Bace2 (beta-secretase 2) - Rat Genome Database

Name: Bace2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| FTP Download \| REST API \| Citing RGD \| Contact
	Search RGD Grant Resources Citing RGD About Us Contact Us Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References FTP Download Submit Data OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease Find Models new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) 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 Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
	Advanced Search (OLGA)

Gene: Bace2 (beta-secretase 2) Rattus norvegicus

Analyze

Symbol:

Bace2

Name:

beta-secretase 2

RGD ID:

1303241

Description:

Predicted to have aspartic-type endopeptidase activity. Involved in astrocyte activation. Localizes to dense core granule. Human ortholog(s) of this gene implicated in Alzheimer's disease. Orthologous to human BACE2 (beta-secretase 2); PARTICIPATES IN Alzheimer's disease pathway; INTERACTS WITH 17alpha-ethynylestradiol; 3,3',4,4',5-pentachlorobiphenyl; 3,3',5,5'-tetrabromobisphenol A.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

beta-site amyloid precursor protein cleaving enzyme 2; beta-site APP cleaving enzyme 2; beta-site APP-cleaving enzyme 2; memapsin-1; membrane-associated aspartic protease 1; theta-secretase

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	BACE2 (beta-secretase 2)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Bace2 (beta-site APP-cleaving enzyme 2)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Bace2 (beta-secretase 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	BACE2 (beta-secretase 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	BACE2 (beta-secretase 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Bace2 (beta-secretase 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	BACE2 (beta-secretase 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	BACE2 (beta-secretase 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Bace2 (beta-secretase 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	BACE2 (beta-secretase 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Bace2 (beta-site APP-cleaving enzyme 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	bace2	Alliance	DIOPT (Ensembl Compara\|OMA\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	MKC7	Alliance	DIOPT (Ensembl Compara\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	BAR1	Alliance	DIOPT (Ensembl Compara\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	YPS1	Alliance	DIOPT (Ensembl Compara\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	YPS6	Alliance	DIOPT (Ensembl Compara\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	YPS7	Alliance	DIOPT (Ensembl Compara\|PANTHER\|PhylomeDB)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	11	36,707,473 - 36,789,550 (+)	NCBI
Rnor_6.0 Ensembl	11	37,798,370 - 37,880,821 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	11	37,798,397 - 37,880,624 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	11	41,305,984 - 41,389,663 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	37,345,568 - 37,428,155 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	11	37,403,156 - 37,485,744 (+)	NCBI
Celera	11	36,594,056 - 36,676,118 (+)	NCBI		Celera
Cytogenetic Map	11	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Alzheimer's disease (ISO)

autistic disorder (ISO)

frontotemporal dementia (ISO)

Neurodevelopmental Disorders (ISO)

type 2 diabetes mellitus (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,1-dichloroethene (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (ISO)

3,3',4,4',5-pentachlorobiphenyl (EXP)

3,3',5,5'-tetrabromobisphenol A (EXP)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

aflatoxin B1 (ISO)

aflatoxin B2 (ISO)

antirheumatic drug (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

benzo[e]pyrene (ISO)

bis(2-ethylhexyl) phthalate (EXP)

bisphenol A (EXP,ISO)

carbon nanotube (ISO)

chloroprene (EXP)

cisplatin (ISO)

coumestrol (ISO)

cyclosporin A (ISO)

DDE (EXP)

dibenz[a,h]anthracene (ISO)

dibutyl phthalate (EXP)

dioxygen (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

endosulfan (EXP)

Enterolactone (ISO)

entinostat (ISO)

epoxiconazole (EXP)

ethyl methanesulfonate (ISO)

etoposide (ISO)

folic acid (ISO)

fonofos (ISO)

formaldehyde (ISO)

furan (EXP)

gentamycin (EXP)

linuron (EXP)

lovastatin (EXP,ISO)

mercury dichloride (ISO)

methapyrilene (ISO)

methyl methanesulfonate (ISO)

mitomycin C (ISO)

mitoxantrone (ISO)

panobinostat (ISO)

paracetamol (ISO)

parathion (ISO)

phenylmercury acetate (ISO)

potassium dichromate (ISO)

prochloraz (EXP)

procymidone (EXP)

resveratrol (ISO)

SB 431542 (ISO)

silver atom (ISO)

silver(0) (ISO)

sodium arsenite (ISO)

terbufos (ISO)

tert-butyl hydroperoxide (ISO)

tetrachloromethane (ISO)

thimerosal (ISO)

trichostatin A (ISO)

triclosan (ISO)

trimellitic anhydride (ISO)

troglitazone (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

amyloid-beta metabolic process (IBA)

astrocyte activation (IEP)

glucose homeostasis (ISO)

membrane protein ectodomain proteolysis (IBA,ISO,ISS)

negative regulation of amyloid precursor protein biosynthetic process (ISO,ISS)

Cellular Component

cytoplasm (IDA)

dense core granule (IDA)

endoplasmic reticulum (IEA)

endosome (IBA)

Golgi apparatus (ISO,ISS)

integral component of membrane (IEA)

membrane (IBA)

plasma membrane (ISO,ISS)

trans-Golgi network (IBA)

Molecular Function

aspartic-type endopeptidase activity (ISO,ISS)

molecular_function (ND)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

Alzheimer's disease pathway (IEA)

References

References - curated


1.	Alcarraz-Vizán G, etal., Cell Mol Life Sci. 2017 Aug;74(15):2827-2838. doi: 10.1007/s00018-017-2505-1. Epub 2017 Mar 23.
2.	Bettegazzi B, etal., Eur J Neurosci. 2011 Jan;33(2):236-43. doi: 10.1111/j.1460-9568.2010.07482.x. Epub 2010 Nov 14.
3.	Finzi G, etal., Ultrastruct Pathol. 2008 Nov-Dec;32(6):246-51. doi: 10.1080/01913120802486217.
4.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5.	Holler CJ, etal., Am J Pathol. 2012 Jan;180(1):337-50. doi: 10.1016/j.ajpath.2011.09.034. Epub 2011 Nov 7.
6.	MGD data from the GO Consortium
7.	Myllykangas L, etal., J Neurol Sci. 2005 Sep 15;236(1-2):17-24. doi: 10.1016/j.jns.2005.04.008.
8.	Pipeline to import KEGG annotations from KEGG into RGD
9.	Puente XS and Lopez-Otin C, Genome Res 2004 Apr;14(4):609-22.
10.	RGD automated data pipeline
11.	RGD automated import pipeline for gene-chemical interactions
12.	RGD comprehensive gene curation

Additional References at PubMed

PMID:10591213	PMID:11423558	PMID:12477932	PMID:12801932	PMID:16757811	PMID:21907142	PMID:25342134

Genomics

Comparative Map Data

Bace2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	11	36,707,473 - 36,789,550 (+)	NCBI
Rnor_6.0 Ensembl	11	37,798,370 - 37,880,821 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	11	37,798,397 - 37,880,624 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	11	41,305,984 - 41,389,663 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	37,345,568 - 37,428,155 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	11	37,403,156 - 37,485,744 (+)	NCBI
Celera	11	36,594,056 - 36,676,118 (+)	NCBI		Celera
Cytogenetic Map	11	q12	NCBI

BACE2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	21	41,167,801 - 41,282,530 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	21	41,168,160 - 41,282,530 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	21	42,540,087 - 42,654,457 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
GRCh37	21	42,539,728 - 42,654,461 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	21	41,461,598 - 41,570,394 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	21	41,461,597 - 41,570,394	NCBI
Celera	21	27,737,910 - 27,846,710 (+)	NCBI
Cytogenetic Map	21	q22.2-q22.3	NCBI
HuRef	21	28,008,619 - 28,123,292 (+)	NCBI		HuRef
CHM1_1	21	42,100,065 - 42,215,315 (+)	NCBI		CHM1_1

Bace2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	97,157,928 - 97,244,136 (+)	NCBI	GRCm39		mm39
GRCm38	16	97,356,728 - 97,442,936 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	97,356,742 - 97,442,936 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	97,578,335 - 97,660,619 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	16	97,461,672 - 97,543,922 (+)	NCBI			mm8
Celera	16	98,415,225 - 98,499,352 (+)	NCBI		Celera
Cytogenetic Map	16	C4	NCBI

Bace2
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955407	40,792,887 - 40,874,760 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955407	40,792,089 - 40,879,872 (+)	NCBI	ChiLan1.0	ChiLan1.0

BACE2
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	21	40,831,209 - 40,939,253 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	21	40,831,203 - 40,938,280 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	21	27,500,453 - 27,612,795 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

BACE2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	31	35,713,149 - 35,760,681 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	31	35,714,003 - 35,760,686 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Bace2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936500	2,362,994 - 2,449,783 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

BACE2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	204,600,735 - 204,694,836 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	204,600,740 - 204,720,215 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	214,759,157 - 214,846,140 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

BACE2
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	2	85,079,404 - 85,194,908 (+)	NCBI
ChlSab1.1 Ensembl	2	85,079,812 - 85,187,944 (+)	Ensembl

Bace2
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624745	28,690,045 - 28,765,506 (-)	NCBI

Position Markers

D11Got114

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	37,842,323 - 37,842,545	NCBI	Rnor6.0
Rnor_5.0	11	41,349,910 - 41,350,132	UniSTS	Rnor5.0
RGSC_v3.4	11	37,389,771 - 37,389,993	UniSTS	RGSC3.4
Cytogenetic Map	11	q12	UniSTS

RH133630

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	37,880,506 - 37,880,720	NCBI	Rnor6.0
Rnor_5.0	11	41,388,093 - 41,388,307	UniSTS	Rnor5.0
RGSC_v3.4	11	37,428,037 - 37,428,251	UniSTS	RGSC3.4
Celera	11	36,676,000 - 36,676,214	UniSTS
RH 3.4 Map	11	266.6	UniSTS
Cytogenetic Map	11	q12	UniSTS

RH134179

Rat Assembly	Chr	Position (strand)	Source	JBrowse
Rnor_6.0	11	37,799,382 - 37,799,562	NCBI	Rnor6.0
Rnor_5.0	11	41,306,969 - 41,307,149	UniSTS	Rnor5.0
RGSC_v3.4	11	37,346,553 - 37,346,733	UniSTS	RGSC3.4
Celera	11	36,595,041 - 36,595,221	UniSTS
RH 3.4 Map	11	272.3	UniSTS
Cytogenetic Map	11	q12	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1300147	Bp187	Blood pressure QTL 187	3.67		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	11	1	72720192	Rat
1558659	Tescar1	Testicular tumor resistance QTL 1	3.9		testis integrity trait (VT:0010572)	percentage of study population developing testis tumors during a period of time (CMO:0001261)	11	325031	69342559	Rat
1641927	Alcrsp10	Alcohol response QTL 10			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	11	9351274	54351274	Rat
2290451	Scl58	Serum cholesterol level QTL 58	3.48		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	11	11367306	44444347	Rat
724517	Uae18	Urinary albumin excretion QTL 18	3.7		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	11	16321973	46583360	Rat
724554	Iddm17	Insulin dependent diabetes mellitus QTL 17		0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	11	19016272	90463843	Rat
10755497	Bp388	Blood pressure QTL 388	2.76		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	11	19475179	79734728	Rat
1598811	Bp291	Blood pressure QTL 291	1.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	11	21944229	66944229	Rat
1598841	Memor7	Memory QTL 7			exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	11	21944229	66944229	Rat
634341	Bw121	Body weight QTL 121	3.56		abdominal fat pad mass (VT:1000711)	abdominal fat pad weight (CMO:0000088)	11	22043149	44444112	Rat
10058952	Gmadr6	Adrenal mass QTL 6	2.29	0.0072	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	11	25401129	70401129	Rat
9590313	Scort20	Serum corticosterone level QTL 20	6.51	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	11	25720038	70720038	Rat
9589032	Epfw10	Epididymal fat weight QTL 10	9.29	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	11	25720038	70720038	Rat
8694376	Bw156	Body weight QTL 156	2.25	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	25720038	70720038	Rat
8694424	Bw162	Body weight QTL 162	3.8	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	25720038	70720038	Rat
724563	Uae10	Urinary albumin excretion QTL 10	6		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	11	28314665	86994795	Rat
1300130	Rf20	Renal function QTL 20	4.44		kidney glomerulus integrity trait (VT:0010546)	kidney glomerulus diameter (CMO:0001166)	11	30435339	63186373	Rat
1300110	Stl7	Serum triglyceride level QTL 7	4.64		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	11	30435339	86714631	Rat
2298551	Neuinf10	Neuroinflammation QTL 10	3.7		nervous system integrity trait (VT:0010566)	spinal cord beta-2 microglobulin mRNA level (CMO:0002125)	11	32155520	82443118	Rat
70180	BpQTLcluster10	Blood pressure QTL cluster 10	3.19		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	11	35900634	80900634	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	34
Count of miRNA genes:	27
Interacting mature miRNAs:	34
Transcripts:	ENSRNOT00000002679
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	20	1		12				2		10	11
Low		23	56	41	7	41	8	11	70	35	31		8
Below cutoff									2

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001002802	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039088202	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039088203	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC097258	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC166597	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BN000318	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473967	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000222	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000002679 ⟹ ENSRNOP00000002679

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	11	37,798,370 - 37,880,821 (+)	Ensembl

RefSeq Acc Id:

NM_001002802 ⟹ NP_001002802

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	11	36,707,473 - 36,789,337 (+)	NCBI
Rnor_6.0	11	37,798,397 - 37,880,624 (+)	NCBI
Rnor_5.0	11	41,305,984 - 41,389,663 (+)	NCBI
RGSC_v3.4	11	37,345,568 - 37,428,155 (+)	RGD
Celera	11	36,594,056 - 36,676,118 (+)	RGD

Sequence:

show sequence

ATGGGCGCGCTGCTTCGAGCACTCTTGCTCCCACTGCTGGCGCAGTGGCTCTTGCGCGCGGTCC
CCGTGCTGGCCCCGGCGCCCTTCACGCTTCCCCTCCAAGTGGCCGGGGCCGCGAACCACAGAGC
CTCAACTGTTCCCGGGCTCGGGACCCCCGAGTTGCCCCGGGCTGATGGCCTGGCCCTCGCACTG
GAGCCTGCCAGGGCTACCGCCAACTTCTTGGCTATGGTGGACAATCTTCAGGGGGACTCTGGCC
GCGGCTACTACCTGGAGATGCTGATTGGGACCCCTCCGCAAAAGGTACGGATTCTTGTGGACAC
CGGAAGCAGTAACTTCGCAGTGGCAGGTGCCCCACACTCCTACATAGACACCTACTTTGACTCA
GAGAGCTCCAGCACATACCACTCCAAGGGCTTTGAGGTCACGGTGAAGTACACACAGGGAAGCT
GGACTGGATTTGTTGGTGAGGACCTTGTCACCATCCCAAAAGGCTTCAACAGCTCTTTCTTGGT
CAATATTGCCACTATTTTCGAGTCTGAGAATTTCTTTTTGCCTGGGATTAAGTGGAATGGAATC
CTTGGACTCGCTTATGCTGCCTTGGCCAAGCCATCAAGCTCTCTGGAGACTTTTTTTGATTCCC
TGGTGGCCCAAGCAAAAATTCCGGACATTTTCTCCATGCAGATGTGCGGGGCTGGATTGCCAGT
AGCTGGATCTGGTACCAACGGAGGTAGTCTTGTCCTGGGTGGGATTGAACCAAGTTTGTATAAA
GGAGATATATGGTATACCCCAATTAAAGAGGAATGGTACTATCAAATAGAGATCTTGAAATTGG
AAATTGGAGGCCAGAGCCTCAACCTGGACTGCAGAGAGTATAACGCAGACAAGGCCATTGTGGA
CAGCGGCACCACACTCCTGCGCCTGCCCCAGAAGGTGTTTGATGCAGTGGTGGAAGCCGTGGCA
CGCACATCTCTGATTCCAGAGTTTTCTGATGGCTTCTGGACGGGGGCCCAGCTGGCATGCTGGA
CAAATTCTGAAACTCCATGGGCGTATTTCCCTAAGATTTCTATCTACCTGAGAGATGAGAACGC
CAGTCGCTCCTTCCGAATCACCATTCTGCCGCAGCTCTACATTCAGCCCATGATGGGAGCTGGT
TTCAATTATGAGTGCTACCGTTTTGGTATCTCCTCTTCCACAAATGCGCTGGTGATTGGTGCCA
CCGTGATGGAGGGATTCTACGTGGTCTTTGACAGAGCTCAGAGGAGGGTGGGCTTTGCAGTGAG
TCCCTGTGCAGAGATTGCAGGTACCACAGTGTCTGAAATTTCTGGGCCCTTTTCCACGGAAGAC
ATAGCCAGCAACTGTGTTCCAGCACAGGCTCTGAATGAGCCCATCTTGTGGATTGTGTCCTATG
CCCTGATGAGTGTGTGTGGAGCCATTCTCCTGGTTCTGATCCTCCTGCTGCTGTTCCCGCTGCA
CTGCCGACACGCCCCCCGAGACCCTGAGGTGGTTAACGATGAATCCTCACTAGTCAGACATCGC
TGGAAATGA

hide sequence

RefSeq Acc Id:

XM_039088202 ⟹ XP_038944130

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	11	36,753,746 - 36,789,550 (+)	NCBI

RefSeq Acc Id:

XM_039088203 ⟹ XP_038944131

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	11	36,707,669 - 36,789,550 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001002802	(Get FASTA)	NCBI Sequence Viewer
	XP_038944130	(Get FASTA)	NCBI Sequence Viewer
	XP_038944131	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI66597	(Get FASTA)	NCBI Sequence Viewer
	CAE48373	(Get FASTA)	NCBI Sequence Viewer
	EDM10962	(Get FASTA)	NCBI Sequence Viewer
	Q6IE75	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_001002802 ⟸ NM_001002802
- Peptide Label:	precursor
- UniProtKB:	Q6IE75 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MGALLRALLLPLLAQWLLRAVPVLAPAPFTLPLQVAGAANHRASTVPGLGTPELPRADGLALAL EPARATANFLAMVDNLQGDSGRGYYLEMLIGTPPQKVRILVDTGSSNFAVAGAPHSYIDTYFDS ESSSTYHSKGFEVTVKYTQGSWTGFVGEDLVTIPKGFNSSFLVNIATIFESENFFLPGIKWNGI LGLAYAALAKPSSSLETFFDSLVAQAKIPDIFSMQMCGAGLPVAGSGTNGGSLVLGGIEPSLYK GDIWYTPIKEEWYYQIEILKLEIGGQSLNLDCREYNADKAIVDSGTTLLRLPQKVFDAVVEAVA RTSLIPEFSDGFWTGAQLACWTNSETPWAYFPKISIYLRDENASRSFRITILPQLYIQPMMGAG FNYECYRFGISSSTNALVIGATVMEGFYVVFDRAQRRVGFAVSPCAEIAGTTVSEISGPFSTED IASNCVPAQALNEPILWIVSYALMSVCGAILLVLILLLLFPLHCRHAPRDPEVVNDESSLVRHR WK hide sequence

RefSeq Acc Id:

ENSRNOP00000002679 ⟸ ENSRNOT00000002679

RefSeq Acc Id:	XP_038944131 ⟸ XM_039088203
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038944130 ⟸ XM_039088202
- Peptide Label:	isoform X1

Protein Domains

Peptidase A1

Transcriptome

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

Promoters

RGD ID:

13698091

Promoter ID:

EPDNEW_R8615

Type:

multiple initiation site

Name:

Bace2_1

Description:

beta-site APP-cleaving enzyme 2

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	11	37,798,371 - 37,798,431	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

Visual

CSV

TAB

Printer

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

ACI/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

Visual

CSV

TAB

Printer

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

BN/SsN (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

Visual

CSV

TAB

Printer

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

F344/NRrrc (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

Visual

CSV

TAB

Printer

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

FHL/EurMcwi (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

Visual

CSV

TAB

Printer

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

GH/OmrMcwi (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

Visual

CSV

TAB

Printer

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

LE/Stm (RGD)

Visual

CSV

TAB

Printer

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

LEW/Crl (RGD)

Visual

CSV

TAB

Printer

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

LEW/NCrlBR (RGD)

Visual

CSV

TAB

Printer

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

LH/MavRrrc (RGD)

Visual

CSV

TAB

Printer

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

LL/MavRrrc (RGD)

Visual

CSV

TAB

Printer

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

LN/MavRrrc (RGD)

Visual

CSV

TAB

Printer

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

M520/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

Visual

CSV

TAB

Printer

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

MNS/Gib (RGD)

Visual

CSV

TAB

Printer

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

MR/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

Visual

CSV

TAB

Printer

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

SBN/Ygl (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

Visual

CSV

TAB

Printer

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

SHR/NHsd (RGD)

Visual

CSV

TAB

Printer

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

SHRSP/Gcrc (RGD)

Visual

CSV

TAB

Printer

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

SR/JrHsd (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

Visual

CSV

TAB

Printer

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

SS/Jr (RGD)

Visual

CSV

TAB

Printer

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

SS/JrHsdMcwi (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

Visual

CSV

TAB

Printer

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

WAG/Rij (RGD)

Visual

CSV

TAB

Printer

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

WKY/Gcrc (RGD)

Visual

CSV

TAB

Printer

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

WKY/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

Visual

CSV

TAB

Printer

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

WKY/NHsd (RGD)

Visual

CSV

TAB

Printer

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

WN/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Damaging Variants

Assembly: Rnor_5.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
11	41375496	41375497	A	G	snv	DOB/Oda (KyushuU)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1303241	AgrOrtholog
Ensembl Genes	ENSRNOG00000001953	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000002679	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000002679	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	2.40.70.10	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7936295	IMAGE-MGC_LOAD
InterPro	Aspartic_peptidase_A1	UniProtKB/Swiss-Prot
	Aspartic_peptidase_AS	UniProtKB/Swiss-Prot
	BACE	UniProtKB/Swiss-Prot
	BACE2	UniProtKB/Swiss-Prot
	Memapsin-like	UniProtKB/Swiss-Prot
	PEPTIDASE_A1	UniProtKB/Swiss-Prot
	Peptidase_aspartic_dom_sf	UniProtKB/Swiss-Prot
KEGG Report	rno:288227	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:188369	IMAGE-MGC_LOAD
NCBI Gene	288227	ENTREZGENE
PANTHER	PTHR47965	UniProtKB/Swiss-Prot
	PTHR47965:SF40	UniProtKB/Swiss-Prot
Pfam	Asp	UniProtKB/Swiss-Prot
PhenoGen	Bace2	PhenoGen
PRINTS	BACE2	UniProtKB/Swiss-Prot
	BACEFAMILY	UniProtKB/Swiss-Prot
	PEPSIN	UniProtKB/Swiss-Prot
PROSITE	ASP_PROTEASE	UniProtKB/Swiss-Prot
	PEPTIDASE_A1	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF50630	UniProtKB/Swiss-Prot
UniProt	BACE2_RAT	UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary	B2GVB0	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2018-05-18	Bace2	beta-secretase 2	Bace2	beta-site APP-cleaving enzyme 2	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-30	Bace2	beta-site APP-cleaving enzyme 2			Symbol and Name status set to approved	1299863	APPROVED
2005-07-14	Bace2	beta-site APP-cleaving enzyme 2			Symbol and Name status set to provisional	70820	PROVISIONAL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Annotations - KEGG (archival)