Ccne1 (cyclin E1) - Rat Genome Database

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Gene: Ccne1 (cyclin E1) Rattus norvegicus
Analyze
Symbol: Ccne1
Name: cyclin E1
RGD ID: 2294
Description: Enables protein kinase binding activity. Involved in several processes, including animal organ development; response to nutrient; and response to steroid hormone. Located in centrosome; cytoplasm; and nucleus. Biomarker of hepatocellular carcinoma; hypertension; and ovarian carcinoma. Human ortholog(s) of this gene implicated in breast adenocarcinoma. Orthologous to human CCNE1 (cyclin E1); PARTICIPATES IN G1/S transition pathway; mTOR signaling pathway; cell cycle pathway, mitotic; INTERACTS WITH (-)-citrinin; (R)-mevalonic acid; (Z)-3-butylidenephthalide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Ccne; CYCLE; cyclin E; G1/S-specific cyclin-E1
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
mRatBN7.2190,781,947 - 90,791,188 (-)NCBI
Rnor_6.0 Ensembl194,485,832 - 94,494,980 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0194,485,830 - 94,495,112 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0195,575,136 - 95,584,387 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4190,568,189 - 90,577,426 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1190,646,304 - 90,655,502 (-)NCBI
Celera185,114,968 - 85,124,206 (-)NCBICelera
RH 3.4 Map1885.7RGD
Cytogenetic Map1q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-citrinin  (EXP,ISO)
(-)-demecolcine  (ISO)
(R)-mevalonic acid  (EXP)
(S)-naringenin  (ISO)
(S)-nicotine  (ISO)
(Z)-3-butylidenephthalide  (EXP,ISO)
1-(4-methoxybenzyl)-3-(5-nitro-1,3-thiazol-2-yl)urea  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
14-Deoxy-11,12-didehydroandrographolide  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
19-Nor-17alpha-pregn-5(10)-en-20-yne-3alpha,17beta-diol  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,3,3-tetrafluoro-2-(heptafluoropropoxy)propanoic acid  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,6-di-tert-butyl-4-methylphenol  (ISO)
2,6-dinitrotoluene  (EXP)
2-acetamidofluorene  (EXP)
2-butoxyethanol  (ISO)
2-hydroxypropanoic acid  (ISO)
2-trans,6-trans,10-trans-geranylgeranyl diphosphate  (EXP)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,3',5-triiodo-L-thyronine  (EXP,ISO)
3,7-dihydropurine-6-thione  (EXP)
3-[(4-anilinophenyl)diazenyl]benzene-1-sulfonic acid  (EXP)
3-[3-(tert-butylsulfanyl)-1-(4-chlorobenzyl)-5-(propan-2-yl)-1H-indol-2-yl]-2,2-dimethylpropanoic acid  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-(ethoxymethylene)-2-phenyloxazol-5-one  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (ISO)
4-nonylphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
5-formyltetrahydrofolic acid  (ISO)
5-methoxypsoralen  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (EXP,ISO)
acrylamide  (EXP,ISO)
acrylonitrile  (ISO)
acteoside  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (EXP,ISO)
aldehydo-D-glucose  (EXP)
all-trans-retinoic acid  (EXP,ISO)
allose  (ISO)
alvocidib  (ISO)
amlodipine  (ISO)
ammonium chloride  (EXP)
amsacrine  (ISO)
andrographolide  (ISO)
androstane  (ISO)
aniline  (EXP)
antroquinonol  (ISO)
arotinoid acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
Aspidin  (ISO)
atropine  (ISO)
baicalein  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzoates  (ISO)
berberine  (ISO)
bexarotene  (ISO)
bifenthrin  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
brassinolide  (ISO)
bromobenzene  (EXP)
budesonide  (ISO)
Butylparaben  (ISO)
butyric acid  (EXP)
C.I. Natural Red 20  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calciol  (ISO)
camostat  (ISO)
camptothecin  (ISO)
cannabidiol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carmustine  (EXP)
cefaloridine  (EXP)
chlorohydrocarbon  (ISO)
chlorpyrifos  (ISO)
choline  (EXP,ISO)
ciprofloxacin  (ISO)
cisplatin  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
coumarin  (EXP,ISO)
coumestrol  (ISO)
crocidolite asbestos  (ISO)
curcumin  (EXP,ISO)
Cyclopamine  (ISO)
cyclosporin A  (ISO)
cyprodinil  (ISO)
D-glucose  (EXP)
daunorubicin  (ISO)
Deguelin  (ISO)
deoxynivalenol  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dibutyl phthalate  (ISO)
dichloroacetic acid  (ISO)
diclofenac  (ISO)
dieldrin  (EXP)
diethanolamine  (EXP,ISO)
diethylstilbestrol  (ISO)
dioscin  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
entinostat  (ISO)
Estragole  (EXP,ISO)
estriol  (ISO)
ethanol  (ISO)
ethidium  (ISO)
fenhexamid  (ISO)
flavanones  (ISO)
fludioxonil  (ISO)
flumequine  (ISO)
fluoxetine  (ISO)
folic acid  (ISO)
fraxetin  (ISO)
fulvestrant  (ISO)
furan  (EXP)
gadolinium trichloride  (ISO)
gallic acid  (ISO)
gamma-linolenic acid  (ISO)
gamma-tocopherol  (ISO)
genistein  (EXP,ISO)
gingerol  (ISO)
ginsenoside Rg1  (ISO)
glucose  (EXP)
glyphosate  (ISO)
GW 3965  (ISO)
GW 4064  (ISO)
hexachlorobenzene  (ISO)
hydrogen chloride  (ISO)
hydrogen peroxide  (ISO)
hydroxyurea  (ISO)
indole-3-methanol  (ISO)
indometacin  (EXP)
iodoacetic acid  (ISO)
isoprene  (ISO)
kainic acid  (EXP)
lactacystin  (ISO)
lapatinib  (ISO)
lead diacetate  (ISO)
Licochalcone B  (ISO)
lidocaine  (ISO)
LY294002  (ISO)
lycopene  (ISO)
magnesium atom  (EXP)
malachite green cation  (EXP)
malathion  (ISO)
MeIQx  (ISO)
menadione  (ISO)
mercaptopurine  (EXP)
metformin  (EXP,ISO)
methamphetamine  (EXP)
methotrexate  (EXP,ISO)
methoxyacetic acid  (EXP)
methoxychlor  (EXP)
methyl isocyanate  (ISO)
methylarsonic acid  (EXP)
methylisothiazolinone  (ISO)
methylmercury chloride  (EXP)
methylparaben  (ISO)
mifepristone  (ISO)
ML-7  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
monobenzyl phthalate  (ISO)
monoethyl phthalate  (ISO)
N-(6-acetamidohexyl)acetamide  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-nitrosodiethylamine  (EXP,ISO)
naringin  (EXP,ISO)
nickel atom  (ISO)
nickel dichloride  (EXP)
nicotine  (ISO)
nitrofurazone  (EXP)
Nonylphenol  (ISO)
ochratoxin A  (EXP,ISO)
oligomycin A  (ISO)
omacetaxine mepesuccinate  (ISO)
orlistat  (ISO)
oxaliplatin  (EXP,ISO)
ozone  (EXP,ISO)
paclitaxel  (ISO)
palbociclib  (ISO)
Panduratin A  (ISO)
paracetamol  (ISO)
paraquat  (ISO)
parathion  (ISO)
PCB138  (ISO)
PD 0325901  (ISO)
pentachlorophenol  (EXP)
perfluorooctanoic acid  (ISO)
phenethyl caffeate  (EXP,ISO)
phenethyl isothiocyanate  (ISO)
phenobarbital  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
phosphatidylcholine  (ISO)
pinosylvin  (ISO)
pioglitazone  (ISO)
pirinixic acid  (EXP,ISO)
procymidone  (EXP)
progesterone  (ISO)
propylparaben  (ISO)
pterostilbene  (EXP)
purine-6-thiol  (EXP)
pyrrolidine dithiocarbamate  (EXP)
quercetin  (ISO)
rac-lactic acid  (ISO)
resveratrol  (EXP,ISO)
retinyl acetate  (ISO)
Ro 41-5253  (ISO)
rubitecan  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
silver(1+) nitrate  (ISO)
simvastatin  (EXP)
sodium arsenite  (ISO)
sodium dichromate  (EXP)
sorafenib  (ISO)
sulforaphane  (ISO)
sulindac  (ISO)
tamoxifen  (EXP,ISO)
taurocholic acid  (ISO)
teriflunomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thioacetamide  (EXP)
thymoquinone  (EXP)
tioguanine  (EXP)
titanium dioxide  (EXP,ISO)
tocopherol  (ISO)
toluene 2,4-diisocyanate  (ISO)
topotecan  (EXP,ISO)
trabectedin  (ISO)
trans-pinosylvin  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
trimethylarsine oxide  (EXP)
Triptolide  (ISO)
troglitazone  (ISO)
tropan-3alpha-yl 3-hydroxy-2-phenylpropanoate  (ISO)
tungsten  (ISO)
tyrphostin AG 1478  (ISO)
ursolic acid  (ISO)
valproic acid  (ISO)
vemurafenib  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vitamin E  (EXP)
vorinostat  (ISO)
wortmannin  (ISO)
zearalenone  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
1. Adelaide J, etal., Cancer Res. 2007 Dec 15;67(24):11565-75.
2. Akli S, etal., Cancer Res. 2007 Aug 1;67(15):7212-22.
3. Bahnassy AA, etal., J Egypt Natl Canc Inst. 2006 Dec;18(4):292-302.
4. Berglund P, etal., J Clin Pathol. 2007 May 4;.
5. Bora PS, etal., FEBS J. 2006 Apr;273(7):1403-14.
6. Boylan JM and Gruppuso PA, Biochem Biophys Res Commun. 2005 May 13;330(3):722-30.
7. Burke K, etal., Neurotoxicology. 2006 Dec;27(6):970-81. Epub 2006 Sep 15.
8. Cannon JD, etal., Mol Cell Endocrinol. 2007 Jan 29;264(1-2):6-15. Epub 2006 Nov 7.
9. Christov K, etal., Breast Cancer Res Treat. 2003 Feb;77(3):253-64.
10. Davidson B, etal., Cancer. 2007 Sep 15;110(6):1264-71.
11. Drobic V, etal., Am J Physiol Heart Circ Physiol. 2007 Aug;293(2):H1053-64. Epub 2007 May 4.
12. Eder AM, etal., Proc Natl Acad Sci U S A. 2005 Aug 30;102(35):12519-24. Epub 2005 Aug 22.
13. Erlandsson F, etal., Br J Cancer. 2006 Apr 10;94(7):1045-50.
14. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
15. GOA data from the GO Consortium
16. Horree N, etal., J Clin Pathol. 2008 Jan;61(1):36-42. Epub 2007 May 4.
17. Hur K, etal., J Vet Sci. 2000 Dec;1(2):121-6.
18. Ito K, etal., Exp Toxicol Pathol. 2005 Apr;56(6):333-9.
19. Jiang W, etal., Cancer Res. 2003 Mar 15;63(6):1228-34.
20. Jin YR, etal., J Cell Biochem. 2007 Nov 2;.
21. Kaczmarek P, etal., Pol J Pathol. 2006;57(1):41-4.
22. Kan Q, etal., Proc Natl Acad Sci U S A. 2008 Mar 25;105(12):4757-62. doi: 10.1073/pnas.0706392105. Epub 2008 Mar 20.
23. Kim KK, etal., Pathol Int. 2003 May;53(5):291-6.
24. Kopplow K, etal., Int J Oncol. 2005 Dec;27(6):1551-8.
25. Koroxenidou L, etal., J Hepatol. 2005 Sep;43(3):478-84.
26. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
27. Lee WS, etal., Endocrinology. 2003 Jul;144(7):2785-90.
28. Maddison LA, etal., Prostate. 2004 Mar 1;58(4):335-44.
29. Malumbres M and Barbacid M, Trends Biochem Sci. 2005 Nov;30(11):630-41. Epub 2005 Oct 19.
30. Matsumoto Y and Maller JL, Science. 2004 Oct 29;306(5697):885-8.
31. Mauriz JL, etal., Transl Res. 2007 Jan;149(1):46-53.
32. MGD data from the GO Consortium
33. Morante M, etal., Free Radic Res. 2005 Oct;39(10):1127-38.
34. Müller-Tidow C, etal., Cancer Res. 2001 Jan 15;61(2):647-53.
35. Nauman A, etal., Acta Biochim Pol. 2007;54(3):595-602. Epub 2007 Aug 28.
36. NCBI rat LocusLink and RefSeq merged data July 26, 2002
37. Pipeline to import KEGG annotations from KEGG into RGD
38. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
39. Pujol MJ, etal., J Hepatol. 2000 Aug;33(2):266-74.
40. Reactome
41. Ren S, etal., Int J Biochem Cell Biol. 2020 Aug;125:105777. doi: 10.1016/j.biocel.2020.105777. Epub 2020 Jun 3.
42. RGD automated data pipeline
43. RGD automated import pipeline for gene-chemical interactions
44. Rider V, etal., J Endocrinol. 2005 Jan;184(1):119-27.
45. Ryu JY, etal., J Toxicol Environ Health A. 2007 Aug;70(15-16):1296-303.
46. Santegoets LA, etal., Int J Cancer. 2007 Aug 15;121(4):759-66.
47. Schmidt BA, etal., Cancer Res. 2001 May 15;61(10):4214-21.
48. Shai A, etal., Cancer Res. 2007 Feb 15;67(4):1626-35.
49. Shariat SF, etal., Hum Pathol. 2006 Dec;37(12):1568-76. Epub 2006 Aug 10.
50. Shariat SF, etal., Urol Oncol. 2007 Nov-Dec;25(6):468-75.
51. Sherr CJ Cancer Res. 2000 Jul 15;60(14):3689-95.
52. Shi SY, etal., J Biol Chem. 2017 Mar 3;292(9):3789-3799. doi: 10.1074/jbc.M116.752519. Epub 2017 Jan 18.
53. Tamura K, etal., Oncogene 1993 Aug;8(8):2113-8.
54. Tanner FC, etal., Hypertension. 2003 Aug;42(2):184-8. Epub 2003 Jul 7.
55. Tian DS, etal., Zhonghua Yi Xue Za Zhi. 2006 Apr 4;86(13):901-5.
56. Tosca L, etal., Biol Reprod. 2006 Sep;75(3):342-51. Epub 2006 Jun 7.
57. Yao A, etal., Transpl Immunol. 2007 Jul;18(1):37-43. Epub 2007 Mar 13.
58. Zhang Y, etal., Biochem Biophys Res Commun. 2007 Nov 9;363(1):159-64. Epub 2007 Aug 31.
59. Zhao G, etal., Biochem Biophys Res Commun 2002 Mar 29;292(2):474-81.
60. Zhu Z, etal., Carcinogenesis. 2003 Jul;24(7):1225-31. Epub 2003 May 9.
Additional References at PubMed
PMID:7739547   PMID:7797074   PMID:8673024   PMID:8889548   PMID:9344597   PMID:10500095   PMID:11384971   PMID:11981756   PMID:12124778   PMID:12149264   PMID:12477932   PMID:12722479  
PMID:12941272   PMID:12970171   PMID:12970760   PMID:14985333   PMID:16109376   PMID:18278459   PMID:18305109   PMID:18359940   PMID:19056892   PMID:19407981   PMID:19723762   PMID:19942931  
PMID:21167253   PMID:21761349   PMID:22713240   PMID:23083510   PMID:23618858   PMID:23771653   PMID:24586195   PMID:24647953   PMID:25175461   PMID:25732226  


Genomics

Comparative Map Data
Ccne1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2190,781,947 - 90,791,188 (-)NCBI
Rnor_6.0 Ensembl194,485,832 - 94,494,980 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0194,485,830 - 94,495,112 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0195,575,136 - 95,584,387 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4190,568,189 - 90,577,426 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1190,646,304 - 90,655,502 (-)NCBI
Celera185,114,968 - 85,124,206 (-)NCBICelera
RH 3.4 Map1885.7RGD
Cytogenetic Map1q21NCBI
CCNE1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1929,811,991 - 29,824,312 (+)EnsemblGRCh38hg38GRCh38
GRCh381929,811,991 - 29,824,312 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371930,302,898 - 30,315,219 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361934,994,741 - 35,007,059 (+)NCBINCBI36hg18NCBI36
Build 341934,995,400 - 35,007,058NCBI
Celera1927,001,121 - 27,013,439 (+)NCBI
Cytogenetic Map19q12NCBI
HuRef1926,814,506 - 26,826,846 (+)NCBIHuRef
CHM1_11930,304,072 - 30,316,380 (+)NCBICHM1_1
Ccne1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39737,797,409 - 37,806,915 (-)NCBIGRCm39mm39
GRCm39 Ensembl737,797,409 - 37,806,959 (-)Ensembl
GRCm38738,097,984 - 38,107,490 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl738,097,984 - 38,107,534 (-)EnsemblGRCm38mm10GRCm38
MGSCv37738,883,003 - 38,892,509 (-)NCBIGRCm37mm9NCBIm37
MGSCv36737,806,744 - 37,816,090 (-)NCBImm8
Celera733,255,165 - 33,271,131 (-)NCBICelera
Cytogenetic Map7B3NCBI
cM Map725.35NCBI
Ccne1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554687,803,346 - 7,814,872 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554687,803,610 - 7,814,872 (-)NCBIChiLan1.0ChiLan1.0
CCNE1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11935,497,576 - 35,509,289 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1935,496,700 - 35,510,295 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01926,739,285 - 26,751,630 (+)NCBIMhudiblu_PPA_v0panPan3
CCNE1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11121,688,622 - 121,697,533 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1121,688,796 - 121,697,649 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1121,057,141 - 121,067,963 (-)NCBI
ROS_Cfam_1.01122,317,344 - 122,328,414 (-)NCBI
UMICH_Zoey_3.11121,897,115 - 121,908,170 (-)NCBI
UNSW_CanFamBas_1.01121,503,639 - 121,514,505 (-)NCBI
UU_Cfam_GSD_1.01122,568,738 - 122,579,545 (-)NCBI
Ccne1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244093496,098,056 - 6,108,393 (+)NCBI
SpeTri2.0NW_0049365705,536,817 - 5,547,880 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCNE1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl639,919,624 - 39,933,366 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1639,919,541 - 39,933,224 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2635,242,127 - 35,255,298 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CCNE1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1624,879,923 - 24,888,985 (+)NCBI
Vero_WHO_p1.0NW_0236660732,422,215 - 2,433,635 (+)NCBI
Ccne1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247944,957,156 - 4,967,058 (+)NCBI

Position Markers
D1Bda17  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2190,782,249 - 90,782,469 (+)MAPPER
Rnor_6.0194,486,133 - 94,486,352NCBIRnor6.0
Rnor_5.0195,575,439 - 95,575,658UniSTSRnor5.0
RGSC_v3.4190,568,492 - 90,568,711UniSTSRGSC3.4
Celera185,115,271 - 85,115,490UniSTS
Cytogenetic Map1q22UniSTS
RH94399  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2190,781,980 - 90,782,135 (+)MAPPER
Rnor_6.0194,485,864 - 94,486,018NCBIRnor6.0
Rnor_5.0195,575,170 - 95,575,324UniSTSRnor5.0
RGSC_v3.4190,568,223 - 90,568,377UniSTSRGSC3.4
Celera185,115,002 - 85,115,156UniSTS
RH 3.4 Map1885.7UniSTS
Cytogenetic Map1q22UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15655769122614963Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)123406428108057505Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)125951907130917265Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134993530173445086Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)135377692217372257Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143579208126240667Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143579208126240667Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143579208126240667Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143579208126240667Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)143579208126240667Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143579208126240667Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)149147799156446783Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14957857794578577Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149578577169852184Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149578693217054291Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)157761301104391981Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)158209327103209327Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)158354072161711996Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)164588516125875986Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)166113339122614963Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)179134941113593716Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)179689548124689548Rat
61433Cia2Collagen induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)17968976594909507Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)182788437239853971Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)183502376128502376Rat
2313083Bmd74Bone mineral density QTL 7440.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)183656882126240667Rat
61344Bp29Blood pressure QTL 297.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)185779320130779320Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)185917265130917265Rat
4889494Scort2Serum corticosterone level QTL 24.2blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)186776571131776571Rat
2300324Fetw1Fetal weight QTL 112.10.005fetal growth trait (VT:0004201)fetal body weight (CMO:0002080)188634585106002500Rat
724529Cm16Cardiac mass QTL 162.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)190804143161321256Rat
738022Anxrr13Anxiety related response QTL 134.60.00039locomotor behavior trait (VT:0001392)number of 20 x 20 cm floor squares crossed into, out of or within a discrete space in an experimental apparatus (CMO:0001514)191093646136093646Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)194201400184846632Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)194201400197187904Rat
1302788Scl19Serum cholesterol QTL 194.60.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)194225372130917265Rat
1300153Bp171Blood pressure QTL 1713.37arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194364073153076991Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:339
Count of miRNA genes:194
Interacting mature miRNAs:233
Transcripts:ENSRNOT00000020014
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 1 26 30 24 15 24 63 18 34
Low 2 14 25 15 4 15 4 5 11 14 7 11 4
Below cutoff 3 2 2 2 4 6 3 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000020014   ⟹   ENSRNOP00000020014
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl194,485,832 - 94,494,980 (-)Ensembl
RefSeq Acc Id: NM_001100821   ⟹   NP_001094291
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2190,781,947 - 90,791,188 (-)NCBI
Rnor_6.0194,485,830 - 94,495,067 (-)NCBI
Rnor_5.0195,575,136 - 95,584,387 (-)NCBI
RGSC_v3.4190,568,189 - 90,577,426 (-)RGD
Celera185,114,968 - 85,124,206 (-)RGD
Sequence:
RefSeq Acc Id: XM_006228904   ⟹   XP_006228966
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2190,781,947 - 90,791,101 (-)NCBI
Rnor_6.0194,485,830 - 94,495,112 (-)NCBI
Rnor_5.0195,575,136 - 95,584,387 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001094291 (Get FASTA)   NCBI Sequence Viewer  
  XP_006228966 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI62008 (Get FASTA)   NCBI Sequence Viewer  
  BAA09640 (Get FASTA)   NCBI Sequence Viewer  
  EDM07591 (Get FASTA)   NCBI Sequence Viewer  
  P39949 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001094291   ⟸   NM_001100821
- UniProtKB: B1WC54 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006228966   ⟸   XM_006228904
- Peptide Label: isoform X1
- UniProtKB: B1WC54 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000020014   ⟸   ENSRNOT00000020014
Protein Domains
Cyclin N-terminal

Transcriptome

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

Promoters
RGD ID:13689977
Promoter ID:EPDNEW_R502
Type:multiple initiation site
Name:Ccne1_1
Description:cyclin E1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0194,495,077 - 94,495,137EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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 (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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
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
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
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)
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 (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)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
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 (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 (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:2294 AgrOrtholog
Ensembl Genes ENSRNOG00000014786 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020014 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020014 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9090267 IMAGE-MGC_LOAD
InterPro Cyclin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyclin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyclin-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyclin_C-dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyclin_E UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyclin_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25729 UniProtKB/TrEMBL
MGC_CLONE MGC:187868 IMAGE-MGC_LOAD
NCBI Gene 25729 ENTREZGENE
PANTHER PTHR10177 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10177:SF71 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Cyclin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyclin_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ccne1 PhenoGen
PROSITE CYCLINS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CYCLIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Cyclin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF47954 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt B1WC54 ENTREZGENE, UniProtKB/TrEMBL
  CCNE1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary O09138 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-01-25   cyclin E1  Ccne1  cyclin E  Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2004-09-10 Ccne1  cyclin E  Ccne    Symbol and Name updated 1299863 APPROVED
2002-06-10 Ccne  Cyclin E      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease expression is lower in the thioacetamide-induced cirrhosis after partial hepatectomy 70813
gene_process can malignantly transform primary rat embryo fibroblasts in cooperation with constitutively active Ha-Ras and is involved in the development of methyl-nitroso-urea-induced T-cell lymphomas 68222
gene_process activates Cdk2 and also binds p27Kip1 68222