Cdk4 (cyclin-dependent kinase 4) - Rat Genome Database
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Gene: Cdk4 (cyclin-dependent kinase 4) Rattus norvegicus
Analyze
Symbol: Cdk4
Name: cyclin-dependent kinase 4
RGD ID: 621120
Description: Exhibits cyclin binding activity and cyclin-dependent protein serine/threonine kinase activity. Involved in several processes, including positive regulation of cell size; response to hyperoxia; and response to testosterone. Localizes to nucleus and perinuclear region of cytoplasm. Biomarker of pancreatic cancer; prostatic hypertrophy; and urinary bladder cancer. Human ortholog(s) of this gene implicated in several diseases, including carcinoma (multiple); familial melanoma; glioblastoma; obesity; and type 2 diabetes mellitus. Orthologous to human CDK4 (cyclin dependent kinase 4); PARTICIPATES IN G1/S transition pathway; cell cycle pathway, mitotic; ceramide signaling pathway; INTERACTS WITH (Z)-3-butylidenephthalide; 1,3-dinitrobenzene; 17alpha-ethynylestradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: cell division protein kinase 4; LOC100362034; PSK-J3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2762,885,647 - 62,889,562 (+)NCBI
Rnor_6.0 Ensembl770,349,863 - 70,352,418 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0770,345,971 - 70,352,689 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0770,527,545 - 70,530,391 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.1767,037,674 - 67,039,905 (+)NCBI
Celera760,029,956 - 60,032,798 (+)NCBICelera
Cytogenetic Map7q22NCBI
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
(-)-epigallocatechin 3-gallate  (ISO)
(20R)-protopanaxadiol  (ISO)
(S)-nicotine  (ISO)
(Z)-3-butylidenephthalide  (EXP,ISO)
1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
1,3-thiazolidine-2,4-dione  (ISO)
1-(4-methoxybenzyl)-3-(5-nitro-1,3-thiazol-2-yl)urea  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
19-Nor-17alpha-pregn-5(10)-en-20-yne-3alpha,17beta-diol  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,3,3-tetrafluoro-2-(heptafluoropropoxy)propanoic acid  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP)
2-methoxy-17beta-estradiol  (ISO)
2-nitrofluorene  (EXP)
2-tert-butylhydroquinone  (ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3,3'-diindolylmethane  (ISO)
3-[(4-anilinophenyl)diazenyl]benzene-1-sulfonic acid  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-nitropropanoic acid  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP,ISO)
4-amino-2,6-dinitrotoluene  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-azacytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
7,12-dimethyltetraphene  (EXP)
acetaldehyde  (EXP)
acetylsalicylic acid  (ISO)
acrylamide  (ISO)
Actein  (ISO)
acteoside  (ISO)
aflatoxin B1  (EXP,ISO)
albuterol  (ISO)
all-trans-retinoic acid  (EXP,ISO)
alpha-Zearalanol  (ISO)
alvocidib  (ISO)
amlodipine  (ISO)
ammonium chloride  (EXP)
andrographolide  (ISO)
aniline  (EXP)
antroquinonol  (ISO)
arecoline  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
baicalein  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzoic acid  (ISO)
berberine  (ISO)
beta-ionone  (ISO)
bezafibrate  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
BMS-754807  (ISO)
brassinolide  (ISO)
busulfan  (ISO)
Butylparaben  (ISO)
butyric acid  (EXP)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
calcitriol  (ISO)
calix[6]arene  (ISO)
canertinib  (ISO)
capsaicin  (EXP)
captan  (ISO)
carbon nanotube  (ISO)
carbonyl cyanide p-trifluoromethoxyphenylhydrazone  (ISO)
celecoxib  (ISO)
chromium(6+)  (EXP,ISO)
ciglitazone  (EXP,ISO)
cisplatin  (ISO)
clofibrate  (ISO)
clofibric acid  (EXP)
clotrimazole  (ISO)
clozapine  (EXP)
cobalt dichloride  (ISO)
cocaine  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
coptisine  (ISO)
corticosterone  (EXP)
coumarin  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
daidzein  (ISO)
DDT  (ISO)
Deguelin  (ISO)
dexamethasone  (ISO)
Diacetoxyscirpenol  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
dibutyl phthalate  (ISO)
dichlorine  (EXP)
diethyl sulfate  (ISO)
diethylstilbestrol  (EXP,ISO)
dihydro-beta-erythroidine  (ISO)
dimethylarsinous acid  (ISO)
dinitrogen  (ISO)
disodium selenite  (ISO)
doxorubicin  (ISO)
dronedarone  (ISO)
elemental selenium  (ISO)
emodin  (ISO)
enzyme inhibitor  (ISO)
erlotinib hydrochloride  (ISO)
esculetin  (EXP)
ethyl trans-caffeate  (ISO)
flavonoids  (EXP)
flutamide  (EXP)
folic acid  (ISO)
folpet  (ISO)
fulvestrant  (ISO)
furan  (EXP)
galangin  (ISO)
gamma-tocopherol  (ISO)
geldanamycin  (ISO)
genistein  (ISO)
gentamycin  (EXP)
geraniol  (ISO)
gingerol  (ISO)
glafenine  (EXP)
glutathione  (EXP)
glycitein  (ISO)
glyphosate  (ISO)
haloperidol  (EXP)
hesperetin  (ISO)
Hexamethonium  (ISO)
hydralazine  (ISO)
hydroxyurea  (ISO)
indole-3-methanol  (ISO)
indolin-2-one  (ISO)
indometacin  (ISO)
iodoacetic acid  (ISO)
juglone  (ISO)
L-ascorbic acid  (EXP,ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lidocaine  (ISO)
lovastatin  (EXP)
LY294002  (ISO)
lycopene  (ISO)
malachite green cation  (EXP)
melatonin  (ISO)
melittin  (ISO)
menadione  (ISO)
menaquinone  (ISO)
metformin  (ISO)
methapyrilene  (EXP)
methotrexate  (ISO)
methoxychlor  (ISO)
methylparaben  (ISO)
methylseleninic acid  (ISO)
miconazole  (ISO)
microcystin RR  (ISO)
microcystin-LR  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monobenzyl phthalate  (ISO)
monoethyl phthalate  (ISO)
N-acetyl-L-cysteine  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (EXP,ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (EXP)
naringin  (EXP,ISO)
nefazodone  (EXP)
nickel atom  (ISO)
nickel dichloride  (EXP)
niclosamide  (ISO)
nicotine  (ISO)
ochratoxin A  (ISO)
orlistat  (ISO)
ozone  (EXP)
paclitaxel  (ISO)
palbociclib  (ISO)
Panduratin A  (ISO)
paracetamol  (ISO)
pentachlorophenol  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
phenylephrine  (EXP)
PhIP  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
pinosylvin  (ISO)
piperine  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP,ISO)
poly(propylene imine) macromolecule  (ISO)
ponatinib  (ISO)
potassium iodide  (EXP)
progesterone  (ISO)
propylparaben  (ISO)
pterostilbene  (EXP)
pyrazinecarboxamide  (EXP)
pyrogallol  (ISO)
pyrrolidine dithiocarbamate  (EXP)
quercetin  (ISO)
quizartinib  (ISO)
resveratrol  (ISO)
ritonavir  (ISO)
rottlerin  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 203580  (EXP)
selenium atom  (ISO)
selumetinib  (ISO)
silibinin  (ISO)
simvastatin  (EXP,ISO)
sirolimus  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP,ISO)
sodium fluoride  (ISO)
sorafenib  (ISO)
sulindac  (EXP,ISO)
sunitinib  (ISO)
T-2 toxin  (EXP)
tanespimycin  (ISO)
terephthalic acid  (EXP)
tetrachloromethane  (EXP,ISO)
thimerosal  (ISO)
thioacetamide  (ISO)
thioridazine  (ISO)
thymoquinone  (EXP)
tocopherol  (ISO)
trans-pinosylvin  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
Triptolide  (ISO)
troglitazone  (ISO)
Tryptanthrine  (ISO)
tubocurarine  (ISO)
tungsten  (ISO)
urea  (ISO)
urethane  (ISO)
ursolic acid  (ISO)
usnic acid  (ISO)
valproic acid  (ISO)
vemurafenib  (ISO)
vinyl carbamate  (ISO)
vitamin E  (ISO)
vorinostat  (ISO)
wogonin  (EXP,ISO)
Y-27632  (EXP)
zidovudine  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
neoplasm  (IDA)
References

References - curated
1. Alvira D, etal., Neuroscience. 2007 Apr 25;146(1):350-65. Epub 2007 Mar 7.
2. An HX, etal., Am J Pathol. 1999 Jan;154(1):113-8.
3. Atkins DJ, etal., Virchows Arch. 2005 Sep;447(3):634-42. Epub 2005 Jul 1.
4. Bahnassy AA, etal., J Egypt Natl Canc Inst. 2006 Dec;18(4):292-302.
5. Beauchamp RD, etal., Ann Surg. 1996 May;223(5):620-7; discussion 627-8.
6. Bem Z and Birecka A, Pol Przegl Radiol Med Nukl 1978 Mar-Apr;42(2):115-7.
7. Bonin S, etal., Virchows Arch. 2006 May;448(5):539-44. Epub 2006 Jan 27.
8. Boylan JM and Gruppuso PA, Biochem Biophys Res Commun. 2005 May 13;330(3):722-30.
9. Cheung TH, etal., Cancer Lett. 2001 May 26;166(2):199-206.
10. Cho FS, etal., Biochem Biophys Res Commun 1993 Mar 31;191(3):860-5.
11. Ciznadija D, etal., Cancer Res. 2011 Oct 1;71(19):6174-83. doi: 10.1158/0008-5472.CAN-11-1031. Epub 2011 Aug 15.
12. Cui L, etal., Urol Res. 2006 Oct;34(5):321-8. Epub 2006 Jul 29.
13. Deng X, etal., J Neurooncol. 2013 Sep;114(3):263-74. doi: 10.1007/s11060-013-1179-2. Epub 2013 Jun 13.
14. Faussillon M, etal., Cancer Lett. 2005 Apr 18;221(1):67-75.
15. Gao CY, etal., Exp Eye Res 1999 Dec;69(6):695-703.
16. Gao Y, etal., Zhongguo Dang Dai Er Ke Za Zhi. 2007 Dec;9(6):595-600.
17. Gattringer B Nervenarzt 1977 Jun;48(6):326-30.
18. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
19. Gillam MP, etal., Oncogene. 2015 Feb 12;34(7):932-8. doi: 10.1038/onc.2014.3. Epub 2014 Feb 17.
20. GOA data from the GO Consortium
21. Grundschober C, etal., J Biol Chem 2001 Dec 14;276(50):46751-8.
22. Hussein N, etal., Endocr Relat Cancer. 2008 Mar;15(1):217-27.
23. Isohookana J, etal., Pathol Res Pract. 2018 Jun;214(6):840-847. doi: 10.1016/j.prp.2018.04.016. Epub 2018 May 1.
24. Keutgen XM, etal., Cancer. 2018 Feb 1;124(3):636-647. doi: 10.1002/cncr.31057. Epub 2017 Nov 17.
25. Kikuchi M, etal., Invest Ophthalmol Vis Sci. 2004 Jun;45(6):1763-70.
26. Koivisto C, etal., Toxicol Pathol. 2012 Jul;40(5):751-63. doi: 10.1177/0192623312441407. Epub 2012 Apr 3.
27. Leake K, etal., PLoS One. 2012;7(4):e34582. doi: 10.1371/journal.pone.0034582. Epub 2012 Apr 3.
28. Li C, etal., Toxicol Appl Pharmacol. 2008 Jun 15;229(3):351-61. Epub 2008 Feb 16.
29. Lingfei K, etal., Cancer Lett. 1998 Aug 14;130(1-2):93-101.
30. Liu W, etal., Am J Cancer Res. 2014 May 26;4(3):256-69. eCollection 2014.
31. Malumbres M and Barbacid M, Trends Biochem Sci. 2005 Nov;30(11):630-41. Epub 2005 Oct 19.
32. Mao CQ, etal., Mol Ther. 2014 May;22(5):964-73. doi: 10.1038/mt.2014.18. Epub 2014 Feb 5.
33. Meenakshisundaram R and Gragnoli C, J Cell Physiol. 2009 Nov;221(2):273-5.
34. Meenakshisundaram R, etal., Diabetes Res Clin Pract. 2009 Nov;86(2):e28-30. Epub 2009 Aug 19.
35. MGD data from the GO Consortium
36. Miyawaki K, etal., Diabetes Res Clin Pract. 2008 Oct;82(1):33-41. Epub 2008 Aug 3.
37. NCBI rat LocusLink and RefSeq merged data July 26, 2002
38. Obaya AJ, etal., J Biol Chem 2002 Aug 23;277(34):31263-9.
39. OMIM Disease Annotation Pipeline
40. Online Mendelian Inheritance in Man, OMIM (TM).
41. Pipeline to import KEGG annotations from KEGG into RGD
42. Qiu C, etal., Cancer Res. 2003 Sep 15;63(18):5674-8.
43. Quentin T, etal., Anticancer Res. 2004 Mar-Apr;24(2B):1011-23.
44. Rane SG, etal., Nat Genet. 1999 May;22(1):44-52.
45. Reactome
46. RGD automated data pipeline
47. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
48. RGD automated import pipeline for gene-chemical interactions
49. Schmidt BA, etal., Cancer Res. 2001 May 15;61(10):4214-21.
50. Semczuk A, etal., Arch Gynecol Obstet. 2004 Jan;269(2):104-10. Epub 2002 Nov 22.
51. Sherr CJ Cancer Res. 2000 Jul 15;60(14):3689-95.
52. Shukla S and Gupta S, Mol Cancer Ther. 2006 Apr;5(4):843-52.
53. Simon R, etal., Oncogene. 2002 Apr 11;21(16):2476-83.
54. Smith E, etal., Cancer Res. 1995 Nov 1;55(21):5019-24.
55. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
56. Suh DS, etal., Int J Gynecol Cancer. 2008 May-Jun;18(3):492-8. Epub 2007 Aug 10.
57. Tamamori-Adachi M, etal., Biochem Biophys Res Commun 2002 Aug 16;296(2):274-80.
58. Tang LH, etal., Clin Cancer Res. 2012 Sep 1;18(17):4612-20. doi: 10.1158/1078-0432.CCR-11-3264. Epub 2012 Jul 3.
59. Wagner M, etal., Genes Dev. 2001 Feb 1;15(3):286-93.
60. Wierod L, etal., Cell Prolif. 2007 Aug;40(4):475-87.
61. Yan J and Brown TR, Endocrinology. 2008 Jan;149(1):193-207. Epub 2007 Oct 25.
62. Yang S, etal., World J Gastroenterol. 2006 Feb 21;12(7):1063-70.
63. Yu Q, etal., Cancer Cell. 2006 Jan;9(1):23-32.
64. Zheng S, etal., Genes Dev. 2013 Jul 1;27(13):1462-72. doi: 10.1101/gad.213686.113. Epub 2013 Jun 24.
Additional References at PubMed
PMID:7603984   PMID:7739547   PMID:8114739   PMID:8543804   PMID:8988060   PMID:9190208   PMID:10082561   PMID:11384971   PMID:12124778   PMID:12130539   PMID:12588994   PMID:12917627  
PMID:12970171   PMID:12970760   PMID:15489334   PMID:15645444   PMID:15958724   PMID:15975997   PMID:16109376   PMID:17253961   PMID:17420273   PMID:17556661   PMID:17996899   PMID:18291362  
PMID:18700867   PMID:18775106   PMID:18827403   PMID:19124461   PMID:19306950   PMID:19351720   PMID:19533683   PMID:20181929   PMID:20399237   PMID:20466002   PMID:21179739   PMID:21411630  
PMID:21508411   PMID:21628965   PMID:21737690   PMID:22258892   PMID:22322893   PMID:23109711   PMID:23827822   PMID:24244372   PMID:25241353   PMID:26657864   PMID:26975029   PMID:27894668  
PMID:28983608   PMID:29024678   PMID:30701428  


Genomics

Candidate Gene Status
Cdk4 is a candidate Gene for QTL Ept7
Comparative Map Data
Cdk4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2762,885,647 - 62,889,562 (+)NCBI
Rnor_6.0 Ensembl770,349,863 - 70,352,418 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0770,345,971 - 70,352,689 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0770,527,545 - 70,530,391 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.1767,037,674 - 67,039,905 (+)NCBI
Celera760,029,956 - 60,032,798 (+)NCBICelera
Cytogenetic Map7q22NCBI
CDK4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1257,747,727 - 57,756,013 (-)EnsemblGRCh38hg38GRCh38
GRCh381257,747,727 - 57,752,310 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371258,141,510 - 58,146,093 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361256,428,270 - 56,432,431 (-)NCBINCBI36hg18NCBI36
Build 341256,428,271 - 56,432,431NCBI
Celera1257,799,597 - 57,803,758 (-)NCBI
Cytogenetic Map12q14.1NCBI
HuRef1255,178,350 - 55,183,070 (-)NCBIHuRef
CHM1_11258,109,315 - 58,114,035 (-)NCBICHM1_1
Cdk4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3910126,899,404 - 126,903,157 (+)NCBIGRCm39mm39
GRCm39 Ensembl10126,899,403 - 126,903,789 (+)Ensembl
GRCm3810127,063,535 - 127,067,288 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl10127,063,534 - 127,067,920 (+)EnsemblGRCm38mm10GRCm38
MGSCv3710126,500,659 - 126,504,339 (+)NCBIGRCm37mm9NCBIm37
MGSCv3610126,466,564 - 126,470,344 (+)NCBImm8
Celera10129,456,113 - 129,459,793 (+)NCBICelera
Cytogenetic Map10D3NCBI
Cdk4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554585,453,732 - 5,460,718 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554585,457,927 - 5,460,718 (-)NCBIChiLan1.0ChiLan1.0
CDK4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11231,434,594 - 31,438,876 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1231,434,594 - 31,438,876 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01231,174,446 - 31,178,597 (+)NCBIMhudiblu_PPA_v0panPan3
CDK4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl101,812,886 - 1,815,789 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.1101,812,864 - 1,815,815 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cdk4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366461,886,262 - 1,889,260 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDK4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl523,038,889 - 23,042,061 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1523,039,206 - 23,041,959 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CDK4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11153,661,877 - 53,665,688 (-)NCBI
ChlSab1.1 Ensembl1153,659,336 - 53,664,861 (-)Ensembl
Cdk4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462480210,191,679 - 10,194,585 (+)NCBI

Position Markers
PMC212738P3  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0770,350,048 - 70,350,249NCBIRnor6.0
Rnor_5.0770,527,750 - 70,527,951UniSTSRnor5.0
Celera760,030,157 - 60,030,358UniSTS
Cytogenetic Map7q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)72920071124838025Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)712328467106995532Rat
1300132Bp182Blood pressure QTL 1823.49arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)72536563393155402Rat
7411569Bw137Body weight QTL 1370.001body mass (VT:0001259)body weight gain (CMO:0000420)72820465373204653Rat
1641885Alcrsp9Alcohol response QTL 9alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)73138152976381529Rat
1549840Bss5Bone structure and strength QTL 59.8femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)73203505377035053Rat
61439Cia8Collagen induced arthritis QTL 85.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)73257294277572942Rat
70190Mcs6Mammary carcinoma susceptibility QTL 62.29mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)73304444971352127Rat
10402855Bp379Blood pressure QTL 3790.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)73586772980867729Rat
1300127Srn1Serum renin concentration QTL 13.87blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)73586772993155402Rat
10755453Coatc12Coat color QTL 120coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)73854770683547706Rat
631534Lnnr1Liver neoplastic nodule remodeling QTL 13.850.001liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)74087268285872682Rat
7411605Foco14Food consumption QTL 1424.10.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)74087268285872682Rat
631513Scl7Serum cholesterol level QTL 74.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)74530157390301573Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)748118835128611831Rat
634326Hc3Hypercalciuria QTL 32.1urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)75025210395252103Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)750704769128085642Rat
10053722Scort27Serum corticosterone level QTL 272.410.0083blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)75079381895793818Rat
1358361Sradr5Stress Responsive Adrenal Weight QTL 55.55adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)751251919118477612Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)751251919145729302Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)751252005111589099Rat
61428Scl3Serum cholesterol level QTL 33.2blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)75320034498200344Rat
738030Anxrr8Anxiety related response QTL 84.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)75425951299259512Rat
10059605Kidm47Kidney mass QTL 472.910.05kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)75453499673293934Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)755072862123602998Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)755072862123602998Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)755072862123602998Rat
2300178Bmd54Bone mineral density QTL 545.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)755495689100495689Rat
2293644Bmd29Bone mineral density QTL 295.40.0001femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)755495689100495689Rat
2293667Bss42Bone structure and strength QTL 427.250.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)755495689100495689Rat
2293678Bss24Bone structure and strength QTL 246.710.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)755495689100495689Rat
2293685Bmd21Bone mineral density QTL 214.20.0003femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)755495689100495689Rat
2293696Bmd32Bone mineral density QTL 325.10.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)755495689100495689Rat
2293707Bss32Bone structure and strength QTL 327.640.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)755495689100495689Rat
1300151Bp181Blood pressure QTL 1813.36arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)761047589113228378Rat
2317035Aia16Adjuvant induced arthritis QTL 162.71joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)768518460113518460Rat
1576303Ept7Estrogen-induced pituitary tumorigenesis QTL 73.7pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)769399586111043530Rat
1559283Emca4Estrogen-induced mammary cancer QTL 43.7mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)769399586111043530Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:235
Count of miRNA genes:151
Interacting mature miRNAs:165
Transcripts:ENSRNOT00000031796
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 2 2 2 22 10 9
Medium 3 43 55 39 19 39 8 11 52 25 32 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000031796   ⟹   ENSRNOP00000034754
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl770,349,863 - 70,352,418 (+)Ensembl
RefSeq Acc Id: NM_053593   ⟹   NP_446045
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2762,886,096 - 62,889,562 (+)NCBI
Rnor_6.0770,345,971 - 70,352,689 (+)NCBI
Rnor_5.0770,527,545 - 70,530,391 (+)NCBI
Celera760,029,956 - 60,032,798 (+)RGD
Sequence:
RefSeq Acc Id: XM_017595138   ⟹   XP_017450627
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0770,346,004 - 70,352,689 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039079996   ⟹   XP_038935924
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2762,885,647 - 62,889,562 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_446045   ⟸   NM_053593
- UniProtKB: P35426 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017450627   ⟸   XM_017595138
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000034754   ⟸   ENSRNOT00000031796
RefSeq Acc Id: XP_038935924   ⟸   XM_039079996
- Peptide Label: isoform X1
Protein Domains
Protein kinase

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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
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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)
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
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)
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)
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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)
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
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)
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 (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
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (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)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (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:621120 AgrOrtholog
Ensembl Genes ENSRNOG00000025602 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000034754 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000031796 ENTREZGENE, UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:6921199 IMAGE-MGC_LOAD
  IMAGE:7104124 IMAGE-MGC_LOAD
InterPro Kinase-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot_kinase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Protein_kinase_ATP_BS UniProtKB/Swiss-Prot
  Ser/Thr_kinase_AS UniProtKB/Swiss-Prot
KEGG Report rno:94201 UniProtKB/Swiss-Prot
MGC_CLONE MGC:72728 IMAGE-MGC_LOAD
  MGC:91543 IMAGE-MGC_LOAD
NCBI Gene 94201 ENTREZGENE
Pfam Pkinase UniProtKB/Swiss-Prot
PhenoGen Cdk4 PhenoGen
PROSITE PROTEIN_KINASE_ATP UniProtKB/Swiss-Prot
  PROTEIN_KINASE_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN_KINASE_ST UniProtKB/Swiss-Prot
SMART S_TKc UniProtKB/Swiss-Prot
Superfamily-SCOP SSF56112 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CDK4_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q71VC8_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-04-17 Cdk4  cyclin-dependent kinase 4  LOC100362034  cyclin-dependent kinase 4  Data Merged 737654 PROVISIONAL
2010-05-05 LOC100362034  cyclin-dependent kinase 4      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Cdk4  cyclin-dependent kinase 4      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Cdk4  cyclin-dependent kinase 4      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease may mediate hypertrophic growth of cardiomyocytes in cardiac hypertrophy 704385
gene_physical_interaction interacts with Ccnd3 70761
gene_process plays a key role in the G1/S transition in cell cycle 70761