Apoe (apolipoprotein E) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Apoe (apolipoprotein E) Ictidomys tridecemlineatus
Analyze
Symbol: Apoe
Name: apolipoprotein E
RGD ID: 12663466
Description: ENCODES a protein that exhibits amyloid-beta binding (ortholog); antioxidant activity (ortholog); cholesterol transfer activity (ortholog); INVOLVED IN AMPA glutamate receptor clustering (ortholog); amyloid precursor protein metabolic process (ortholog); artery morphogenesis (ortholog); PARTICIPATES IN altered lipoprotein metabolic pathway; lipoprotein metabolic pathway; ASSOCIATED WITH abdominal aortic aneurysm (ortholog); adenocarcinoma (ortholog); age related macular degeneration 1 (ortholog); FOUND IN cell surface (ortholog); chylomicron (ortholog); chylomicron remnant (ortholog)
Type: protein-coding
RefSeq Status: MODEL
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934917,165,062 - 17,169,462 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049367061,512,438 - 1,516,805 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
abdominal aortic aneurysm  (ISO)
adenocarcinoma  (ISO)
age related macular degeneration 1  (ISO)
Alzheimer's disease  (ISO)
Alzheimer's disease 2  (ISO)
Alzheimer's disease 3  (ISO)
Alzheimer's disease 4  (ISO)
Alzheimer's Disease, Familial, 3, with Spastic Paraparesis and Apraxia  (ISO)
amyloidosis  (ISO)
amyotrophic lateral sclerosis  (ISO)
angle-closure glaucoma  (ISO)
anxiety disorder  (ISO)
aortic atherosclerosis  (ISO)
Apolipoprotein E, Deficiency or Defect of  (ISO)
arteriosclerosis  (ISO)
atherosclerosis  (ISO)
atopic dermatitis  (ISO)
B-Cell Chronic Lymphocytic Leukemia  (ISO)
beta thalassemia  (ISO)
bile duct cancer  (ISO)
breast cancer  (ISO)
Broad-Betalipoproteinemia  (ISO)
cardiovascular system disease  (ISO)
carotid artery disease  (ISO)
carotid stenosis  (ISO)
cerebral amyloid angiopathy  (ISO)
Cerebral Hemorrhage  (ISO)
cerebral infarction  (ISO)
cerebrovascular disease  (ISO)
Chemical and Drug Induced Liver Injury  (ISO)
cholelithiasis  (ISO)
cholestasis  (ISO)
Chronic Brain Injury  (ISO)
Chronic Cerebral Hypoperfusion  (ISO)
Chronic Hepatitis B  (ISO)
Chronic Hepatitis C  (ISO)
cognitive disorder  (ISO)
Cognitive Dysfunction  (ISO)
congestive heart failure  (ISO)
coronary artery disease  (ISO)
Coronary Disease  (ISO)
Coumarin Sensitivity  (ISO)
diabetes mellitus  (ISO)
Diabetic Nephropathies  (ISO)
diabetic retinopathy  (ISO)
dilated cardiomyopathy  (ISO)
Disease Progression  (ISO)
Dysbetalipoproteinemia due to Defect in Apolipoprotein E-d  (ISO)
Dyslipidemias  (ISO)
Emphysema  (ISO)
end stage renal disease  (ISO)
Endotoxemia  (ISO)
exfoliation syndrome  (ISO)
Experimental Autoimmune Encephalomyelitis  (ISO)
Experimental Diabetes Mellitus  (ISO)
Experimental Mammary Neoplasms  (ISO)
familial combined hyperlipidemia  (ISO)
Familial Hyperbeta- and Prebetalipoproteinemia  (ISO)
familial hypercholesterolemia  (ISO)
familial hyperlipidemia  (ISO)
fetal alcohol spectrum disorder  (ISO)
Fetal Growth Retardation  (ISO)
Fibrosis  (ISO)
Floating-Betalipoproteinemia  (ISO)
gallbladder cancer  (ISO)
genetic disease  (ISO)
Genetic Translocation  (ISO)
glomerulonephritis  (ISO)
glomerulosclerosis  (ISO)
Habitual Abortions  (ISO)
Hearing Loss  (ISO)
hepatocellular carcinoma  (ISO)
herpes simplex  (ISO)
Herpes Simplex Encephalitis  (ISO)
herpes simplex virus keratitis  (ISO)
Hypercholesterolemia  (ISO)
hyperhomocysteinemia  (ISO)
Hyperlipemia with Familial Hypercholesterolemic Xanthomatosis  (ISO)
Hyperlipoproteinemia Type II  (ISO)
hyperlipoproteinemia type III  (ISO)
hypertension  (ISO)
Hypertriglyceridemia  (ISO)
hyperuricemia  (ISO)
hypothyroidism  (ISO)
kidney failure  (ISO)
Klebsiella Infections  (ISO)
Kuhnt-Junius degeneration  (ISO)
Lewy body dementia  (ISO)
Lipoprotein Glomerulopathy  (ISO)
low tension glaucoma  (ISO)
lung carcinoma  (ISO)
Lung Neoplasms  (ISO)
macular degeneration  (ISO)
malaria  (ISO)
membranous glomerulonephritis  (ISO)
Memory Disorders  (ISO)
Mercury Poisoning  (ISO)
metabolic dysfunction-associated steatotic liver disease  (ISO)
middle cerebral artery infarction  (ISO)
multiple myeloma  (ISO)
multiple sclerosis  (ISO)
myocardial infarction  (ISO)
Myocardial Ischemia  (ISO)
Neoplasm Metastasis  (ISO)
nephrotic syndrome  (ISO)
Nerve Degeneration  (ISO)
Neurobehavioral Manifestations  (ISO)
obesity  (ISO)
open-angle glaucoma  (ISO)
pancreatic cancer  (ISO)
Parkinson's disease  (ISO)
Peripheral Nerve Injuries  (ISO)
Plaque, Atherosclerotic  (ISO)
Pregnancy Complications, Infectious  (ISO)
Presenile and Senile Dementia  (ISO)
primary cutaneous amyloidosis  (ISO)
primary open angle glaucoma  (ISO)
proteinuria  (ISO)
psoriasis  (ISO)
Puromycin Aminonucleoside Nephrosis  (ISO)
relapsing-remitting multiple sclerosis  (ISO)
retinal disease  (ISO)
schizophrenia  (ISO)
sciatic neuropathy  (ISO)
sea-blue histiocytosis  (ISO)
sensorineural hearing loss  (ISO)
Sjogren's syndrome  (ISO)
Spinal Cord Injuries  (ISO)
Splenomegaly  (ISO)
Spontaneous Abortions  (ISO)
steatotic liver disease  (ISO)
transient cerebral ischemia  (ISO)
type 1 diabetes mellitus  (ISO)
type 2 diabetes mellitus  (ISO)
Vascular System Injuries  (ISO)
Venous Thrombosis  (ISO)
Ventricular Dysfunction, Left  (ISO)
warfarin resistance  (ISO)
warfarin sensitivity  (ISO)
Wilson disease  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
AMPA glutamate receptor clustering  (ISO)
amyloid precursor protein metabolic process  (ISO)
artery morphogenesis  (ISO)
axon regeneration  (ISO)
cellular response to cholesterol  (ISO)
cellular response to ethanol  (ISO)
cellular response to growth factor stimulus  (ISO)
cellular response to interleukin-1  (ISO)
cholesterol catabolic process  (ISO)
cholesterol efflux  (ISO)
cholesterol homeostasis  (ISO)
cholesterol metabolic process  (ISO)
chylomicron remnant clearance  (ISO)
circulatory system development  (ISO)
fatty acid homeostasis  (ISO)
G protein-coupled receptor signaling pathway  (ISO)
gene expression  (ISO)
high-density lipoprotein particle assembly  (ISO)
high-density lipoprotein particle clearance  (ISO)
high-density lipoprotein particle remodeling  (ISO)
intermediate-density lipoprotein particle clearance  (ISO)
intracellular calcium ion homeostasis  (ISO)
lipid homeostasis  (ISO)
lipid metabolic process  (ISO)
lipid transport  (ISO)
lipid transport involved in lipid storage  (ISO)
lipoprotein biosynthetic process  (ISO)
lipoprotein catabolic process  (ISO)
lipoprotein metabolic process  (ISO)
locomotory exploration behavior  (ISO)
long-chain fatty acid transport  (ISO)
long-term memory  (ISO)
low-density lipoprotein particle remodeling  (ISO)
maintenance of location in cell  (ISO)
melanosome organization  (ISO)
negative regulation of amyloid fibril formation  (ISO)
negative regulation of amyloid-beta formation  (ISO)
negative regulation of blood coagulation  (ISO)
negative regulation of blood vessel endothelial cell migration  (ISO)
negative regulation of canonical Wnt signaling pathway  (ISO)
negative regulation of cholesterol biosynthetic process  (ISO)
negative regulation of cholesterol efflux  (ISO)
negative regulation of dendritic spine development  (ISO)
negative regulation of dendritic spine maintenance  (ISO)
negative regulation of endothelial cell migration  (ISO)
negative regulation of endothelial cell proliferation  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of inflammatory response  (ISO)
negative regulation of lipid biosynthetic process  (ISO)
negative regulation of lipid transport across blood-brain barrier  (ISO)
negative regulation of long-term synaptic potentiation  (ISO)
negative regulation of neuron apoptotic process  (ISO)
negative regulation of neuron projection development  (ISO)
negative regulation of phospholipid efflux  (ISO)
negative regulation of platelet activation  (ISO)
negative regulation of postsynaptic membrane organization  (ISO)
negative regulation of protein metabolic process  (ISO)
negative regulation of protein secretion  (ISO)
negative regulation of smooth muscle cell proliferation  (ISO)
negative regulation of triglyceride metabolic process  (ISO)
neuron projection development  (ISO)
nitric oxide-cGMP-mediated signaling  (ISO)
NMDA glutamate receptor clustering  (ISO)
oligodendrocyte differentiation  (ISO)
peripheral nervous system axon regeneration  (ISO)
phospholipid efflux  (ISO)
positive regulation by host of viral process  (ISO)
positive regulation of amyloid-beta clearance  (ISO)
positive regulation of amyloid-beta formation  (ISO)
positive regulation of axon extension  (ISO)
positive regulation of cholesterol efflux  (ISO)
positive regulation of cholesterol metabolic process  (ISO)
positive regulation of dendritic spine development  (ISO)
positive regulation of dendritic spine maintenance  (ISO)
positive regulation of DNA-templated transcription  (ISO)
positive regulation of endocytosis  (ISO)
positive regulation of ERK1 and ERK2 cascade  (ISO)
positive regulation of lipid biosynthetic process  (ISO)
positive regulation of lipid transport across blood-brain barrier  (ISO)
positive regulation of low-density lipoprotein particle receptor catabolic process  (ISO)
positive regulation of membrane protein ectodomain proteolysis  (ISO)
positive regulation of neurofibrillary tangle assembly  (ISO)
positive regulation of neuron projection development  (ISO)
positive regulation of nitric oxide biosynthetic process  (ISO)
positive regulation of phospholipid efflux  (ISO)
positive regulation of presynaptic membrane organization  (ISO)
protein import  (ISO)
protein localization  (ISO)
receptor-mediated endocytosis  (ISO)
regulation of amyloid fibril formation  (ISO)
regulation of amyloid precursor protein catabolic process  (ISO)
regulation of amyloid-beta clearance  (ISO)
regulation of apoptotic process  (ISO)
regulation of behavioral fear response  (ISO)
regulation of Cdc42 protein signal transduction  (ISO)
regulation of cellular response to very-low-density lipoprotein particle stimulus  (ISO)
regulation of cholesterol metabolic process  (ISO)
regulation of gene expression  (ISO)
regulation of innate immune response  (ISO)
regulation of plasma lipoprotein particle levels  (ISO)
regulation of proteasomal protein catabolic process  (ISO)
regulation of protein metabolic process  (ISO)
regulation of protein-containing complex assembly  (ISO)
regulation of synapse organization  (ISO)
regulation of triglyceride metabolic process  (ISO)
response to caloric restriction  (ISO)
response to D-galactosamine  (ISO)
response to dietary excess  (ISO)
response to ethanol  (ISO)
response to insulin  (ISO)
response to oxidative stress  (ISO)
response to retinoic acid  (ISO)
response to tumor necrosis factor  (ISO)
response to zinc ion  (ISO)
reverse cholesterol transport  (ISO)
triglyceride homeostasis  (ISO)
triglyceride metabolic process  (ISO)
triglyceride-rich lipoprotein particle clearance  (ISO)
vasodilation  (ISO)
very-low-density lipoprotein particle clearance  (ISO)
very-low-density lipoprotein particle remodeling  (ISO)
virion assembly  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Apoe
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934917,165,062 - 17,169,462 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049367061,512,438 - 1,516,805 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
APOE
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381944,905,796 - 44,909,393 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1944,905,791 - 44,909,393 (+)EnsemblGRCh38hg38GRCh38
GRCh371945,409,053 - 45,412,650 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361950,100,879 - 50,104,490 (+)NCBINCBI36Build 36hg18NCBI36
Build 341950,100,878 - 50,104,489NCBI
Celera1942,213,361 - 42,216,972 (+)NCBICelera
Cytogenetic Map19q13.32NCBI
HuRef1941,839,825 - 41,843,436 (+)NCBIHuRef
CHM1_11945,411,793 - 45,415,404 (+)NCBICHM1_1
T2T-CHM13v2.01947,730,492 - 47,734,089 (+)NCBIT2T-CHM13v2.0
Apoe
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39719,430,169 - 19,434,326 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl719,430,034 - 19,433,113 (-)EnsemblGRCm39 Ensembl
GRCm38719,696,244 - 19,701,310 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl719,696,109 - 19,699,188 (-)EnsemblGRCm38mm10GRCm38
MGSCv37720,281,593 - 20,284,515 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36718,854,794 - 18,857,554 (-)NCBIMGSCv36mm8
Celera717,102,329 - 17,105,251 (-)NCBICelera
Cytogenetic Map7A3NCBI
cM Map79.94NCBI
Apoe
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8188,481,889 - 88,485,816 (-)NCBIGRCr8
mRatBN7.2179,353,924 - 79,357,852 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl179,353,916 - 79,357,932 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx184,748,825 - 84,752,747 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0193,300,176 - 93,304,099 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0186,503,931 - 86,507,854 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0180,612,894 - 80,616,820 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl180,612,895 - 80,617,057 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0181,878,372 - 81,882,298 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4179,003,634 - 79,006,387 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1179,081,854 - 79,083,684 (-)NCBI
Celera173,813,122 - 73,817,046 (-)NCBICelera
Cytogenetic Map1q21NCBI
Apoe
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555551,999,711 - 2,001,888 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555551,998,170 - 2,002,003 (+)NCBIChiLan1.0ChiLan1.0
APOE
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22051,065,455 - 51,069,038 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11952,937,264 - 52,940,847 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01941,853,669 - 41,857,252 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11950,459,906 - 50,463,490 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1950,459,906 - 50,463,490 (+)Ensemblpanpan1.1panPan2
APOE
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11110,525,717 - 110,528,534 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1110,525,722 - 110,528,440 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1110,006,660 - 110,009,463 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01111,055,483 - 111,058,288 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1111,055,483 - 111,058,228 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11110,730,139 - 110,732,942 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01110,365,616 - 110,368,413 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01111,234,400 - 111,237,204 (-)NCBIUU_Cfam_GSD_1.0
APOE
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl651,372,292 - 51,375,330 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1651,373,113 - 51,375,333 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2647,269,973 - 47,272,195 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap6q1.2-q2.12NCBI
APOE
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1638,377,154 - 38,381,219 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl638,376,887 - 38,381,438 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607317,947,315 - 17,951,250 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Apoe
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249071,752,322 - 1,755,308 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005338268 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010004409 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: XM_005338268   ⟹   XP_005338325
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440934917,165,062 - 17,169,462 (+)NCBI
SpeTri2.0NW_0049367061,512,438 - 1,516,805 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005338325 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein KAG3256225 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005338325   ⟸   XM_005338268
- Sequence:


Additional Information

Database Acc Id Source(s)
NCBI Gene Apoe ENTREZGENE