Cebpa (CCAAT/enhancer binding protein alpha) - Rat Genome Database
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Gene: Cebpa (CCAAT/enhancer binding protein alpha) Rattus norvegicus
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Symbol: Cebpa
Name: CCAAT/enhancer binding protein alpha
RGD ID: 2326
Description: Exhibits several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; HMG box domain binding activity; and protein dimerization activity. Involved in several processes, including osteoblast development; regulation of transcription, DNA-templated; and response to dexamethasone. Localizes to CHOP-C/EBP complex; Rb-E2F complex; and nuclear lumen. Biomarker of transient cerebral ischemia. Human ortholog(s) of this gene implicated in acute myeloid leukemia. Orthologous to human CEBPA (CCAAT enhancer binding protein alpha); PARTICIPATES IN forkhead class A signaling pathway; acute myeloid leukemia pathway; INTERACTS WITH (+)-pilocarpine; (-)-cotinine; (S)-nicotine.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: C/EBP alpha; CAAT/enhancer-binding protein DNA-binding protein; CAAT/enhancer-binding protein, DNA-binding protein; CCAAT/enhancer binding protein (C/EBP) alpha; CCAAT/enhancer binding protein (C/EBP), alpha; CCAAT/enhancer binding protein, alpha; CCAAT/enhancer-binding protein alpha; DBPCEP
Orthologs:
Homo sapiens (human) : CEBPA (CCAAT enhancer binding protein alpha)  HGNC  Alliance
Mus musculus (house mouse) : Cebpa (CCAAT/enhancer binding protein (C/EBP), alpha)  MGI  Alliance
Chinchilla lanigera (long-tailed chinchilla) : Cebpa (CCAAT enhancer binding protein alpha)
Pan paniscus (bonobo/pygmy chimpanzee) : CEBPA (CCAAT enhancer binding protein alpha)
Canis lupus familiaris (dog) : CEBPA (CCAAT enhancer binding protein alpha)
Ictidomys tridecemlineatus (thirteen-lined ground squirrel) : Cebpa (CCAAT enhancer binding protein alpha)
Sus scrofa (pig) : CEBPA (CCAAT enhancer binding protein alpha)
Chlorocebus sabaeus (African green monkey) : CEBPA (CCAAT enhancer binding protein alpha)
Heterocephalus glaber (naked mole-rat) : Cebpa (CCAAT enhancer binding protein alpha)
more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0191,363,492 - 91,366,164 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl191,363,492 - 91,366,164 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0192,493,857 - 92,495,245 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4187,626,111 - 87,627,499 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1187,704,351 - 87,705,428 (+)NCBI
Celera182,110,797 - 82,113,472 (+)NCBICelera
Cytogenetic Map1q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-artemisinic acid  (ISO)
(+)-pilocarpine  (EXP)
(-)-cotinine  (EXP)
(-)-epigallocatechin 3-gallate  (ISO)
(S)-nicotine  (EXP,ISO)
1,1,1-trichloro-2,2-bis(4-hydroxyphenyl)ethane  (EXP)
1,2,3,4,6-pentakis-O-galloyl-beta-D-glucose  (ISO)
1,2-dimethylhydrazine  (ISO)
1-nitropyrene  (ISO)
15-deoxy-Delta(12,14)-prostaglandin J2  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-acetamidofluorene  (EXP)
2-amino-2-deoxy-D-galactopyranose  (ISO)
2-amino-2-deoxy-D-glucopyranose 6-phosphate  (ISO)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3,5,6-trichloro-2-pyridinol  (ISO)
3,5,6-trichloropyridine-2-one  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methyladenine  (ISO)
3-methylcholanthrene  (ISO)
3-phenylprop-2-enal  (ISO)
3H-1,2-dithiole-3-thione  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-tert-Octylphenol  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-azacytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
aflatoxin B1  (ISO)
AICA ribonucleotide  (ISO)
alcohol  (ISO)
aldehydo-D-glucosamine 6-phosphate  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
andrographolide  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
Aroclor 1254  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
avobenzone  (ISO)
baicalein  (ISO)
benzamides  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzofurans  (ISO)
Benzyl parahydroxybenzoate  (ISO)
berberine  (ISO)
beta-carotene  (ISO)
beta-D-glucosamine 6-sulfate  (ISO)
beta-naphthoflavone  (EXP)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
Bisphenol A diglycidyl ether  (EXP,ISO)
bisphenol F  (ISO)
boric acid  (ISO)
bortezomib  (ISO)
Butylbenzyl phthalate  (ISO)
Butylparaben  (ISO)
C60 fullerene  (EXP)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP)
calcitriol  (ISO)
calcium dichloride  (ISO)
capsaicin  (EXP,ISO)
carbaryl  (ISO)
carbon nanotube  (ISO)
celastrol  (ISO)
celecoxib  (EXP)
cerulenin  (ISO)
ceruletide  (EXP)
chlorpyrifos  (ISO)
cholesterol  (ISO)
choline  (ISO)
cisplatin  (ISO)
clofazimine  (EXP)
Clofop  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
Colforsin dapropate hydrochloride  (EXP,ISO)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
cortisol  (ISO)
cucurbitacin B  (ISO)
cucurbitacin I  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
D-glucose  (ISO)
DDE  (ISO)
DDT  (ISO)
decabromodiphenyl ether  (EXP)
Deguelin  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (EXP,ISO)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (ISO)
dibutylstannane  (ISO)
diethylstilbestrol  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
duvoglustat  (ISO)
efavirenz  (ISO)
elemental selenium  (ISO)
endosulfan  (EXP)
Endrin  (ISO)
epoxomicin  (ISO)
ethanol  (EXP,ISO)
ethylparaben  (ISO)
etoposide  (ISO)
fipronil  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
genistein  (EXP,ISO)
gingerol  (ISO)
glucose  (ISO)
glycerol 2-phosphate  (ISO)
GW 501516  (ISO)
hemin  (ISO)
herbimycin  (EXP)
hesperetin  (ISO)
hexadecanoic acid  (EXP)
hispidulin  (ISO)
hydrazines  (ISO)
hydrogen peroxide  (ISO)
hydroxytyrosol  (ISO)
indometacin  (ISO)
isoliquiritigenin  (ISO)
isoniazide  (ISO)
ivermectin  (ISO)
L-ascorbic acid  (ISO)
L-methionine  (ISO)
lead diacetate  (EXP,ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
lipopolysaccharide  (ISO)
lithium chloride  (EXP)
LY294002  (ISO)
menadione  (ISO)
mercury dichloride  (ISO)
metformin  (EXP)
methimazole  (EXP)
methoxychlor  (EXP)
methylparaben  (ISO)
mifepristone  (ISO)
mono(2-ethylhexyl) phthalate  (EXP,ISO)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (ISO)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
N-Nitrosopyrrolidine  (ISO)
nevirapine  (ISO)
nicotine  (EXP,ISO)
nicotinic acid  (ISO)
nimesulide  (EXP,ISO)
ochratoxin A  (ISO)
osthole  (ISO)
p-tert-Amylphenol  (EXP)
paracetamol  (ISO)
perfluorobutanesulfonic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
permethrin  (ISO)
Phenylamil  (ISO)
phenylephrine  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
pioglitazone  (ISO)
pirinixic acid  (ISO)
platycodin D  (ISO)
pomalidomide  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
propiconazole  (ISO)
propylparaben  (ISO)
prostaglandin E2  (ISO)
quercetin  (EXP,ISO)
raloxifene  (ISO)
reactive oxygen species  (ISO)
resveratrol  (ISO)
risperidone  (ISO)
ritonavir  (ISO)
rotenone  (EXP)
rottlerin  (ISO)
SB 203580  (ISO)
selenium atom  (ISO)
sildenafil citrate  (ISO)
silibinin  (ISO)
silicon dioxide  (ISO)
silver atom  (ISO)
silver(0)  (ISO)
sincalide  (EXP)
sirolimus  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium chloride  (ISO)
stavudine  (ISO)
sunitinib  (ISO)
tacrolimus hydrate  (ISO)
tamoxifen  (ISO)
Tanshinone I  (ISO)
taurine  (ISO)
tert-butyl hydroperoxide  (ISO)
Tesaglitazar  (EXP)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
topiramate  (EXP)
tributylstannane  (ISO)
triclosan  (ISO)
triphenyl phosphate  (ISO)
troglitazone  (EXP,ISO)
trovafloxacin  (ISO)
urethane  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
valsartan  (ISO)
vinclozolin  (EXP)
vitamin E  (ISO)
zearalenone  (ISO)
zidovudine  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
acute-phase response  (IEP)
animal organ regeneration  (IEP)
brown fat cell differentiation  (IEA,ISO)
cell differentiation  (IEP)
cell maturation  (IEA,ISO)
cellular response to drug  (IEP)
cellular response to lithium ion  (IEA,ISO)
cellular response to organic cyclic compound  (IEA,ISO)
cellular response to tumor necrosis factor  (IEA,ISO)
cholesterol metabolic process  (IEA,ISO)
embryonic placenta development  (IEA,ISO)
fat cell differentiation  (IDA,ISO,ISS)
glucose homeostasis  (IEA,ISO,ISS)
granulocyte differentiation  (IEA,ISO,ISS)
inner ear development  (IEA,ISO)
interleukin-6-mediated signaling pathway  (IEA,ISO)
lipid homeostasis  (IEA,ISO,ISS)
liver development  (IEA,IEP,ISO,ISS)
lung development  (IEA,ISO,ISS)
macrophage differentiation  (IEA,ISO)
memory  (IEP)
mitochondrion organization  (IEA,ISO)
myeloid cell differentiation  (ISO)
negative regulation of cell cycle  (IEA,ISO)
negative regulation of cell population proliferation  (IDA,IEA,ISO)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
negative regulation of transcription, DNA-templated  (IDA,ISO)
Notch signaling pathway  (IEA,ISO)
osteoblast development  (IEP)
positive regulation of DNA-templated transcription, initiation  (ISO)
positive regulation of fat cell differentiation  (IEA,IMP,ISO)
positive regulation of gene expression  (ISO)
positive regulation of inflammatory response  (IEA,ISO)
positive regulation of macrophage activation  (IEA,ISO)
positive regulation of osteoblast differentiation  (IEA,ISO)
positive regulation of transcription by RNA polymerase II  (IDA,IEA,ISO)
positive regulation of transcription by RNA polymerase III  (IEA,ISO)
positive regulation of transcription, DNA-templated  (ISO)
regulation of cell population proliferation  (ISO)
regulation of transcription by RNA polymerase II  (ISO)
regulation of transcription, DNA-templated  (IDA,ISO,TAS)
response to dexamethasone  (IEP)
response to nutrient  (IEP)
response to phenylpropanoid  (IEP)
response to vitamin B2  (IEP)
transcription by RNA polymerase I  (ISO,ISS)
urea cycle  (IEA,ISO)
white fat cell differentiation  (IEA,ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
1. Blalock EM, etal., Proc Natl Acad Sci U S A. 2004 Feb 17;101(7):2173-8. Epub 2004 Feb 9.
2. Brouillette J and Quirion R, Neurobiol Aging. 2007 May 16.
3. Chapin RB, etal., J Nutr. 1994 Dec;124(12):2365-75.
4. Chen W, etal., Proc Natl Acad Sci U S A. 2013 Apr 30;110(18):7294-9. doi: 10.1073/pnas.1211383110. Epub 2013 Apr 11.
5. Chiang MC, etal., Biochim Biophys Acta. 2011 Sep;1812(9):1111-20. Epub 2011 May 30.
6. Chiang MC, etal., Hum Mol Genet. 2007 Mar 1;16(5):483-98. Epub 2007 Jan 9.
7. Courselaud B, etal., J Biol Chem 2002 Oct 25;277(43):41163-70.
8. Dinic S, etal., Mol Biol Rep. 2005 Sep;32(3):141-7.
9. Enwright JF 3rd, etal., Mol Endocrinol 2003 Feb;17(2):209-22.
10. GOA data from the GO Consortium
11. Gomez-Nicola D, etal., J Neurosci. 2013 Feb 6;33(6):2481-93. doi: 10.1523/JNEUROSCI.4440-12.2013.
12. Hong S, etal., J Biol Chem. 2001 Jul 27;276(30):28098-105. Epub 2001 May 16.
13. Kolyada AY, etal., Am J Physiol. 1995 Dec;269(6 Pt 1):C1408-16.
14. Landschulz WH, etal., Genes Dev 1988 Jul;2(7):786-800.
15. Lincoln AJ, etal., Genes Dev 1994 May 1;8(9):1131-2.
16. Mason RJ, etal., J Clin Invest 2003 Jul;112(2):244-55.
17. MGD data from the GO Consortium
18. Miller M, etal., J Biol Chem 2003 Apr 25;278(17):15178-84. Epub 2003 Feb 10.
19. Muller C, etal., EMBO J. 2010 Mar 3;29(5):897-909. doi: 10.1038/emboj.2009.404. Epub 2010 Jan 14.
20. NCBI rat LocusLink and RefSeq merged data July 26, 2002
21. Nobuoka T, etal., Eur Surg Res. 2006;38(6):522-32. Epub 2006 Oct 16.
22. OMIM Disease Annotation Pipeline
23. Online Mendelian Inheritance in Man, OMIM (TM).
24. Ossipow V, etal., Proc Natl Acad Sci U S A. 1993 Sep 1;90(17):8219-23.
25. Pedersen TA, etal., Genes Dev. 2001 Dec 1;15(23):3208-16.
26. Pipeline to import KEGG annotations from KEGG into RGD
27. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
28. Poli V, etal., Cell 1990 Nov 2;63(3):643-53.
29. Porse BT, etal., Cell. 2001 Oct 19;107(2):247-58.
30. Ramberg V, etal., J Neuroinflammation. 2011 Apr 14;8:34. doi: 10.1186/1742-2094-8-34.
31. Ren J, etal., Mol Cell Endocrinol. 2013 Jul 15;374(1-2):35-45. doi: 10.1016/j.mce.2013.04.013. Epub 2013 Apr 29.
32. RGD automated data pipeline
33. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
34. RGD automated import pipeline for gene-chemical interactions
35. Rosenberg E, etal., Biochim Biophys Acta 2002 May 3;1575(1-3):82-90.
36. Sandhir R and Berman NE, Neurochem Int. 2010 Jan;56(1):188-93. doi: 10.1016/j.neuint.2009.10.002. Epub 2009 Oct 13.
37. Sato Y, etal., J Biol Chem. 2006 Aug 4;281(31):21629-39. Epub 2006 May 30.
38. Shin SM, etal., FEBS Lett. 2003 May 22;543(1-3):25-30.
39. Szpirer C, etal., Mamm Genome 2000 Sep;11(9):729-35
40. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
41. Thomassin H, etal., Nucleic Acids Res 1992 Jun 25;20(12):3091-8.
42. Tinel M, etal., J Hepatol. 2003 Aug;39(2):171-8.
43. Tong J, etal., Mech Ageing Dev. 2011 Nov-Dec;132(11-12):552-9. doi: 10.1016/j.mad.2011.09.004. Epub 2011 Oct 1.
44. Ubeda M, etal., Mol Cell Biol. 1996 Apr;16(4):1479-89.
45. Walton M, etal., Brain Res Mol Brain Res. 1998 Oct 30;61(1-2):11-22.
46. Wissmuller S, etal., Nucleic Acids Res. 2006 Mar 31;34(6):1735-44. Print 2006.
47. Xu YX, etal., Chin J Integr Med. 2012 Dec;18(12):909-17. doi: 10.1007/s11655-012-1294-2. Epub 2012 Dec 13.
48. Zaragoza K, etal., Mol Cell Biol. 2010 May;30(9):2293-304. doi: 10.1128/MCB.01619-09. Epub 2010 Feb 22.
Additional References at PubMed
PMID:1618860   PMID:1935900   PMID:7959007   PMID:8798745   PMID:9372966   PMID:9545285   PMID:10075730   PMID:10233885   PMID:10510303   PMID:10859308   PMID:10921906   PMID:10937998  
PMID:11242107   PMID:11940593   PMID:12006103   PMID:12037571   PMID:12055200   PMID:12502791   PMID:12695546   PMID:12821655   PMID:12861022   PMID:12896875   PMID:14660596   PMID:15073037  
PMID:15107404   PMID:15130516   PMID:15175325   PMID:15504357   PMID:15509779   PMID:15519652   PMID:15589173   PMID:15632071   PMID:15664994   PMID:15673614   PMID:16407263   PMID:16445384  
PMID:16467360   PMID:16600022   PMID:16774685   PMID:16893891   PMID:16912278   PMID:16946298   PMID:17021047   PMID:17090532   PMID:17097562   PMID:17290224   PMID:17966466   PMID:18026136  
PMID:18328085   PMID:18492766   PMID:18632661   PMID:18824566   PMID:18949049   PMID:18974039   PMID:19168033   PMID:19932685   PMID:20219337   PMID:20972335   PMID:21131957   PMID:21227534  
PMID:21249617   PMID:21454593   PMID:21539866   PMID:21669876   PMID:21795542   PMID:21996045   PMID:22780989   PMID:22985399   PMID:23392382   PMID:23508841   PMID:23881867   PMID:23993269  
PMID:24429361   PMID:24913911   PMID:25446530   PMID:27746211   PMID:28186500   PMID:28902364  


Genomics

Comparative Map Data
Cebpa
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.0191,363,492 - 91,366,164 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl191,363,492 - 91,366,164 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0192,493,857 - 92,495,245 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4187,626,111 - 87,627,499 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1187,704,351 - 87,705,428 (+)NCBI
Celera182,110,797 - 82,113,472 (+)NCBICelera
Cytogenetic Map1q21NCBI
CEBPA
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1933,299,934 - 33,302,534 (-)EnsemblGRCh38hg38GRCh38
GRCh381933,299,934 - 33,302,564 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371933,790,840 - 33,793,430 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361938,482,776 - 38,485,160 (-)NCBINCBI36hg18NCBI36
Build 341938,482,775 - 38,485,160NCBI
Celera1930,484,405 - 30,486,995 (-)NCBI
Cytogenetic Map19q13.11NCBI
HuRef1930,291,676 - 30,294,205 (-)NCBIHuRef
CHM1_11933,791,795 - 33,794,425 (-)NCBICHM1_1
Cebpa
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39734,818,718 - 34,821,353 (+)NCBI
GRCm38735,119,293 - 35,121,928 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl735,119,293 - 35,121,928 (+)EnsemblGRCm38mm10GRCm38
MGSCv37735,904,312 - 35,906,947 (+)NCBIGRCm37mm9NCBIm37
MGSCv36734,828,063 - 34,830,688 (+)NCBImm8
Celera730,255,122 - 30,257,756 (+)NCBICelera
Cytogenetic Map7B2NCBI
cM Map721.02NCBI
Cebpa
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554683,047,931 - 3,049,080 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554683,046,544 - 3,049,217 (-)NCBIChiLan1.0ChiLan1.0
CEBPA
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11938,969,065 - 38,971,031 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01930,223,567 - 30,226,204 (-)NCBI
CEBPA
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11118,846,252 - 118,851,045 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Cebpa
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365702,513,561 - 2,516,213 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CEBPA
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl643,083,203 - 43,085,836 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1643,083,200 - 43,085,884 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2638,632,195 - 38,634,910 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CEBPA
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1628,342,506 - 28,345,759 (-)NCBI
Cebpa
(Heterocephalus glaber - naked mole-rat)
No map positions available.

Position Markers
D1Rat410  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0191,362,491 - 91,362,642NCBIRnor6.0
Rnor_5.0192,492,865 - 92,493,016UniSTSRnor5.0
RGSC_v3.4187,625,118 - 87,625,270RGDRGSC3.4
RGSC_v3.4187,625,119 - 87,625,270UniSTSRGSC3.4
RGSC_v3.1187,703,229 - 87,703,381RGD
Celera182,109,796 - 82,109,947UniSTS
Cytogenetic Map1q22UniSTS
RH 3.4 Map1842.1RGD
RH 3.4 Map1842.1UniSTS
SHRSP x BN Map143.4499UniSTS
SHRSP x BN Map143.4499RGD
D1Wox83  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0191,362,417 - 91,362,641NCBIRnor6.0
Rnor_5.0192,492,791 - 92,493,015UniSTSRnor5.0
RGSC_v3.4187,625,045 - 87,625,269UniSTSRGSC3.4
Celera182,109,722 - 82,109,946UniSTS
Cytogenetic Map1q22UniSTS
Cebpa  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0191,363,623 - 91,364,262NCBIRnor6.0
Rnor_5.0192,493,997 - 92,494,636UniSTSRnor5.0
RGSC_v3.4187,626,251 - 87,626,890UniSTSRGSC3.4
Celera182,110,928 - 82,111,567UniSTS
Cytogenetic Map1q22UniSTS
PMC94247P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0191,364,548 - 91,364,629NCBIRnor6.0
Rnor_5.0192,494,922 - 92,495,003UniSTSRnor5.0
RGSC_v3.4187,627,176 - 87,627,257UniSTSRGSC3.4
Celera182,111,853 - 82,111,934UniSTS
Cytogenetic Map1q22UniSTS
Cebpa  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0191,364,435 - 91,364,533NCBIRnor6.0
Rnor_5.0192,494,809 - 92,494,907UniSTSRnor5.0
RGSC_v3.4187,627,063 - 87,627,161UniSTSRGSC3.4
Celera182,111,740 - 82,111,838UniSTS
Cytogenetic Map1q22UniSTS
Cebpa  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0191,364,429 - 91,364,617NCBIRnor6.0
Rnor_5.0192,494,803 - 92,494,991UniSTSRnor5.0
RGSC_v3.4187,627,057 - 87,627,245UniSTSRGSC3.4
Celera182,111,734 - 82,111,922UniSTS
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
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13537750894364229Rat
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
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15052271494225616Rat
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
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)16722768394201552Rat
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

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:51
Count of miRNA genes:44
Interacting mature miRNAs:50
Transcripts:ENSRNOT00000014517
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 3 53 41 11 41 21 13 11
Low 37 4 8 8 11 74 14 27 8
Below cutoff 6 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000014517   ⟹   ENSRNOP00000063123
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl191,363,492 - 91,366,164 (+)Ensembl
RefSeq Acc Id: NM_001287577   ⟹   NP_001274506
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0191,363,492 - 91,366,164 (+)NCBI
Celera182,110,797 - 82,113,472 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001287578   ⟹   NP_001274507
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0191,363,492 - 91,366,164 (+)NCBI
Celera182,110,797 - 82,113,472 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001287579   ⟹   NP_001274508
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0191,363,492 - 91,366,164 (+)NCBI
Celera182,110,797 - 82,113,472 (+)NCBI
Sequence:
RefSeq Acc Id: NM_012524   ⟹   NP_036656
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0191,363,492 - 91,366,164 (+)NCBI
Rnor_5.0192,493,857 - 92,495,245 (+)NCBI
RGSC_v3.4187,626,111 - 87,627,499 (+)RGD
Celera182,110,797 - 82,113,472 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_036656   ⟸   NM_012524
- Peptide Label: isoform a
- UniProtKB: P05554 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001274506   ⟸   NM_001287577
- Peptide Label: isoform c
- UniProtKB: P05554 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001274507   ⟸   NM_001287578
- Peptide Label: isoform d
- UniProtKB: P05554 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001274508   ⟸   NM_001287579
- Peptide Label: isoform b
- UniProtKB: P05554 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000063123   ⟸   ENSRNOT00000014517
Protein Domains
bZIP

Transcriptome

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

Promoters
RGD ID:13689966
Promoter ID:EPDNEW_R488
Type:single initiation site
Name:Cebpa_1
Description:CCAAT/enhancer binding protein alpha
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_6.0191,363,487 - 91,363,547EPDNEW

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)
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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 (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2326 AgrOrtholog
Ensembl Genes ENSRNOG00000010918 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000063123 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014517 ENTREZGENE, UniProtKB/TrEMBL
InterPro bZIP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C/EBP_chordates UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24252 UniProtKB/Swiss-Prot
NCBI Gene 24252 ENTREZGENE
Pfam bZIP_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cebpa PhenoGen
PIRSF CCAAT/enhancer-binding UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE BZIP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART BRLZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC206743
UniProt A0A0H2UI22_RAT UniProtKB/TrEMBL
  CEBPA_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-01-13 Cebpa  CCAAT/enhancer binding protein alpha  Cebpa  CCAAT/enhancer binding protein (C/EBP), alpha  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Cebpa  CCAAT/enhancer binding protein (C/EBP), alpha    CCAAT/enhancer binding protein, alpha  Name updated 1299863 APPROVED
2002-11-06 Cebpa  CCAAT/enhancer binding protein, alpha    CCAAT/enhancer binding protein (C/EBP), alpha  Name updated 625702 APPROVED
2002-02-20 Cebpa  CCAAT/enhancer binding protein (C/EBP), alpha      Name updated to reflect Human and Mouse nomenclature 70282 APPROVED

 



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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.