Bace1 (beta-secretase 1) - Rat Genome Database

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Gene: Bace1 (beta-secretase 1) Rattus norvegicus
Analyze
Symbol: Bace1
Name: beta-secretase 1
RGD ID: 2191
Description: Enables peptidase activity. Involved in several processes, including cellular response to amyloid-beta; detection of mechanical stimulus involved in sensory perception of pain; and prepulse inhibition. Located in several cellular components, including cytoplasmic vesicle; dendrite; and neuronal cell body. Used to study dementia. Biomarker of Alzheimer's disease; alcohol use disorder; sensory peripheral neuropathy; and transient cerebral ischemia. Human ortholog(s) of this gene implicated in Alzheimer's disease. Orthologous to human BACE1 (beta-secretase 1); PARTICIPATES IN Alzheimer's disease pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',5-triiodo-L-thyronine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: asp 2; ASP2; aspartyl protease 2; Bace; beta-site amyloid precursor protein cleaving enzyme 1; beta-site APP cleaving enzyme; beta-site APP cleaving enzyme 1; memapsin-2; membrane-associated aspartic protease 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Bace1em1Sage
Genetic Models: SD-Bace1em1Sage-/- ; SD-Bace1em1Sage+/- ; SD-Bace1em1Sage
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8855,038,842 - 55,061,138 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl855,038,823 - 55,064,918 (+)EnsemblGRCr8
mRatBN7.2846,142,060 - 46,166,268 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl846,142,116 - 46,165,876 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx851,643,201 - 51,665,458 (+)NCBIUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0849,921,966 - 49,944,223 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0847,786,230 - 47,808,489 (+)NCBIUTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd855,871,377 - 55,893,639 (+)NCBI
Lyon_Normotensive858,062,152 - 58,084,413 (+)NCBI
Lyon_Hypertensive856,493,334 - 56,515,595 (+)NCBI
F344_StmMcwi847,901,951 - 47,924,213 (+)NCBI
Rnor_6.0850,140,092 - 50,162,388 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl850,139,997 - 50,162,361 (+)EnsemblRnor_6.0 Ensemblrn6Rnor6.0
Rnor_5.0848,766,005 - 48,788,272 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4848,817,824 - 48,839,681 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera845,724,900 - 45,747,208 (+)NCBICelera
RGSC_v3.1848,826,589 - 48,848,447 (+)NCBI
Cytogenetic Map8q22NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
(25R)-cholest-5-ene-3beta,26-diol  (ISO)
(R,R,R)-alpha-tocopherol  (ISO)
(S)-naringenin  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (ISO)
2,2,2-tetramine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
26-hydroxycholesterol  (ISO)
3,3',5-triiodo-L-thyronine  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
4,4'-sulfonyldiphenol  (EXP)
6-propyl-2-thiouracil  (EXP)
acrolein  (EXP,ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
alendronic acid  (ISO)
all-trans-retinoic acid  (EXP,ISO)
all-trans-retinol  (EXP)
aminoguanidine  (ISO)
ammonium chloride  (EXP)
arsane  (EXP)
arsenic atom  (EXP)
arsenous acid  (ISO)
azure B  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
butanal  (ISO)
Butylbenzyl phthalate  (ISO)
cadmium atom  (EXP)
cadmium dichloride  (EXP)
calycosin  (EXP)
cannabidiol  (ISO)
carbon nanotube  (ISO)
ceftriaxone  (EXP)
CGP 52608  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
clofibrate  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) chloride  (EXP)
coumestrol  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
cyprodinil  (ISO)
DDE  (EXP)
DDT  (ISO)
dexamethasone  (EXP)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
Didymin  (ISO)
diethyldithiocarbamic acid  (ISO)
dinophysistoxin 1  (ISO)
dioxygen  (ISO)
donepezil hydrochloride  (ISO)
dorsomorphin  (ISO)
Enterolactone  (ISO)
entinostat  (ISO)
epoxiconazole  (EXP)
ethanol  (ISO)
fenthion  (ISO)
ferulic acid  (ISO)
folic acid  (ISO)
furan  (EXP)
genistein  (EXP)
gentamycin  (EXP)
ginsenoside Rg1  (EXP)
Goe 6976  (ISO)
gold atom  (ISO)
gold(0)  (ISO)
hexadecanoic acid  (ISO)
hydrogen peroxide  (ISO)
hypochlorous acid  (ISO)
ibuprofen  (EXP,ISO)
icariin  (EXP)
indometacin  (ISO)
isoflurane  (EXP,ISO)
ketamine  (ISO)
ketoconazole  (EXP)
L-methionine  (ISO)
lead diacetate  (EXP,ISO)
lead(0)  (EXP,ISO)
linuron  (EXP)
lipopolysaccharide  (ISO)
lovastatin  (EXP,ISO)
manganese atom  (ISO)
manganese(0)  (ISO)
melatonin  (EXP)
mepanipyrim  (ISO)
methamphetamine  (EXP)
methylmercury chloride  (ISO)
minocycline  (ISO)
monensin A  (ISO)
montelukast  (EXP)
naproxen  (ISO)
oleic acid  (ISO)
paracetamol  (ISO)
paraquat  (EXP)
pentetrazol  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
Pf-06840003  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
PhIP  (ISO)
phorbol 12,13-dibutanoate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pioglitazone  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
prochloraz  (EXP)
procymidone  (EXP)
propiconazole  (ISO)
pyrimethanil  (ISO)
quercetin  (ISO)
rotenone  (ISO)
S-adenosyl-L-homocysteine  (ISO)
SB 203580  (ISO)
SB 431542  (ISO)
sevoflurane  (EXP,ISO)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
streptozocin  (ISO)
sunitinib  (ISO)
thimerosal  (ISO)
thioacetamide  (EXP)
thiram  (ISO)
titanium dioxide  (ISO)
tolfenamic acid  (ISO)
tolonium chloride  (ISO)
trichloroethene  (EXP)
triphenyl phosphate  (ISO)
troglitazone  (ISO)
uranium atom  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
wortmannin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
axon  (IDA,IEA,ISO)
cell surface  (IEA,ISO,ISS)
cytoplasmic vesicle  (IEA,ISO)
cytoplasmic vesicle membrane  (IEA,ISO,ISS)
dendrite  (IDA,IEA)
early endosome  (IEA,ISO,ISS)
endoplasmic reticulum  (IEA,ISO,ISS)
endosome  (IBA,IDA,IEA,ISO,ISS)
Golgi apparatus  (IEA,ISO,ISS)
hippocampal mossy fiber to CA3 synapse  (IEA,ISO)
late endosome  (IEA,ISO,ISS)
lysosome  (IEA,ISO,ISS)
membrane  (IEA,ISO)
membrane raft  (IEA,ISO,ISS)
multivesicular body  (IEA,ISO)
neuronal cell body  (IDA)
plasma membrane  (IBA,IEA,ISO,ISS)
presynapse  (IEA,ISO)
recycling endosome  (IEA,ISO,ISS)
synaptic vesicle  (IDA)
trans-Golgi network  (IBA,IEA,ISO,ISS)

Molecular Function

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

References - curated
# Reference Title Reference Citation
1. Sleep deprivation accelerates the progression of alzheimer's disease by influencing Aß-related metabolism. Chen L, etal., Neurosci Lett. 2017 May 22;650:146-152. doi: 10.1016/j.neulet.2017.04.047. Epub 2017 Apr 25.
2. Plasma long non-coding RNA BACE1 as a novel biomarker for diagnosis of Alzheimer disease. Feng L, etal., BMC Neurol. 2018 Jan 9;18(1):4. doi: 10.1186/s12883-017-1008-x.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. miR-15b mediates oxaliplatin-induced chronic neuropathic pain through BACE1 down-regulation. Ito N, etal., Br J Pharmacol. 2017 Mar;174(5):386-395. doi: 10.1111/bph.13698. Epub 2017 Jan 23.
5. The correlation between accumulation of amyloid beta with enhanced neuroinflammation and cognitive impairment after intraventricular hemorrhage. Jiang C, etal., J Neurosurg. 2018 Jul 20:1-10. doi: 10.3171/2018.1.JNS172938.
6. Long-term electromagnetic pulse exposure induces Abeta deposition and cognitive dysfunction through oxidative stress and overexpression of APP and BACE1. Jiang DP, etal., Brain Res. 2016 Jul 1;1642:10-19. doi: 10.1016/j.brainres.2016.02.053. Epub 2016 Mar 10.
7. KEGG: Kyoto Encyclopedia of Genes and Genomes KEGG
8. Effects of chronic alcohol consumption on expression levels of APP and Aβ-producing enzymes. Kim SR, etal., BMB Rep. 2011 Feb;44(2):135-9. doi: 10.5483/BMBRep.2011.44.2.135.
9. Polymorphism in the BACE gene influences the risk for Alzheimer's disease. Kirschling CM, etal., Neuroreport 2003 Jul 1;14(9):1243-6.
10. Exposure to metal ions regulates mRNA levels of APP and BACE1 in PC12 cells: blockage by curcumin. Lin R, etal., Neurosci Lett. 2008 Aug 8;440(3):344-7. doi: 10.1016/j.neulet.2008.05.070. Epub 2008 May 24.
11. ADAM10 and BACE1 are localized to synaptic vesicles. Lundgren JL, etal., J Neurochem. 2015 Nov;135(3):606-15. doi: 10.1111/jnc.13287. Epub 2015 Sep 17.
12. Flavonoid-rich ethanol extract from the leaves of Diospyros kaki attenuates cognitive deficits, amyloid-beta production, oxidative stress, and neuroinflammation in APP/PS1 transgenic mice. Ma Y, etal., Brain Res. 2018 Jan 1;1678:85-93. doi: 10.1016/j.brainres.2017.10.001. Epub 2017 Oct 14.
13. Amyloid beta-protein oligomers upregulate the beta-secretase, BACE1, through a post-translational mechanism involving its altered subcellular distribution in neurons. Mamada N, etal., Mol Brain. 2015 Nov 9;8(1):73. doi: 10.1186/s13041-015-0163-5.
14. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
15. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
16. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
17. GOA pipeline RGD automated data pipeline
18. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
19. BACE1 Mediates HIV-Associated and Excitotoxic Neuronal Damage Through an APP-Dependent Mechanism. Stern AL, etal., J Neurosci. 2018 May 2;38(18):4288-4300. doi: 10.1523/JNEUROSCI.1280-17.2018. Epub 2018 Apr 9.
20. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
21. Beta-secretase cleavage of Alzheimer's amyloid precursor protein by the transmembrane aspartic protease BACE. Vassar R, etal., Science 1999 Oct 22;286(5440):735-41.
22. Insulin-like growth factor-1 improves postoperative cognitive dysfunction following splenectomy in aged rats. Wang B, etal., Exp Ther Med. 2021 Mar;21(3):215. doi: 10.3892/etm.2021.9647. Epub 2021 Jan 15.
23. BACE1 gene silencing alleviates isoflurane anesthesia‑induced postoperative cognitive dysfunction in immature rats by activating the PI3K/Akt signaling pathway. Wang YB, etal., Mol Med Rep. 2018 Nov;18(5):4259-4270. doi: 10.3892/mmr.2018.9453. Epub 2018 Sep 4.
24. BACE1 across species: a comparison of the in vivo consequences of BACE1 deletion in mice and rats. Weber M, etal., Sci Rep. 2017 Mar 10;7:44249. doi: 10.1038/srep44249.
25. Increased beta-secretase activity and expression in rats following transient cerebral ischemia. Wen Y, etal., Brain Res. 2004 May 29;1009(1-2):1-8. doi: 10.1016/j.brainres.2003.09.086.
26. BACE1 inhibition by microdose lithium formulation NP03 rescues memory loss and early stage amyloid neuropathology. Wilson EN, etal., Transl Psychiatry. 2017 Aug 1;7(8):e1190. doi: 10.1038/tp.2017.169.
27. MiR-9 Regulates the Expression of BACE1 in Dementia Induced by Chronic Brain Hypoperfusion in Rats. Xie H, etal., Cell Physiol Biochem. 2017;42(3):1213-1226. doi: 10.1159/000478919. Epub 2017 Jul 3.
28. miR-124 Regulates the Expression of BACE1 in the Hippocampus Under Chronic Cerebral Hypoperfusion. Zhang X, etal., Mol Neurobiol. 2017 May;54(4):2498-2506. doi: 10.1007/s12035-016-9845-y. Epub 2016 Mar 16.
29. Lead exposure induces Alzheimers's disease (AD)-like pathology and disturbes cholesterol metabolism in the young rat brain. Zhou CC, etal., Toxicol Lett. 2018 Jun 15. pii: S0378-4274(18)31306-7. doi: 10.1016/j.toxlet.2018.06.1065.
Additional References at PubMed
PMID:8562317   PMID:10677483   PMID:11466313   PMID:11740561   PMID:12473667   PMID:12586838   PMID:12815710   PMID:14981268   PMID:15034149   PMID:15057522   PMID:15080893   PMID:15123597  
PMID:15364953   PMID:15722349   PMID:15886016   PMID:15886206   PMID:16033761   PMID:16407538   PMID:16757811   PMID:16904262   PMID:17206602   PMID:17429617   PMID:17576410   PMID:17897958  
PMID:18263584   PMID:18353773   PMID:18753368   PMID:19074428   PMID:19106624   PMID:19123057   PMID:19196431   PMID:19734625   PMID:19844237   PMID:20137687   PMID:20638753   PMID:20704561  
PMID:20821260   PMID:20943921   PMID:21073551   PMID:21825135   PMID:22267734   PMID:22631614   PMID:23109336   PMID:23127855   PMID:23504710   PMID:23820808   PMID:23931995   PMID:24305806  
PMID:24612608   PMID:24907271   PMID:25592972   PMID:25773675   PMID:26401782   PMID:26467158   PMID:26890784   PMID:27022655   PMID:27084579   PMID:27302062   PMID:27576688   PMID:28626014  
PMID:29325091   PMID:29371969   PMID:30251689   PMID:31014193   PMID:32308102   PMID:32648077   PMID:33495810   PMID:34225591   PMID:34585626   PMID:38215068   PMID:38227464  


Genomics

Comparative Map Data
Bace1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8855,038,842 - 55,061,138 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl855,038,823 - 55,064,918 (+)EnsemblGRCr8
mRatBN7.2846,142,060 - 46,166,268 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl846,142,116 - 46,165,876 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx851,643,201 - 51,665,458 (+)NCBIUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0849,921,966 - 49,944,223 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0847,786,230 - 47,808,489 (+)NCBIUTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd855,871,377 - 55,893,639 (+)NCBI
Lyon_Normotensive858,062,152 - 58,084,413 (+)NCBI
Lyon_Hypertensive856,493,334 - 56,515,595 (+)NCBI
F344_StmMcwi847,901,951 - 47,924,213 (+)NCBI
Rnor_6.0850,140,092 - 50,162,388 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl850,139,997 - 50,162,361 (+)EnsemblRnor_6.0 Ensemblrn6Rnor6.0
Rnor_5.0848,766,005 - 48,788,272 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4848,817,824 - 48,839,681 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera845,724,900 - 45,747,208 (+)NCBICelera
RGSC_v3.1848,826,589 - 48,848,447 (+)NCBI
Cytogenetic Map8q22NCBI
BACE1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811117,285,698 - 117,316,256 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11117,285,232 - 117,316,291 (-)EnsemblGRCh38.p14 Ensemblhg38GRCh38
GRCh3711117,156,414 - 117,186,972 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611116,661,624 - 116,692,182 (-)NCBIBuild 36Build 36hg18NCBI36
Celera11114,314,074 - 114,344,631 (-)NCBICelera
Cytogenetic Map11q23.3NCBI
HuRef11113,090,543 - 113,121,018 (-)NCBIHuRef
CHM1_111117,041,502 - 117,072,072 (-)NCBICHM1_1
T2T-CHM13v2.011117,302,503 - 117,333,060 (-)NCBIT2T-CHM13v2.0
Bace1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39945,749,878 - 45,775,694 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl945,749,834 - 45,776,173 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38945,838,545 - 45,862,484 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl945,838,580 - 45,864,399 (+)EnsemblGRCm38.p6 Ensemblmm10GRCm38
MGSCv37945,646,612 - 45,670,567 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36945,589,578 - 45,613,436 (+)NCBIMGSCv36mm8
Celera943,121,304 - 43,145,259 (+)NCBICelera
Cytogenetic Map9A5.2NCBI
cM Map925.22NCBI
Bace1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541218,596,643 - 18,620,362 (-)EnsemblChiLan1.0 Ensembl
ChiLan1.0NW_00495541218,596,643 - 18,620,089 (-)NCBIChiLan1.0ChiLan1.0
BACE1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v29117,986,558 - 118,017,119 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan111119,095,929 - 119,123,152 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v011112,120,950 - 112,151,505 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111116,054,303 - 116,084,813 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11116,054,303 - 116,084,812 (-)EnsemblPanPan1.1 EnsemblpanPan2panpan1.1
BACE1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1516,308,953 - 16,319,100 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl516,308,944 - 16,319,100 (+)EnsemblCanFam3.1 EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha516,347,976 - 16,371,490 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0516,240,025 - 16,263,790 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl516,239,793 - 16,264,160 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1516,377,977 - 16,401,485 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0516,280,937 - 16,304,419 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0516,323,226 - 16,346,725 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Bace1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mIctTri1.hap14100,800,164 - 100,824,952 (-)NCBImIctTri1.hap1
HiC_Itri_2NW_02440494799,590,774 - 99,617,699 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365422,514,300 - 2,539,135 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365422,514,297 - 2,539,088 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BACE1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl944,640,394 - 44,665,835 (-)EnsemblSscrofa11.1 EnsemblsusScr11Sscrofa11.1
Sscrofa11.1944,640,389 - 44,665,863 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2949,716,271 - 49,738,860 (-)NCBISscrofa10.2Sscrofa10.2susScr3
BACE1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mChlSab1.0.hap11113,522,515 - 113,550,806 (-)NCBImChlSab1.0.hap1
Vero_WHO_p1.0NW_02366604317,364,724 - 17,395,903 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
ChlSab1.11108,659,723 - 108,689,879 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1108,657,584 - 108,689,843 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Bace1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462478412,725,419 - 12,759,530 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
HetGla_female_1.0 EnsemblNW_00462478412,725,063 - 12,759,637 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
Naked mole-rat maternal Ensembl550,077,286 - 50,103,311 (+)Ensembl
Bace1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1840,367,908 - 40,392,304 (+)NCBIRrattus_CSIRO_v1Rrattus_CSIRO_v1

Variants

.
Variants in Bace1
213 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:31
Count of miRNA genes:29
Interacting mature miRNAs:30
Transcripts:ENSRNOT00000022796
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313057Bss76Bone structure and strength QTL 7630.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)83910625891341052Rat
1298065Scl16Serum cholesterol level QTL 163.8blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)83975280384752803Rat
2317030Wbc5White blood cell count QTL 53.210.005leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)81699464261994642Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)849849908118871671Rat
2313067Bss77Bone structure and strength QTL 773.10.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)83910625891341052Rat
1578769Uae31Urinary albumin excretion QTL 313.30.001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)839106363103375781Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)81296416557964165Rat
2301416Bp315Blood pressure QTL 3150.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)81595227960952279Rat
1298079Activ2Activity QTL 29.50.000001voluntary movement trait (VT:0003491)rearing measurement (CMO:0001515)85076395195763951Rat
11556286Cm81Cardiac mass QTL 810.01heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)83910625884106258Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)81296416557964165Rat
70161Bp62Blood pressure QTL 622.90.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)85158969999045312Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)81038254055382540Rat
1578765Klgr1Kidney lesion grade QTL 13.30.0001kidney morphology trait (VT:0002135)organ lesion measurement (CMO:0000677)839106363103375781Rat
5684993Bmd84Bone mineral density QTL 844.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)85158969958991895Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)81038254055382540Rat
2317051Aia18Adjuvant induced arthritis QTL 182.42joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)81699464261994642Rat
61464Niddm11Non-insulin dependent diabetes mellitus QTL 113.10.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)84447792689477926Rat
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)81296416557964165Rat
1578755Pur5Proteinuria QTL 53.30.0001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)839106258103375958Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)81038254055382540Rat
2313088Bss75Bone structure and strength QTL 753.10.0001body length (VT:0001256)body length, nose to rump (CMO:0000079)83910625891341052Rat
1358896Bp262Blood pressure QTL 2622.89arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)835464071107982864Rat
2302278Gluco36Glucose level QTL 364.2blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)83776085958991895Rat
731182Uae24Urinary albumin excretion QTL 246.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)84754141992541419Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)81038254055382540Rat
631648Stl5Serum triglyceride level QTL 540.0003blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)83546407171842899Rat
724514Uae15Urinary albumin excretion QTL 152.9urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)83776085961459705Rat
61353Bp35Blood pressure QTL 350.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)83910625884106258Rat
631842Inf1Infertility severity QTL 14.10.001seminal gland mass (VT:0010524)seminal vesicle wet weight (CMO:0001603)83154366176543661Rat
737824Hcar10Hepatocarcinoma resistance QTL 102.9liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)84961020468373388Rat
1359033Bp273Blood pressure QTL 273arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83910625884106258Rat
1331769Rf39Renal function QTL 393.871urine output (VT:0003620)timed urine volume (CMO:0000260)850763951107970527Rat
61358Bp39Blood pressure QTL 392arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)84444783789447837Rat
1358906Bp253Blood pressure QTL 25340.0004arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)84961020494610204Rat
1358907Cm40Cardiac mass QTL 401.89heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)835464071107982864Rat
1598824Memor4Memory QTL 42.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)81799386262252873Rat
1331744Bp217Blood pressure QTL 2173.398arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)83910625867378345Rat
2313046Bss78Bone structure and strength QTL 783.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)83910625891341052Rat
2316950Scl66Serum cholesterol level QTL 664.1blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)839106363114525825Rat
1582254Kidm31Kidney mass QTL 313kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)84924517894245178Rat
724540Uae8Urinary albumin excretion QTL 85urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)839106258103375958Rat
1358892Kidm26Kidney mass QTL 263.69kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)835464071107982864Rat
1359021Bp271Blood pressure QTL 2711.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)83412590255607752Rat
631216Stl9Serum triglyceride level QTL 94.710.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)85076395167219641Rat
1582243Bw66Body weight QTL 663.40.0048body mass (VT:0001259)body weight (CMO:0000012)84924517894245178Rat
61373Mcs4Mammary carcinoma susceptibility QTL 41.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)84447504389475043Rat

Markers in Region
RH129813  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2846,160,639 - 46,160,822 (+)MAPPERmRatBN7.2
Rnor_6.0850,158,604 - 50,158,786NCBIRnor6.0
Rnor_5.0848,784,488 - 48,784,670UniSTSRnor5.0
RGSC_v3.4848,835,897 - 48,836,079UniSTSRGSC3.4
Celera845,743,424 - 45,743,606UniSTS
RH 3.4 Map8467.2UniSTS
Cytogenetic Map8q22UniSTS
RH138821  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2846,162,643 - 46,162,768 (+)MAPPERmRatBN7.2
Rnor_6.0850,160,608 - 50,160,732NCBIRnor6.0
Rnor_5.0848,786,492 - 48,786,616UniSTSRnor5.0
RGSC_v3.4848,837,901 - 48,838,025UniSTSRGSC3.4
Celera845,745,428 - 45,745,552UniSTS
RH 3.4 Map8467.7UniSTS
Cytogenetic Map8q22UniSTS


Genetic Models
This gene Bace1 is modified in the following models/strains:
SD-Bace1em1Sage-/-     SD-Bace1em1Sage+/-     SD-Bace1em1Sage    


Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
entire extraembryonic component
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
pharyngeal arch
renal system
reproductive system
respiratory system
sensory system
visual system
273 154 725 1589 4057 995 1711 133 858 485 840 156 5358 2583 443 3970 38 1388 741 907 160 158

Sequence


Ensembl Acc Id: ENSRNOT00000022796   ⟹   ENSRNOP00000022796
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl855,038,823 - 55,064,918 (+)Ensembl
mRatBN7.2 Ensembl846,142,116 - 46,165,876 (+)Ensembl
Rnor_6.0 Ensembl850,139,997 - 50,162,361 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000115398   ⟹   ENSRNOP00000094304
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl855,038,823 - 55,064,918 (+)Ensembl
mRatBN7.2 Ensembl846,142,116 - 46,165,876 (+)Ensembl
RefSeq Acc Id: NM_019204   ⟹   NP_062077
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8855,038,842 - 55,061,138 (+)NCBI
mRatBN7.2846,142,124 - 46,164,424 (+)NCBI
Dahl_SR_JrHsd855,871,377 - 55,893,639 (+)NCBI
Lyon_Normotensive858,062,152 - 58,084,413 (+)NCBI
Lyon_Hypertensive856,493,334 - 56,515,595 (+)NCBI
F344_StmMcwi847,901,951 - 47,924,213 (+)NCBI
Rnor_6.0850,140,092 - 50,162,388 (+)NCBI
Rnor_5.0848,766,005 - 48,788,272 (+)NCBI
RGSC_v3.4848,817,824 - 48,839,681 (+)RGD
Celera845,724,900 - 45,747,208 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_062077 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF04144 (Get FASTA)   NCBI Sequence Viewer  
  EDL95375 (Get FASTA)   NCBI Sequence Viewer  
  EDL95376 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000022796
  ENSRNOP00000022796.5
  ENSRNOP00055028025
  ENSRNOP00060018727
  ENSRNOP00065039004
GenBank Protein P56819 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_062077   ⟸   NM_019204
- Peptide Label: precursor
- UniProtKB: P56819 (UniProtKB/Swiss-Prot),   A0A8I6AHF6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000022796   ⟸   ENSRNOT00000022796
Ensembl Acc Id: ENSRNOP00000094304   ⟸   ENSRNOT00000115398
Protein Domains
Peptidase A1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P56819-F1-model_v2 AlphaFold P56819 1-501 view protein structure

Transcriptome

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

Promoters
RGD ID:13695919
Promoter ID:EPDNEW_R6444
Type:single initiation site
Name:Bace1_1
Description:beta-secretase 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_6.0850,140,073 - 50,140,133EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2191 AgrOrtholog
BioCyc Gene G2FUF-30665 BioCyc
Ensembl Genes ENSRNOG00000016847 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055020254 UniProtKB/Swiss-Prot
  ENSRNOG00060013805 UniProtKB/Swiss-Prot
  ENSRNOG00065027571 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000022796 ENTREZGENE
  ENSRNOT00000022796.8 UniProtKB/Swiss-Prot
  ENSRNOT00055034589 UniProtKB/Swiss-Prot
  ENSRNOT00060023572 UniProtKB/Swiss-Prot
  ENSRNOT00065047536 UniProtKB/Swiss-Prot
Gene3D-CATH 2.40.70.10 UniProtKB/Swiss-Prot
InterPro Aspartic_peptidase_A1 UniProtKB/Swiss-Prot
  Aspartic_peptidase_AS UniProtKB/Swiss-Prot
  BACE UniProtKB/Swiss-Prot
  BACE1 UniProtKB/Swiss-Prot
  Memapsin-like UniProtKB/Swiss-Prot
  PEPTIDASE_A1 UniProtKB/Swiss-Prot
  Peptidase_aspartic_dom_sf UniProtKB/Swiss-Prot
KEGG Report rno:29392 UniProtKB/Swiss-Prot
NCBI Gene 29392 ENTREZGENE
PANTHER PTHR47965 UniProtKB/Swiss-Prot
  PTHR47965:SF69 UniProtKB/Swiss-Prot
Pfam Asp UniProtKB/Swiss-Prot
PharmGKB BACE1 RGD
PhenoGen Bace1 PhenoGen
PRINTS BACE1 UniProtKB/Swiss-Prot
  BACEFAMILY UniProtKB/Swiss-Prot
  PEPSIN UniProtKB/Swiss-Prot
PROSITE ASP_PROTEASE UniProtKB/Swiss-Prot
  PEPTIDASE_A1 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000016847 RatGTEx
  ENSRNOG00055020254 RatGTEx
  ENSRNOG00060013805 RatGTEx
  ENSRNOG00065027571 RatGTEx
Superfamily-SCOP SSF50630 UniProtKB/Swiss-Prot
TIGR TC214935
UniProt A0A8I6AHF6 ENTREZGENE, UniProtKB/TrEMBL
  BACE1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-20 Bace1  beta-secretase 1  Bace1  beta-site APP cleaving enzyme 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Bace1  beta-site APP cleaving enzyme 1  Bace  beta-site APP cleaving enzyme  Symbol and Name updated 1299863 APPROVED
2002-06-10 Bace  beta-site APP cleaving enzyme      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease may play a role in Alzheimer's 69771
gene_function protease 69771
gene_process involved in cleavage of amyloid beta peptide 69771