Rack1 (receptor for activated C kinase 1) - Rat Genome Database

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Gene: Rack1 (receptor for activated C kinase 1) Rattus norvegicus
Analyze
Symbol: Rack1
Name: receptor for activated C kinase 1
RGD ID: 69229
Description: Exhibits protein kinase C binding activity. Involved in negative regulation of translation and regulation of protein localization to plasma membrane. Localizes to small ribosomal subunit. Used to study transient cerebral ischemia. Orthologous to human RACK1 (receptor for activated C kinase 1); PARTICIPATES IN hypoxia inducible factor pathway; insulin-like growth factor signaling pathway; protein kinase C (PKC) signaling pathway; INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Gnb2l1; guanine nucleotide binding protein (G protein) beta polypeptide 2-like 1; guanine nucleotide binding protein (G protein), beta polypeptide 2 like 1; guanine nucleotide binding protein (G protein), beta polypeptide 2-like 1; guanine nucleotide binding protein, beta polypeptide 2-like 1; guanine nucleotide-binding protein subunit beta-2-like 1; protein kinase C receptor; receptor for activated C kinase; receptor for activated protein kinase C; receptor of activated protein C kinase 1; receptor of activated protein kinase C 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Related Pseudogenes: LOC100911540  
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21033,169,415 - 33,174,896 (+)NCBI
Rnor_6.0 Ensembl1235,905,358 - 35,906,382 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1034,149,717 - 34,155,198 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01034,149,717 - 34,155,198 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01033,920,259 - 33,939,101 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41034,067,237 - 34,072,593 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11034,068,286 - 34,073,642 (+)NCBI
Celera1032,555,573 - 32,561,054 (+)NCBICelera
Cytogenetic Map10q21NCBI
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
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-dinitrotoluene  (EXP)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
alpha-naphthoflavone  (EXP)
ammonium chloride  (EXP)
androst-4-ene-3,17-dione  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
Brodifacoum  (EXP)
butan-1-ol  (ISO)
cadmium atom  (ISO)
carbamazepine  (ISO)
chloropicrin  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
cumene  (ISO)
cyclosporin A  (ISO)
DDE  (ISO)
DDT  (ISO)
dehydroepiandrosterone  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (ISO)
diazinon  (ISO)
diclofenac  (ISO)
diethylstilbestrol  (ISO)
dopamine  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
ethanol  (EXP,ISO)
ferric ammonium citrate  (ISO)
flutamide  (EXP,ISO)
furan  (EXP)
glafenine  (EXP)
glyphosate  (ISO)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP)
indometacin  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
menadione  (ISO)
methyl methanesulfonate  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nandrolone  (ISO)
nefazodone  (EXP)
nimesulide  (EXP)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
phenylmercury acetate  (ISO)
PhIP  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
propiconazole  (ISO)
prostaglandin A1  (ISO)
quercetin  (ISO)
S-nitroso-N-acetyl-D-penicillamine  (EXP)
Salinomycin  (ISO)
SB 431542  (ISO)
sodium arsenite  (EXP,ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
zearalenone  (ISO)
zinc sulfate  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of cysteine-type endopeptidase activity involved in apoptotic process  (ISO)
apoptotic process  (IEA)
cellular response to glucose stimulus  (ISO)
cellular response to growth factor stimulus  (ISO,ISS)
gastrulation  (IEA)
negative regulation of cell growth  (ISO,ISS)
negative regulation of gene expression  (ISO)
negative regulation of hydrogen peroxide-induced neuron death  (ISO)
negative regulation of peptidyl-serine phosphorylation  (ISO)
negative regulation of phagocytosis  (ISO,ISS)
negative regulation of protein binding  (ISO)
negative regulation of protein kinase B signaling  (ISO)
negative regulation of protein tyrosine kinase activity  (IEA)
negative regulation of smoothened signaling pathway  (ISO)
negative regulation of translation  (IMP)
negative regulation of Wnt signaling pathway  (ISS)
osteoblast differentiation  (HDA)
pigmentation  (ISO)
positive regulation of apoptotic process  (ISO,ISS)
positive regulation of cell migration  (ISO,ISS)
positive regulation of cyclic-nucleotide phosphodiesterase activity  (ISO)
positive regulation of gastrulation  (ISS)
positive regulation of Golgi to plasma membrane protein transport  (ISO,ISS)
positive regulation of GTPase activity  (ISO,ISS)
positive regulation of intrinsic apoptotic signaling pathway  (ISO)
positive regulation of mitochondrial depolarization  (ISO)
positive regulation of proteasomal ubiquitin-dependent protein catabolic process  (ISO,ISS)
positive regulation of protein phosphorylation  (IBA,ISO,ISS)
positive regulation of protein-containing complex assembly  (ISO,ISS)
protein kinase C-activating G protein-coupled receptor signaling pathway  (TAS)
protein ubiquitination  (ISO,ISS)
regulation of cell cycle  (ISO,ISS)
regulation of cell division  (ISS)
regulation of establishment of cell polarity  (ISS)
regulation of protein localization  (ISS)
regulation of protein localization to plasma membrane  (IMP)
rescue of stalled ribosome  (IBA,ISO,ISS)
rhythmic process  (IEA)
translation  (ISO)

Cellular Component

References

Additional References at PubMed
PMID:9584165   PMID:10849009   PMID:11278757   PMID:11279199   PMID:11312657   PMID:11884618   PMID:12826667   PMID:14983009   PMID:15042584   PMID:15140893   PMID:15159402   PMID:15166316  
PMID:15202772   PMID:15489334   PMID:15632090   PMID:16414032   PMID:17108144   PMID:17166942   PMID:17515463   PMID:17900863   PMID:17908799   PMID:18258429   PMID:18504258   PMID:19056867  
PMID:19198660   PMID:19451233   PMID:19674157   PMID:19767770   PMID:19785988   PMID:20010870   PMID:20103773   PMID:20410295   PMID:20499158   PMID:20541605   PMID:20819076   PMID:21347310  
PMID:21844488   PMID:22069327   PMID:22082260   PMID:22658674   PMID:22681889   PMID:22871113   PMID:23212600   PMID:23297403   PMID:23303411   PMID:23376485   PMID:23836701   PMID:24056044  
PMID:24625528   PMID:24947010   PMID:25468996   PMID:26659395   PMID:26711306   PMID:27212270   PMID:28100502   PMID:28132843   PMID:28472300   PMID:29476059   PMID:29511370   PMID:29518365  
PMID:31491465   PMID:32157145  


Genomics

Comparative Map Data
Rack1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21033,169,415 - 33,174,896 (+)NCBI
Rnor_6.0 Ensembl1235,905,358 - 35,906,382 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1034,149,717 - 34,155,198 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01034,149,717 - 34,155,198 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01033,920,259 - 33,939,101 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41034,067,237 - 34,072,593 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11034,068,286 - 34,073,642 (+)NCBI
Celera1032,555,573 - 32,561,054 (+)NCBICelera
Cytogenetic Map10q21NCBI
RACK1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl5181,236,897 - 181,248,096 (-)EnsemblGRCh38hg38GRCh38
GRCh385181,236,897 - 181,243,906 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh375180,663,897 - 180,670,906 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365180,596,534 - 180,603,512 (-)NCBINCBI36hg18NCBI36
Build 345180,596,556 - 180,603,502NCBI
Celera5176,291,782 - 176,298,759 (-)NCBI
Cytogenetic Map5q35.3NCBI
HuRef5175,390,873 - 175,397,848 (-)NCBIHuRef
CHM1_15180,096,332 - 180,103,310 (-)NCBICHM1_1
Rack1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391148,691,187 - 48,697,068 (+)NCBIGRCm39mm39
GRCm39 Ensembl1148,691,159 - 48,697,261 (+)Ensembl
GRCm381148,800,360 - 48,806,241 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1148,800,332 - 48,806,434 (+)EnsemblGRCm38mm10GRCm38
MGSCv371148,613,862 - 48,619,743 (+)NCBIGRCm37mm9NCBIm37
MGSCv361148,643,783 - 48,649,664 (+)NCBImm8
Celera1153,382,599 - 53,388,480 (+)NCBICelera
Cytogenetic Map11B1.2NCBI
Rack1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495553078,426 - 83,297 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495553078,488 - 83,297 (+)NCBIChiLan1.0ChiLan1.0
RACK1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15183,712,665 - 183,720,128 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5183,712,665 - 183,720,128 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v05176,462,991 - 176,470,153 (-)NCBIMhudiblu_PPA_v0panPan3
RACK1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.111426,734 - 431,087 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl11426,215 - 431,089 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha11485,398 - 489,759 (-)NCBI
ROS_Cfam_1.011388,903 - 393,264 (-)NCBI
UMICH_Zoey_3.111361,070 - 365,431 (-)NCBI
UNSW_CanFamBas_1.011448,653 - 453,014 (-)NCBI
UU_Cfam_GSD_1.011610,070 - 614,431 (-)NCBI
Rack1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213117,852,090 - 117,857,037 (+)NCBI
SpeTri2.0NW_004936826748,256 - 753,460 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
RACK1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl257,279,857 - 57,284,855 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1257,280,192 - 57,284,846 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
RACK1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12382,800,211 - 82,805,769 (-)NCBI
ChlSab1.1 Ensembl2382,798,085 - 82,805,936 (-)Ensembl
Rack1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624958181,325 - 185,620 (+)NCBI

Position Markers
RH127943  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.015148,807 - 149,026NCBIRnor6.0
Rnor_6.01034,153,473 - 34,155,033NCBIRnor6.0
Rnor_5.015144,153 - 144,372UniSTSRnor5.0
Rnor_5.01033,937,376 - 33,938,936UniSTSRnor5.0
RGSC_v3.415104,836 - 105,055UniSTSRGSC3.4
RGSC_v3.41034,070,951 - 34,072,511UniSTSRGSC3.4
Celera154,440,546 - 4,440,765UniSTS
Celera1032,559,329 - 32,560,889UniSTS
Cytogenetic Map10q21UniSTS
Cytogenetic Map15p16UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135538813Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138594330Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142669970Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)10144902893Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1076442166221621Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10587753664401490Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10622909575983805Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10622928936185929Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10752145052521450Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101263951357639513Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101263951357639513Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101482789492423564Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101537547462469074Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101646873661468736Rat
6893350Bw99Body weight QTL 990.870.16body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
6893352Bw100Body weight QTL 1000.330.6body mass (VT:0001259)body weight (CMO:0000012)11712154262121542Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101824639453637634Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101940281464402814Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)1020170031102897474Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102152390683549467Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)12152390690312401Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)12152390690312401Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102152390690312401Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102170776664648311Rat
631531Iresp2Immunoglobin response QTL26.3blood immunoglobulin E amount (VT:0002492)serum total immunoglobulin E level (CMO:0001542)102240281738204229Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102290149793886300Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102386101566539843Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1023861015112626471Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)102488408447487910Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102723753064648311Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)1027237530101482600Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1027237530102427718Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102878928073789280Rat
1600371Mcs21Mammary carcinoma susceptibility QTL 213mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)103002135454057745Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103009990975099909Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)103098380575983805Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103191939778343192Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103317903078179030Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103334319278343192Rat


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 2 2 3 2 2 4 3
Medium 3 43 55 39 16 39 8 11 72 31 38 11 8
Low 1 1 1 2 1 1 1
Below cutoff 1 2 12 3 13 3 2 2 2 1 6 5 2

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_130734 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC109931 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC063809 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473948 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ210071 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ212638 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213067 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ213571 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215527 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215555 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ215812 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216167 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ216212 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218475 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ218650 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219434 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219492 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219693 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219729 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219878 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ219900 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220151 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220286 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220314 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220391 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220419 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220428 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220430 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220472 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220494 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220585 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220697 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220809 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220819 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ220976 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221075 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221140 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221218 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ221286 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ222502 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223733 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ223855 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ224952 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225312 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225511 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225843 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226802 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ228007 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229157 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229247 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229306 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229458 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229569 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229616 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229633 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229689 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229737 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229758 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229872 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229908 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229911 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229916 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ229923 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230018 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230117 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ230328 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ232368 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ233024 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234000 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ234673 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ235255 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000219 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U03390 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000072179   ⟹   ENSRNOP00000068758
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1235,905,358 - 35,906,382 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000084232   ⟹   ENSRNOP00000074147
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1034,149,717 - 34,155,198 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000089829   ⟹   ENSRNOP00000071017
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1034,149,752 - 34,154,738 (+)Ensembl
RefSeq Acc Id: NM_130734   ⟹   NP_570090
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21033,169,415 - 33,174,896 (+)NCBI
Rnor_6.01034,149,717 - 34,155,198 (+)NCBI
Rnor_5.01033,920,259 - 33,939,101 (+)NCBI
RGSC_v3.41034,067,237 - 34,072,593 (+)RGD
Celera1032,555,573 - 32,561,054 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_570090 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA18951 (Get FASTA)   NCBI Sequence Viewer  
  AAH63809 (Get FASTA)   NCBI Sequence Viewer  
  EDM04193 (Get FASTA)   NCBI Sequence Viewer  
  EDM04194 (Get FASTA)   NCBI Sequence Viewer  
  P63245 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_570090   ⟸   NM_130734
- UniProtKB: P63245 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071017   ⟸   ENSRNOT00000089829
RefSeq Acc Id: ENSRNOP00000074147   ⟸   ENSRNOT00000084232
RefSeq Acc Id: ENSRNOP00000068758   ⟸   ENSRNOT00000072179
Protein Domains
WD_REPEATS_REGION

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 (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 (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
10 33938960 33938961 T G snv SR/JrHsd (MCW)


Assembly: RGSC_v3.4

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
10 34072535 34072536 T G snv SR/JrHsd (MCW)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69229 AgrOrtholog
Ensembl Genes ENSRNOG00000049070 Ensembl, UniProtKB/Swiss-Prot
  ENSRNOG00000052620 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000068758 UniProtKB/Swiss-Prot
  ENSRNOP00000071017 UniProtKB/TrEMBL
  ENSRNOP00000074147 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000072179 UniProtKB/Swiss-Prot
  ENSRNOT00000084232 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000089829 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6919982 IMAGE-MGC_LOAD
InterPro G-protein_beta_WD-40_rep UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40_repeat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40_repeat_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40_repeat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:83427 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72712 IMAGE-MGC_LOAD
NCBI Gene 83427 ENTREZGENE
Pfam WD40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Rack1 PhenoGen
PRINTS GPROTEINBRPT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE WD_REPEATS_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD_REPEATS_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD_REPEATS_REGION UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART WD40 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50978 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC228638
UniProt A0A0G2JZE6_RAT UniProtKB/TrEMBL
  P63245 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary P25388 UniProtKB/Swiss-Prot
  P99049 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-27 Rack1  receptor for activated C kinase 1  Gnb2l1  guanine nucleotide binding protein (G protein), beta polypeptide 2 like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-11-17 Gnb2l1  guanine nucleotide binding protein (G protein), beta polypeptide 2 like 1      Name updated 1299863 APPROVED
2002-06-10 Gnb2l1  guanine nucleotide binding protein, beta polypeptide 2-like 1      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference