E2f1 (E2F transcription factor 1) - Rat Genome Database

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Gene: E2f1 (E2F transcription factor 1) Rattus norvegicus
Analyze
Symbol: E2f1
Name: E2F transcription factor 1
RGD ID: 728892
Description: Enables protein kinase binding activity and sequence-specific DNA binding activity. Involved in several processes, including cellular response to hypoxia; cellular response to nerve growth factor stimulus; and positive regulation of glial cell proliferation. Located in cytoplasm and nucleus. Biomarker of Huntington's disease and pancreatic cancer. Human ortholog(s) of this gene implicated in lung non-small cell carcinoma; lung small cell carcinoma; lung squamous cell carcinoma; pancreatic adenocarcinoma; and pancreatic ductal adenocarcinoma. Orthologous to human E2F1 (E2F transcription factor 1); PARTICIPATES IN cell cycle pathway, mitotic; ceramide signaling pathway; chronic myeloid leukemia pathway; INTERACTS WITH (-)-citrinin; (-)-epigallocatechin 3-gallate; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: E2F-1; transcription factor E2F1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: Strains:   SD  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23143,064,535 - 143,075,362 (-)NCBImRatBN7.2
Rnor_6.03150,062,895 - 150,073,721 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3150,047,826 - 150,073,721 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03156,435,530 - 156,446,390 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43145,032,489 - 145,043,729 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13144,943,133 - 144,943,246 (-)NCBI
Celera3141,799,009 - 141,809,945 (-)NCBICelera
Cytogenetic Map3q41NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-citrinin  (EXP)
(-)-epigallocatechin 3-gallate  (EXP)
(25R)-cholest-5-ene-3beta,26-diol  (ISO)
(S)-colchicine  (ISO)
(S)-nicotine  (ISO)
1,2-dimethylhydrazine  (ISO)
1-chloro-2,4-dinitrobenzene  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-acetamidofluorene  (EXP)
26-hydroxycholesterol  (ISO)
3-[3-(tert-butylsulfanyl)-1-(4-chlorobenzyl)-5-(propan-2-yl)-1H-indol-2-yl]-2,2-dimethylpropanoic acid  (ISO)
3-aminobenzamide  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroperoxycyclophosphamide  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-azacytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
acrylamide  (ISO)
acteoside  (ISO)
adenine  (ISO)
aflatoxin B1  (EXP,ISO)
all-trans-4-oxoretinoic acid  (ISO)
all-trans-retinoic acid  (ISO)
alpha-hexylcinnamaldehyde  (ISO)
alvocidib  (ISO)
ammonium chloride  (EXP)
amodiaquine  (ISO)
amphetamine  (EXP)
amphibole asbestos  (ISO)
androstane  (ISO)
aristolochic acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
aspartame  (ISO)
Aspidin  (ISO)
atrazine  (ISO)
auraptene  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[d]isothiazol-3-one  (ISO)
benzophenanthridine  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bortezomib  (ISO)
Butylparaben  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (ISO)
caffeine  (ISO)
calcitriol  (ISO)
camptothecin  (ISO)
capsaicin  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carmustine  (ISO)
chlorpromazine  (ISO)
chlorpyrifos  (ISO)
choline  (EXP,ISO)
chromium(6+)  (ISO)
cilostazol  (ISO)
cisplatin  (ISO)
cobalt atom  (EXP)
copper atom  (EXP,ISO)
copper(0)  (EXP,ISO)
copper(II) sulfate  (ISO)
coumestrol  (ISO)
CU-O LINKAGE  (ISO)
curcumin  (EXP)
DDT  (ISO)
Deguelin  (ISO)
diarsenic trioxide  (ISO)
dibenzo[a,l]pyrene  (ISO)
diclofenac  (ISO)
dieldrin  (EXP)
diethanolamine  (EXP,ISO)
dihydroxyacetone  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
endosulfan  (ISO)
etoposide  (ISO)
eugenol  (ISO)
folic acid  (ISO)
fulvestrant  (ISO)
furan  (EXP)
gamma-tocopherol  (ISO)
gefitinib  (ISO)
geraniol  (ISO)
glyphosate  (ISO)
GW 3965  (ISO)
harmine  (ISO)
heparin  (ISO)
hydroxyurea  (ISO)
iron atom  (EXP)
iron(0)  (EXP)
L-methionine  (ISO)
Lasiocarpine  (ISO)
lead nitrate  (ISO)
leptomycin B  (ISO)
lidocaine  (ISO)
lipopolysaccharide  (ISO)
LY294002  (ISO)
maneb  (ISO)
melatonin  (ISO)
menadione  (ISO)
methotrexate  (ISO)
methylseleninic acid  (ISO)
mifepristone  (ISO)
mitomycin C  (ISO)
monocrotaline  (ISO)
monosodium L-glutamate  (ISO)
motexafin gadolinium  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
N-nitrosodiethylamine  (ISO)
nickel atom  (EXP)
nickel dichloride  (EXP,ISO)
niclosamide  (ISO)
nicotine  (ISO)
ochratoxin A  (ISO)
oleic acid  (ISO)
p-menthan-3-ol  (ISO)
paclitaxel  (ISO)
palbociclib  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP,ISO)
pentachlorophenol  (EXP)
phenobarbital  (ISO)
phenytoin  (ISO)
phosphoramide mustard  (EXP)
phthalaldehyde  (ISO)
piperonyl butoxide  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
propylparaben  (ISO)
quercetin  (ISO)
quinoline  (ISO)
resveratrol  (ISO)
riddelliine  (ISO)
rifampicin  (ISO)
ritonavir  (ISO)
selenium atom  (ISO)
silicon dioxide  (ISO)
silver(1+) nitrate  (ISO)
simvastatin  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
sulforaphane  (ISO)
sulindac  (ISO)
tamoxifen  (EXP,ISO)
tauroursodeoxycholic acid  (EXP)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
tocopherol  (ISO)
toluene 2,4-diisocyanate  (ISO)
trabectedin  (ISO)
trimellitic anhydride  (ISO)
Triptolide  (EXP)
troglitazone  (ISO)
tungsten  (EXP)
tunicamycin  (ISO)
urethane  (ISO)
ursodeoxycholic acid  (EXP)
valproic acid  (ISO)
vemurafenib  (ISO)
vincaleukoblastine  (ISO)
vinyl carbamate  (ISO)
wortmannin  (ISO)
zinc acetate  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
anoikis  (ISO)
cellular response to fatty acid  (IEP)
cellular response to hypoxia  (IEP)
cellular response to nerve growth factor stimulus  (IDA)
cellular response to xenobiotic stimulus  (ISO)
DNA damage checkpoint signaling  (ISO,ISS)
forebrain development  (ISO)
G1/S transition of mitotic cell cycle  (TAS)
intrinsic apoptotic signaling pathway by p53 class mediator  (ISO)
intrinsic apoptotic signaling pathway in response to DNA damage  (ISO,ISS)
lens fiber cell apoptotic process  (ISO)
mRNA stabilization  (ISO)
negative regulation of DNA binding  (ISO,ISS)
negative regulation of fat cell differentiation  (ISO,ISS)
negative regulation of fat cell proliferation  (ISO,ISS)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of transcription involved in G1/S transition of mitotic cell cycle  (ISO)
negative regulation of transcription, DNA-templated  (ISO,ISS)
positive regulation of apoptotic process  (ISO)
positive regulation of fibroblast proliferation  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of glial cell proliferation  (IMP)
positive regulation of transcription by RNA polymerase II  (ISO,ISS)
positive regulation of transcription, DNA-templated  (ISO)
regulation of cell cycle  (ISO)
regulation of G1/S transition of mitotic cell cycle  (ISO)
regulation of transcription by RNA polymerase II  (IBA)
regulation of transcription, DNA-templated  (ISO,ISS)
spermatogenesis  (IEP)
transcription, DNA-templated  (ISO,ISS)

Cellular Component

References

References - curated
1. Alonso MM, etal., J Natl Cancer Inst. 2005 Nov 2;97(21):1589-600. doi: 10.1093/jnci/dji340.
2. Benadiba M, etal., IUBMB Life. 2009 Mar;61(3):244-51.
3. Chen L, etal., J Biol Chem. 2013 May 17;288(20):14510-21. doi: 10.1074/jbc.M113.458737. Epub 2013 Mar 29.
4. Chen S, etal., Int J Biol Macromol. 2017 Sep;102:718-728. doi: 10.1016/j.ijbiomac.2017.03.123. Epub 2017 Mar 23.
5. Cokic VP, etal., Blood Cells Mol Dis. 2015 Dec;55(4):373-81. doi: 10.1016/j.bcmd.2015.08.002. Epub 2015 Aug 7.
6. Dos Reis Vasques L, etal., Genet Mol Biol. 2010 Jan;33(1):17-22. doi: 10.1590/S1415-47572009005000104. Epub 2010 Mar 1.
7. El-Darwish KS, etal., Reprod Biol Endocrinol. 2006 Dec 5;4:63.
8. Eymin B, etal., Oncogene. 2001 Mar 29;20(14):1678-87. doi: 10.1038/sj.onc.1204242.
9. Fajas L, etal., J Clin Invest 2004 May;113(9):1288-95.
10. Field SJ, etal., Cell 1996 May 17;85(4):549-61.
11. Fujita N, etal., Am J Physiol Heart Circ Physiol 2002 Jul;283(1):H204-12.
12. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
13. GOA data from the GO Consortium
14. Gorgoulis VG, etal., J Pathol. 2002 Oct;198(2):142-56. doi: 10.1002/path.1121.
15. Iglesias A, etal., J Clin Invest 2004 May;113(10):1398-407.
16. Jordan-Sciutto KL, etal., J Neuropathol Exp Neurol. 2002 Apr;61(4):358-67.
17. Jordan-Sciutto KL, etal., J Neurosci. 2002 Mar 15;22(6):2185-95.
18. Kuhn H, etal., Eur Respir J. 2002 Sep;20(3):703-9.
19. Lee JS, etal., J Clin Oncol. 2010 Jun 1;28(16):2660-7. doi: 10.1200/JCO.2009.25.0977. Epub 2010 Apr 26.
20. Lee SB, etal., J Biol Chem. 2010 Sep 17;285(38):29457-68. doi: 10.1074/jbc.M110.131367. Epub 2010 Jul 6.
21. Leung LL, etal., Oncol Lett. 2017 Sep;14(3):3748-3754. doi: 10.3892/ol.2017.6646. Epub 2017 Jul 21.
22. Li Z, etal., BMC Cancer. 2014 Apr 22;14:276. doi: 10.1186/1471-2407-14-276.
23. Liu L, etal., Oncol Rep. 2017 Jun;37(6):3597-3605. doi: 10.3892/or.2017.5638. Epub 2017 May 11.
24. Loukopoulos P, etal., Cancer Sci. 2007 Mar;98(3):392-400. doi: 10.1111/j.1349-7006.2007.00395.x. Epub 2007 Jan 12.
25. Ma L, etal., Cancer Biol Ther. 2016 Oct 2;17(10):1051-1061. doi: 10.1080/15384047.2016.1219814. Epub 2016 Aug 29.
26. MGD data from the GO Consortium
27. Motonaga K, etal., Brain Res. 2001 Jun 29;905(1-2):250-3.
28. Pelegri C, etal., Int J Dev Neurosci. 2008 Nov;26(7):665-71. Epub 2008 Aug 12.
29. Pipeline to import KEGG annotations from KEGG into RGD
30. RGD automated data pipeline
31. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
32. RGD automated import pipeline for gene-chemical interactions
33. Shaw J, etal., Proc Natl Acad Sci U S A. 2008 Dec 30;105(52):20734-9. Epub 2008 Dec 16.
34. Woitach JT, etal., Nat Genet 1998 Aug;19(4):371-4.
35. Wu H, etal., Eur J Cancer Prev. 2016 Nov;25(6):508-17. doi: 10.1097/CEJ.0000000000000214.
36. Xia G, etal., J Exp Clin Cancer Res. 2017 Aug 10;36(1):107. doi: 10.1186/s13046-017-0579-0.
37. Xiao D, etal., Theranostics. 2017 Jan 1;7(1):132-143. doi: 10.7150/thno.17032. eCollection 2017.
38. Xie X, etal., Cancer Biol Ther. 2013 Aug;14(8):742-51. doi: 10.4161/cbt.25184. Epub 2013 Jun 3.
39. Yamasaki L, etal., Cell 1996 May 17;85(4):537-48.
40. Yamazaki K, etal., Pathol Res Pract. 2003;199(1):23-8. doi: 10.1078/0344-0338-00348.
41. Yurkova N, etal., Circ Res. 2008 Feb 29;102(4):472-9. Epub 2007 Dec 20.
42. Zhou F, et al., J Biol Chem. 2008 May 23;283(21):14506-15. doi: 10.1074/jbc.M706136200. Epub 2008 Mar 26.
Additional References at PubMed
PMID:3951992   PMID:7797074   PMID:8673024   PMID:8918469   PMID:10082561   PMID:10597240   PMID:10779331   PMID:11004506   PMID:11071387   PMID:11095619   PMID:11331592   PMID:11418595  
PMID:11672531   PMID:12007404   PMID:12717439   PMID:12893818   PMID:14514686   PMID:14593116   PMID:14667810   PMID:15073182   PMID:15158336   PMID:15525772   PMID:15565177   PMID:15722552  
PMID:15731768   PMID:15735762   PMID:15766563   PMID:15990448   PMID:16360038   PMID:16717102   PMID:17062573   PMID:17102628   PMID:17404573   PMID:17482685   PMID:17555552   PMID:17989570  
PMID:18348166   PMID:18364697   PMID:18541936   PMID:18818403   PMID:19545562   PMID:20040599   PMID:20176812   PMID:20224733   PMID:20299467   PMID:21454377   PMID:21614651   PMID:21641965  
PMID:21937878   PMID:21964190   PMID:22476863   PMID:22592528   PMID:22848730   PMID:23332764   PMID:23629655   PMID:24014029   PMID:24453336   PMID:24726645   PMID:26306672   PMID:28125090  
PMID:29936143  


Genomics

Comparative Map Data
E2f1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23143,064,535 - 143,075,362 (-)NCBImRatBN7.2
Rnor_6.03150,062,895 - 150,073,721 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3150,047,826 - 150,073,721 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03156,435,530 - 156,446,390 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43145,032,489 - 145,043,729 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13144,943,133 - 144,943,246 (-)NCBI
Celera3141,799,009 - 141,809,945 (-)NCBICelera
Cytogenetic Map3q41NCBI
E2F1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2033,675,477 - 33,686,385 (-)EnsemblGRCh38hg38GRCh38
GRCh382033,675,477 - 33,686,385 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372032,263,283 - 32,274,191 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362031,727,150 - 31,737,854 (-)NCBINCBI36hg18NCBI36
Build 342031,727,149 - 31,737,854NCBI
Celera2029,016,324 - 29,027,242 (-)NCBI
Cytogenetic Map20q11.22NCBI
HuRef2029,049,266 - 29,060,184 (-)NCBIHuRef
CHM1_12032,164,384 - 32,175,302 (-)NCBICHM1_1
E2f1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392154,401,320 - 154,411,812 (-)NCBIGRCm39mm39
GRCm39 Ensembl2154,401,327 - 154,411,812 (-)Ensembl
GRCm382154,559,400 - 154,569,892 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2154,559,407 - 154,569,892 (-)EnsemblGRCm38mm10GRCm38
MGSCv372154,385,375 - 154,395,588 (-)NCBIGRCm37mm9NCBIm37
MGSCv362154,251,080 - 154,261,293 (-)NCBImm8
Celera2160,474,227 - 160,486,251 (-)NCBICelera
Cytogenetic Map2H1NCBI
cM Map276.79NCBI
E2f1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542227,633,827 - 27,642,241 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542227,638,625 - 27,643,261 (+)NCBIChiLan1.0ChiLan1.0
E2F1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12031,103,764 - 31,115,211 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2031,103,764 - 31,110,604 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02029,963,083 - 29,973,860 (-)NCBIMhudiblu_PPA_v0panPan3
E2f1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640171,848,495 - 171,859,005 (-)NCBI
SpeTri2.0NW_0049365616,894,827 - 6,901,058 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
E2F1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1737,178,598 - 37,189,841 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11737,178,587 - 37,190,118 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21742,116,195 - 42,125,518 (-)NCBISscrofa10.2Sscrofa10.2susScr3
E2F1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1237,968,541 - 37,980,461 (-)NCBI
ChlSab1.1 Ensembl237,968,556 - 37,980,326 (-)Ensembl
Vero_WHO_p1.0NW_02366605088,901,404 - 88,913,369 (+)NCBI
E2f1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248425,602,432 - 5,612,951 (+)NCBI

Position Markers
D3Mgh29  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23143,087,759 - 143,087,884 (+)MAPPERmRatBN7.2
Rnor_6.03150,086,036 - 150,086,160NCBIRnor6.0
Rnor_5.03156,458,570 - 156,458,694UniSTSRnor5.0
RGSC_v3.43145,055,522 - 145,055,647RGDRGSC3.4
RGSC_v3.43145,055,523 - 145,055,647UniSTSRGSC3.4
RGSC_v3.15151,483,686 - 151,484,060RGD
Celera3141,820,568 - 141,820,692UniSTS
SHRSP x BN Map367.6099UniSTS
SHRSP x BN Map367.6099RGD
FHH x ACI Map384.7199RGD
Cytogenetic Map3q41UniSTS
UniSTS:234576  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23143,068,189 - 143,068,402 (+)MAPPERmRatBN7.2
Rnor_6.03150,066,550 - 150,066,762NCBIRnor6.0
Rnor_5.03156,439,185 - 156,439,397UniSTSRnor5.0
RGSC_v3.43145,036,144 - 145,036,356UniSTSRGSC3.4
Celera3141,802,800 - 141,803,012UniSTS
Cytogenetic Map3q41UniSTS
PMC152357P4  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23143,075,010 - 143,075,096 (+)MAPPERmRatBN7.2
Rnor_6.03150,073,371 - 150,073,456NCBIRnor6.0
Rnor_5.03156,446,040 - 156,446,125UniSTSRnor5.0
RGSC_v3.43145,043,379 - 145,043,464UniSTSRGSC3.4
Celera3141,809,595 - 141,809,680UniSTS
Cytogenetic Map3q41UniSTS
PMC152357P3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23143,075,205 - 143,075,286 (+)MAPPERmRatBN7.2
Rnor_6.03150,073,566 - 150,073,646NCBIRnor6.0
Rnor_5.03156,446,235 - 156,446,315UniSTSRnor5.0
RGSC_v3.43145,043,574 - 145,043,654UniSTSRGSC3.4
Celera3141,809,790 - 141,809,870UniSTS
Cytogenetic Map3q41UniSTS
E2f1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23143,065,743 - 143,066,412 (+)MAPPERmRatBN7.2
Rnor_6.03150,064,104 - 150,064,772NCBIRnor6.0
Rnor_5.03156,436,739 - 156,437,407UniSTSRnor5.0
RGSC_v3.43145,033,698 - 145,034,366UniSTSRGSC3.4
Celera3141,800,218 - 141,800,886UniSTS
Cytogenetic Map3q41UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
619618Rf3Renal disease susceptibility QTL 36.50.001urine albumin amount (VT:0002871)urine albumin excretion rate to body weight ratio (CMO:0001270)3107693393152693393Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141339013162184794Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3130193298161695983Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
1581546Pur13Proteinuria QTL 132.930.0335total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)378196190146592722Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
1581568Rf53Renal function QTL 53total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)394856903159898684Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
1578754Stresp16Stress response QTL 1640.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)3112681431157681431Rat
1300159Kidm4Kidney mass QTL 43.83kidney mass (VT:0002707)right kidney wet weight to body weight ratio (CMO:0001953)3121056165157309487Rat
1300173Rf11Renal function QTL 113.38renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)3121056165145956249Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
2293087Iddm27Insulin dependent diabetes mellitus QTL 272.68blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)397551417147415807Rat
61335Bp20Blood pressure QTL 203arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141339236155617360Rat
5686842Rf59Renal function QTL 59urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)3140069424146976080Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat


Related Rat Strains
The following Strains have been annotated to E2f1
SD

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:216
Count of miRNA genes:137
Interacting mature miRNAs:168
Transcripts:ENSRNOT00000022428
Prediction methods: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 12 6 7 6 65 18 35
Low 2 17 42 32 12 32 7 10 9 17 6 11 7
Below cutoff 3 3 3 1 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000022115   ⟹   ENSRNOP00000022115
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3143,049,478 - 143,063,951 (-)Ensembl
Rnor_6.0 Ensembl3150,047,826 - 150,062,311 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000022428   ⟹   ENSRNOP00000022428
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3143,049,478 - 143,075,361 (-)Ensembl
Rnor_6.0 Ensembl3150,062,895 - 150,073,721 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086933   ⟹   ENSRNOP00000070039
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3143,049,478 - 143,063,951 (-)Ensembl
Rnor_6.0 Ensembl3150,048,341 - 150,064,438 (-)Ensembl
RefSeq Acc Id: NM_001100778   ⟹   NP_001094248
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23143,064,535 - 143,075,361 (-)NCBI
Rnor_6.03150,062,895 - 150,073,721 (-)NCBI
Rnor_5.03156,435,530 - 156,446,390 (-)NCBI
RGSC_v3.43145,032,489 - 145,043,729 (-)RGD
Celera3141,799,009 - 141,809,945 (-)RGD
Sequence:
RefSeq Acc Id: XM_039105617   ⟹   XP_038961545
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23143,065,806 - 143,075,362 (-)NCBI
RefSeq Acc Id: XM_039105618   ⟹   XP_038961546
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23143,064,535 - 143,074,378 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001094248 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961545 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961546 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein BAA09641 (Get FASTA)   NCBI Sequence Viewer  
  EDL85956 (Get FASTA)   NCBI Sequence Viewer  
  O09139 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001094248   ⟸   NM_001100778
- UniProtKB: O09139 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000022428   ⟸   ENSRNOT00000022428
RefSeq Acc Id: ENSRNOP00000022115   ⟸   ENSRNOT00000022115
RefSeq Acc Id: ENSRNOP00000070039   ⟸   ENSRNOT00000086933
RefSeq Acc Id: XP_038961546   ⟸   XM_039105618
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038961545   ⟸   XM_039105617
- Peptide Label: isoform X1
Protein Domains
ABM   EF-hand

Transcriptome

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

Promoters
RGD ID:13692575
Promoter ID:EPDNEW_R3100
Type:single initiation site
Name:E2f1_1
Description:E2F transcription factor 1
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_6.03150,073,687 - 150,073,747EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
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
FXLE16/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
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/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (MCW)
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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
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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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
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/Gcrc (RGD)
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 (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:728892 AgrOrtholog
Ensembl Genes ENSRNOG00000016708 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000022428 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000070039 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000022428 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000086933 UniProtKB/TrEMBL
Gene3D-CATH 1.10.10.10 UniProtKB/Swiss-Prot
InterPro ABM_dom UniProtKB/TrEMBL
  Dimeric_a/b-barrel UniProtKB/TrEMBL
  E2F UniProtKB/Swiss-Prot
  E2F-DP_heterodim UniProtKB/Swiss-Prot
  E2F_CC-MB UniProtKB/Swiss-Prot
  E2F_WHTH_DNA-bd_dom UniProtKB/Swiss-Prot
  EF-hand-dom_pair UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
  NECAB1/2/3 UniProtKB/TrEMBL
  WH-like_DNA-bd_sf UniProtKB/Swiss-Prot
  WH_DNA-bd_sf UniProtKB/Swiss-Prot
KEGG Report rno:399489 UniProtKB/Swiss-Prot
NCBI Gene 399489 ENTREZGENE
PANTHER PTHR12081 UniProtKB/Swiss-Prot
  PTHR12178 UniProtKB/TrEMBL
Pfam ABM UniProtKB/TrEMBL
  E2F_CC-MB UniProtKB/Swiss-Prot
  E2F_TDP UniProtKB/Swiss-Prot
  EF-hand_5 UniProtKB/TrEMBL
PharmGKB E2F1 RGD
PhenoGen E2f1 PhenoGen
PROSITE ABM UniProtKB/TrEMBL
  EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
SMART E2F_TDP UniProtKB/Swiss-Prot
Superfamily-SCOP SSF144074 UniProtKB/Swiss-Prot
  SSF46785 UniProtKB/Swiss-Prot
  SSF47473 UniProtKB/TrEMBL
  SSF54909 UniProtKB/TrEMBL
UniProt A0A0G2JWW3_RAT UniProtKB/TrEMBL
  E2F1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-12-14 E2f1  E2F transcription factor 1      Symbol and Name status set to approved 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease associated with atherosclerosis, hypertension, and restenosis after injury 625751
gene_expression expressed in vascular smooth muscle cells, fibroblasts and Saos-2 cell line 625751
gene_function transcription factor 625751
gene_process controls G1/S transition of eukaryotic cells by monitoring the regulation of transcription of growth-related genes 625751
gene_process involved in induction of S phase progression in quiescent cells 625751
gene_product member of transcriptional factor family 625751
gene_regulation RNA expression levels were downregulated in quiescent cells 625751
gene_regulation fetal bovine serum [FBS] induced upregulation of E2f1 mRNA and protein levels by inducing free E2f1 binding onto its promoter 625751