-)Ensembl
Rnor_6.0181,273,490 - 1,390,790 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl181,273,453 - 1,390,190 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0181,316,022 - 1,433,175 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4181,391,751 - 1,511,865 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1181,391,824 - 1,511,866 (-)NCBI
Celera181,001,677 - 1,120,847 (-)NCBICelera
Cytogenetic Map18p13NCBI
ROCK1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1820,946,906 - 21,111,813 (-)EnsemblGRCh38hg38GRCh38
GRCh381820,946,906 - 21,111,813 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371818,526,867 - 18,691,774 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361816,783,699 - 16,945,810 (-)NCBINCBI36hg18NCBI36
Build 341816,787,532 - 16,944,869NCBI
Celera1815,335,539 - 15,497,459 (-)NCBI
Cytogenetic Map18q11.1NCBI
HuRef1815,376,598 - 15,538,887 (-)NCBIHuRef
CHM1_11818,456,721 - 18,618,879 (-)NCBICHM1_1
Rock1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391810,064,401 - 10,182,225 (-)NCBIGRCm39mm39
GRCm39 Ensembl1810,064,401 - 10,182,045 (-)Ensembl
GRCm381810,064,401 - 10,182,251 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1810,064,401 - 10,182,045 (-)EnsemblGRCm38mm10GRCm38
MGSCv371810,064,399 - 10,181,790 (-)NCBIGRCm37mm9NCBIm37
MGSCv361810,067,465 - 10,181,315 (-)NCBImm8
Celera1810,094,528 - 10,211,725 (-)NCBICelera
Cytogenetic Map18A1NCBI
Rock1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554029,750,730 - 9,864,317 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554029,752,101 - 9,864,317 (-)NCBIChiLan1.0ChiLan1.0
ROCK1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11817,831,594 - 17,991,039 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1817,833,047 - 17,990,086 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01814,192,293 - 14,352,357 (-)NCBIMhudiblu_PPA_v0panPan3
ROCK1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1766,862,614 - 67,001,538 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl766,862,608 - 67,142,853 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha766,316,405 - 66,455,341 (+)NCBI
ROS_Cfam_1.0766,927,186 - 67,066,094 (+)NCBI
UMICH_Zoey_3.1766,592,264 - 66,730,420 (+)NCBI
UNSW_CanFamBas_1.0766,616,250 - 66,754,480 (+)NCBI
UU_Cfam_GSD_1.0766,917,945 - 67,056,895 (+)NCBI
Rock1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494462,941,517 - 63,085,618 (+)NCBI
SpeTri2.0NW_004936550730,462 - 874,601 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ROCK1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6106,163,903 - 106,314,944 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16106,163,899 - 106,314,998 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2698,710,281 - 98,860,883 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ROCK1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11859,384,822 - 59,538,780 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl1859,384,944 - 59,540,070 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605034,174,637 - 34,329,252 (+)NCBIVero_WHO_p1.0
Rock1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477010,592,304 - 10,731,640 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH127505  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2181,120,397 - 1,120,573 (+)MAPPERmRatBN7.2
Rnor_6.0181,279,266 - 1,279,441NCBIRnor6.0
Rnor_5.0181,321,700 - 1,321,875UniSTSRnor5.0
RGSC_v3.4181,396,306 - 1,396,481UniSTSRGSC3.4
Celera181,006,194 - 1,006,369UniSTS
RH 3.4 Map1832.2UniSTS
Cytogenetic Map18p13UniSTS
Cytogenetic Map4q21UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552968Pigfal19Plasma insulin-like growth factor 1 level QTL 1911.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)18125758124Rat
9590248Scort10Serum corticosterone level QTL 1019.710.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)18125758124Rat
2312598Bp340Blood pressure QTL 3400.05arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)18130558703Rat
2300180Bmd67Bone mineral density QTL 674.80.0001femur mineral mass (VT:0010011)bone mineral density (CMO:0001226)18134291613Rat
2293661Bss50Bone structure and strength QTL 504.640.0003lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)18134291613Rat
61388Bp2Blood pressure QTL 23.23arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)18135374722Rat
9589153Insul31Insulin level QTL 317.150.05blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)18142547119Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:296
Count of miRNA genes:196
Interacting mature miRNAs:217
Transcripts:ENSRNOT00000051362, ENSRNOT00000061777
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 42 57 41 19 41 7 7 74 35 39 11 7
Low 1 1 4 2 1
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001389239 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_031098 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NR_171200 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254400 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006254401 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017601044 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB861944 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC112592 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY325220 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474073 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225206 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225361 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225745 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226384 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226654 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227403 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227757 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230380 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231013 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232504 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234394 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234715 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000298 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U61266 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000051362   ⟹   ENSRNOP00000047378
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl181,115,905 - 1,235,571 (-)Ensembl
Rnor_6.0 Ensembl181,276,391 - 1,389,929 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000061777   ⟹   ENSRNOP00000058491
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl181,115,905 - 1,200,920 (-)Ensembl
Rnor_6.0 Ensembl181,273,453 - 1,390,190 (-)Ensembl
RefSeq Acc Id: NM_001389239   ⟹   NP_001376168
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2181,114,532 - 1,236,324 (-)NCBI
RefSeq Acc Id: NR_171200
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2181,114,532 - 1,236,324 (-)NCBI
RefSeq Acc Id: XM_006254401   ⟹   XP_006254463
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2181,114,532 - 1,236,345 (-)NCBI
Rnor_6.0181,273,584 - 1,390,790 (-)NCBI
Rnor_5.0181,316,022 - 1,433,175 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_006254463   ⟸   XM_006254401
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000047378   ⟸   ENSRNOT00000051362
RefSeq Acc Id: ENSRNOP00000058491   ⟸   ENSRNOT00000061777
RefSeq Acc Id: NP_001376168   ⟸   NM_001389239
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)
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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
ACI/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/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
ACI/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
ACI/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (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
BN/NHsdMcwi (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
BN/NHsdMcwi (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
BN/SsN (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
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (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
BXH2/CubMcwi (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
BXH3/CubMcwi (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
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (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
F344/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
F344/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
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/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
FHH/EurMcwi (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
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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)
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)
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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)
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)
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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)
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)
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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)
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)
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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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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)
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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)
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)
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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)
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620424 AgrOrtholog
Ensembl Genes ENSRNOG00000031092 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000047378 UniProtKB/TrEMBL
  ENSRNOP00000058491 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051362 UniProtKB/TrEMBL
  ENSRNOT00000061777 UniProtKB/TrEMBL
Gene3D-CATH 2.30.29.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro AGC-kinase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HR1_rho-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PE/DAG-bd UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rho-bd_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ROCK1/ROCK2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ROCK1_HR1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 81762 ENTREZGENE
Pfam Pkinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rho_Binding UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rock1 PhenoGen
PIRSF Rho_kinase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE AGC_KINASE_CTER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  REM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  RHO_BD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_DAG_PE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART S_TK_X UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  S_TKc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00109 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00233 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt D3ZN37_RAT UniProtKB/TrEMBL
  D4A5S0_RAT UniProtKB/TrEMBL
  Q63644 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q7TP31 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-25 Rock1  Rho-associated coiled-coil containing protein kinase 1  Rock1  Rho-associated coiled-coil forming kinase 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Rock1  Rho-associated coiled-coil forming kinase 1    Rho-associated kinase beta  Name updated 1299863 APPROVED
2002-08-07 Rock1  Rho-associated kinase beta      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_physical_interaction binds RhoA, RhoB, and RhoC but not Rac1 and Cdc42 633784
gene_process involved in GATA-4-dependent endothelin-1 transcription 619546
gene_protein molecular mass of 160 kDa 633784
gene_regulation MEK induces down-regulation of ROCK expression 633785