Aldh1a2 (aldehyde dehydrogenase 1 family, member A2)

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Gene: Aldh1a2 (aldehyde dehydrogenase 1 family, member A2) Rattus norvegicus

Analyze

Symbol:

Aldh1a2

Name:

aldehyde dehydrogenase 1 family, member A2

RGD ID:

620250

Description:

Exhibits retinal binding activity and retinal dehydrogenase activity. Involved in several processes, including gland development; response to vitamin A; and retinoic acid biosynthetic process. Localizes to cytosol and perinuclear region of cytoplasm. Orthologous to human ALDH1A2 (aldehyde dehydrogenase 1 family member A2); PARTICIPATES IN retinoic acid metabolic pathway; retinol metabolic pathway; vitamin A deficiency pathway; INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

aldehyde dehydrogenase 1A2; aldehyde dehydrogenase family 1 member A2; aldehyde dehydrogenase family 1, subfamily A2; MGC114283; RALDH 2; RalDH(II); Raldh-2; ralDH2; retinal dehydrogenase 2; retinal dehydrogenase type II; retinal dehydrogenase, type II; retinaldehyde-specific dehydrogenase type 2

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

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	8	71,877,850 - 71,957,107 (+)	NCBI
Rnor_6.0 Ensembl	8	77,640,222 - 77,719,489 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	8	77,640,234 - 77,719,488 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	8	75,363,285 - 75,442,554 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	75,692,099 - 75,771,159 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	8	75,711,165 - 75,790,204 (+)	NCBI
Celera	8	69,779,737 - 69,858,993 (-)	NCBI		Celera
Cytogenetic Map	8	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Bloom syndrome (ISO)

colon cancer (ISO)

Coronary Occlusion (ISO)

DiGeorge syndrome (ISO,ISS)

duodenal atresia (ISO)

Limb Ischemia (ISO)

myelomeningocele (ISO)

osteoarthritis (ISO)

Parkinsonism (ISO)

Prostatic Neoplasms (ISO)

Schistosomiasis Mansoni (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

17alpha-ethynylestradiol (EXP)

17beta-estradiol (ISO)

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

2-Ethylhexanoic acid (ISO)

2-hydroxypropanoic acid (ISO)

22-Hydroxycholesterol (ISO)

3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine (EXP)

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

4-(diethylamino)benzaldehyde (ISO)

4-hydroperoxycyclophosphamide (ISO)

6-propyl-2-thiouracil (EXP)

abacavir (ISO)

acetaldehyde (ISO)

aflatoxin B1 (EXP,ISO)

all-trans-retinal (EXP)

all-trans-retinoic acid (EXP,ISO)

all-trans-retinol (ISO)

ammonium chloride (EXP)

arsenite(3-) (ISO)

benzaldehydes (ISO)

benzo[a]pyrene (ISO)

Benzo[k]fluoranthene (ISO)

bezafibrate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

butylated hydroxyanisole (ISO)

cadmium dichloride (ISO)

carbon nanotube (ISO)

CHIR 99021 (ISO)

chloroprene (EXP)

choline (ISO)

citral (EXP)

cobalt dichloride (ISO)

copper atom (EXP,ISO)

copper(0) (EXP,ISO)

cylindrospermopsin (ISO)

D-gluconic acid (EXP)

dabigatran (ISO)

daidzein (ISO)

daidzein 7-O-beta-D-glucoside (ISO)

decanal (EXP)

deoxycholic acid (EXP)

dioxygen (ISO)

disulfiram (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

Doxylamine succinate (ISO)

entinostat (ISO)

ethanol (ISO)

ethylene glycol (ISO)

fenofibrate (ISO)

furan (EXP)

genistein (ISO)

genistein 7-O-beta-D-glucoside (ISO)

gentamycin (EXP)

geranial (EXP)

glycitein (ISO)

glycitin (ISO)

hexanal (EXP)

Indeno[1,2,3-cd]pyrene (ISO)

indirubin-3'-monoxime (ISO)

indole-3-methanol (ISO)

isotretinoin (ISO)

lipopolysaccharide (ISO)

methamphetamine (ISO)

methylmercury chloride (ISO)

methylparaben (ISO)

metoclopramide (ISO)

N-nitrosodiethylamine (EXP)

nickel atom (ISO)

nilotinib (ISO)

nitrofen (EXP)

ochratoxin A (EXP)

panobinostat (ISO)

paraquat (EXP)

phenethyl caffeate (EXP)

phenylmercury acetate (ISO)

phenytoin (ISO)

pirinixic acid (ISO)

pravastatin (ISO)

progesterone (ISO)

rac-lactic acid (ISO)

resveratrol (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

sodium arsenate (ISO)

sodium arsenite (EXP,ISO)

thalidomide (ISO)

thapsigargin (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

trichostatin A (ISO)

triclosan (ISO)

tris(2-butoxyethyl) phosphate (ISO)

tunicamycin (ISO)

valproic acid (ISO)

vancomycin (ISO)

vinclozolin (EXP)

WIN 18446 (EXP,ISO)

zinc atom (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

9-cis-retinoic acid biosynthetic process (ISO)

anterior/posterior pattern specification (ISO)

blood vessel development (ISO)

camera-type eye development (ISO)

cardiac muscle tissue development (ISO)

cellular response to retinoic acid (ISO)

determination of bilateral symmetry (ISO)

embryonic camera-type eye development (ISO)

embryonic digestive tract development (ISO)

embryonic forelimb morphogenesis (ISO)

embryonic limb morphogenesis (ISO)

face development (ISO)

forebrain development (ISO)

heart morphogenesis (ISO)

hindbrain development (ISO)

kidney development (IEP)

liver development (IEP)

lung development (ISO)

midgut development (IEP)

morphogenesis of embryonic epithelium (ISO)

negative regulation of cell population proliferation (ISO)

neural crest cell development (ISO)

neural tube development (ISO)

neuron differentiation (ISO)

pancreas development (ISO)

pituitary gland development (IEP)

positive regulation of apoptotic process (ISO)

positive regulation of cell population proliferation (ISO)

positive regulation of gene expression (ISO)

protein homotetramerization (ISO,ISS)

proximal/distal pattern formation (ISO)

regulation of endothelial cell proliferation (ISO)

response to cytokine (ISO)

response to estradiol (IEP)

response to vitamin A (IEP)

retinal metabolic process (ISO)

retinoic acid biosynthetic process (IEP,IMP,ISO,ISS)

retinoic acid metabolic process (IDA,ISO,TAS)

retinoic acid receptor signaling pathway (ISO)

retinoic acid receptor signaling pathway involved in somitogenesis (ISO)

retinol metabolic process (IEA)

ureter maturation (ISO)

Cellular Component

cytoplasm (ISO)

cytosol (IDA)

perinuclear region of cytoplasm (IDA)

Molecular Function

3-chloroallyl aldehyde dehydrogenase activity (ISO)

aldehyde dehydrogenase (NAD+) activity (IBA)

retinal binding (IDA)

retinal dehydrogenase activity (IDA,ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

retinoic acid metabolic pathway (IEP,IMP,TAS)

retinol metabolic pathway (IDA,IEA,ISO)

vitamin A deficiency pathway (ISO)

References

References - curated


1.	Broadhurst MJ, etal., PLoS Pathog. 2012;8(8):e1002883. doi: 10.1371/journal.ppat.1002883. Epub 2012 Aug 23.
2.	Everts HB, etal., Exp Cell Res. 2005 Aug 15;308(2):309-19.
3.	Fujiwara K, etal., Cell Tissue Res. 2007 Apr;328(1):129-35. Epub 2006 Dec 19.
4.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
5.	GOA data from the GO Consortium
6.	KEGG
7.	Li XH, etal., Endocrinology. 2004 Oct;145(10):4756-62. Epub 2004 Jun 17.
8.	Liu X, etal., Arterioscler Thromb Vasc Biol. 2015 Oct;35(10):2196-206. doi: 10.1161/ATVBAHA.115.306012. Epub 2015 Aug 27.
9.	Marlier A and Gilbert T, Gene Expr Patterns. 2004 Dec;5(2):179-85.
10.	Mey J, etal., Am J Pathol. 2003 Feb;162(2):673-9.
11.	MGD data from the GO Consortium
12.	Moerman P, etal., Br Heart J 1980 Oct;44(4):452-9.
13.	Napoli JL Biochim Biophys Acta. 2012 Jan;1821(1):152-67. Epub 2011 May 19.
14.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
15.	Nichol PF, etal., J Surg Res. 2012 Jun 1;175(1):82-7. doi: 10.1016/j.jss.2011.02.040. Epub 2011 Mar 21.
16.	Niederreither K, etal., Development 2003 Jun;130(11):2525-34.
17.	Ogura Y, etal., Life Sci. 2004 Feb 6;74(12):1519-28.
18.	Ogura Y, etal., Life Sci. 2005 Oct 14;77(22):2804-13.
19.	Pipeline to import KEGG annotations from KEGG into RGD
20.	Pipeline to import SMPDB annotations from SMPDB into RGD
21.	Reeder AL, etal., Surgery. 2012 Oct;152(4):768-75; discussion 775-6. doi: 10.1016/j.surg.2012.07.022.
22.	RGD automated data pipeline
23.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
24.	RGD automated import pipeline for gene-chemical interactions
25.	Vermot J, etal., Proc Natl Acad Sci U S A 2003 Feb 18;100(4):1763-8. Epub 2003 Jan 31.
26.	Wang C, etal., J Biol Chem. 2011 Feb 25;286(8):6542-53. Epub 2010 Dec 7.
27.	Wang X, etal., J Biol Chem 1996 Jul 5;271(27):16288-93.
28.	Zhai Y, etal., J Cell Physiol. 2001 Feb;186(2):220-32.

Additional References at PubMed

PMID:8797830	PMID:8889548	PMID:9892670	PMID:10320326	PMID:11245568	PMID:11876656	PMID:12477932	PMID:12610736	PMID:14623241	PMID:14627725	PMID:15069081	PMID:15366004
PMID:15489334	PMID:15652703	PMID:15731404	PMID:15739227	PMID:15753214	PMID:15872003	PMID:15889094	PMID:16026781	PMID:16166285	PMID:16237707	PMID:16368932	PMID:16427040
PMID:16806149	PMID:17067568	PMID:17184764	PMID:18495959	PMID:18816858	PMID:20034106	PMID:21521737	PMID:29240402

Genomics

Comparative Map Data

Aldh1a2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	8	71,877,850 - 71,957,107 (+)	NCBI
Rnor_6.0 Ensembl	8	77,640,222 - 77,719,489 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	8	77,640,234 - 77,719,488 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	8	75,363,285 - 75,442,554 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	8	75,692,099 - 75,771,159 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	8	75,711,165 - 75,790,204 (+)	NCBI
Celera	8	69,779,737 - 69,858,993 (-)	NCBI		Celera
Cytogenetic Map	8	q24	NCBI

ALDH1A2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	15	57,953,424 - 58,497,866 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	15	57,953,429 - 58,065,711 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	15	58,245,627 - 58,357,909 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	15	56,032,919 - 56,145,198 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	15	56,032,918 - 56,093,527	NCBI
Celera	15	35,135,291 - 35,247,470 (-)	NCBI
Cytogenetic Map	15	q21.3	NCBI
HuRef	15	35,068,702 - 35,181,099 (-)	NCBI		HuRef
CHM1_1	15	58,363,582 - 58,476,117 (-)	NCBI		CHM1_1

Aldh1a2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	71,123,071 - 71,203,525 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	9	71,123,071 - 71,203,525 (+)	Ensembl
GRCm38	9	71,215,789 - 71,296,243 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	71,215,789 - 71,296,243 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	9	71,063,596 - 71,144,050 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	9	71,014,409 - 71,094,803 (+)	NCBI			mm8
Celera	9	68,414,967 - 68,495,534 (+)	NCBI		Celera
Cytogenetic Map	9	D	NCBI
cM Map	9	39.85	NCBI

Aldh1a2
(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_004955450	16,406,436 - 16,453,180 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955450	16,406,578 - 16,453,048 (+)	NCBI	ChiLan1.0	ChiLan1.0

ALDH1A2
(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	15	55,237,101 - 55,349,851 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	15	55,237,101 - 55,557,168 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	15	36,925,443 - 37,038,288 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

ALDH1A2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	30	23,074,432 - 23,170,374 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	30	23,074,432 - 23,340,030 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	30	23,045,955 - 23,141,851 (-)	NCBI
ROS_Cfam_1.0	30	23,233,206 - 23,329,111 (-)	NCBI
UMICH_Zoey_3.1	30	23,164,758 - 23,260,609 (-)	NCBI
UNSW_CanFamBas_1.0	30	23,250,334 - 23,346,246 (-)	NCBI
UU_Cfam_GSD_1.0	30	23,392,036 - 23,488,058 (-)	NCBI

Aldh1a2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024408640	101,327,905 - 101,415,451 (-)	NCBI
SpeTri2.0	NW_004936471	19,175,997 - 19,263,335 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

ALDH1A2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	113,715,620 - 114,037,249 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	1	113,932,722 - 114,037,059 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	126,038,541 - 126,105,080 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

ALDH1A2
(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	26	25,439,159 - 25,557,199 (+)	NCBI
ChlSab1.1 Ensembl	26	25,439,360 - 25,557,202 (+)	Ensembl
Vero_WHO_p1.0	NW_023666048	115,756,952 - 115,875,731 (-)	NCBI

Aldh1a2
(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_004624781	13,756,469 - 13,845,253 (+)	NCBI

Position Markers

D8Wox20

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	71,888,146 - 71,888,253 (+)	MAPPER
Rnor_6.0	8	77,650,530 - 77,650,636	NCBI	Rnor6.0
Rnor_5.0	8	75,432,152 - 75,432,258	UniSTS	Rnor5.0
RGSC_v3.4	8	75,702,394 - 75,702,501	RGD	RGSC3.4
RGSC_v3.4	8	75,702,395 - 75,702,501	UniSTS	RGSC3.4
RGSC_v3.1	8	75,721,448 - 75,721,555	RGD
Celera	8	69,848,591 - 69,848,697	UniSTS
RH 2.0 Map	8	697.7	RGD
Cytogenetic Map	8	q24	UniSTS

RH133490

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	8	71,956,878 - 71,957,087 (+)	MAPPER
Rnor_6.0	8	77,719,260 - 77,719,468	NCBI	Rnor6.0
Rnor_5.0	8	75,363,305 - 75,363,513	UniSTS	Rnor5.0
RGSC_v3.4	8	75,770,931 - 75,771,139	UniSTS	RGSC3.4
Celera	8	69,779,757 - 69,779,965	UniSTS
Cytogenetic Map	8	q24	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
1581557	Eae16	Experimental allergic encephalomyelitis QTL 16	3.8		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	8	9531047	119211942	Rat
631650	Stl6	Serum triglyceride level QTL 6	4	0.0019	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	8	10938911	120496129	Rat
631271	Lecl1	Lens clarity QTL 1		0.001	lens clarity trait (VT:0001304)	age of onset/diagnosis of cataract (CMO:0001584)	8	21464919	91140553	Rat
731182	Uae24	Urinary albumin excretion QTL 24	6.4		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	8	21813070	100873963	Rat
1358892	Kidm26	Kidney mass QTL 26	3.69		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	8	29867983	106526740	Rat
1358896	Bp262	Blood pressure QTL 262	2.89		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	29867983	106526740	Rat
1358907	Cm40	Cardiac mass QTL 40	1.89		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	8	29867983	106526740	Rat
8662823	Vetf5	Vascular elastic tissue fragility QTL 5	1.9		artery integrity trait (VT:0010639)	patent ductus arteriosus score (CMO:0002566)	8	30918112	107206309	Rat
1549908	Neudeg1	Neurodegradation QTL 1	5.5	0	nervous system integrity trait (VT:0010566)	logarithm of the ratio of the lesioned side motor neuron count to contralateral side motor neuron count (CMO:0001986)	8	32888352	101374135	Rat
2313046	Bss78	Bone structure and strength QTL 78	3.5	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	8	33558660	89058369	Rat
2313057	Bss76	Bone structure and strength QTL 76	3	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	8	33558660	89058369	Rat
2313067	Bss77	Bone structure and strength QTL 77	3.1	0.0001	tibia size trait (VT:0100001)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	8	33558660	89058369	Rat
2313088	Bss75	Bone structure and strength QTL 75	3.1	0.0001	body length (VT:0001256)	body length, nose to rump (CMO:0000079)	8	33558660	89058369	Rat
1578765	Klgr1	Kidney lesion grade QTL 1	3.3	0.0001	kidney morphology trait (VT:0002135)	organ lesion measurement (CMO:0000677)	8	33558660	109028082	Rat
1578769	Uae31	Urinary albumin excretion QTL 31	3.3	0.001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	8	33558660	109028082	Rat
1578755	Pur5	Proteinuria QTL 5	3.3	0.0001	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	8	33558660	109028082	Rat
2316950	Scl66	Serum cholesterol level QTL 66	4.1		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	8	33558764	113580387	Rat
1298065	Scl16	Serum cholesterol level QTL 16	3.8		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	8	35041414	80041414	Rat
1582222	Epfw2	Epididymal fat weight QTL 2	3.2	0.0005	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	8	35925594	80925594	Rat
1331838	Niddm61	Non-insulin dependent diabetes mellitus QTL 61	3.53	0.0004	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	8	39230130	106506973	Rat
61358	Bp39	Blood pressure QTL 39	2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	39927901	84927901	Rat
61464	Niddm11	Non-insulin dependent diabetes mellitus QTL 11	3.1	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	8	39958022	84958022	Rat
737824	Hcar10	Hepatocarcinoma resistance QTL 10	2.9		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	8	44219197	89542960	Rat
1358906	Bp253	Blood pressure QTL 253	4	0.0004	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	44219197	100873963	Rat
1554321	Bmd3	Bone mineral density QTL 3	7.9	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	8	44458129	118087517	Rat
1331769	Rf39	Renal function QTL 39	3.871		urine output (VT:0003620)	timed urine volume (CMO:0000260)	8	45712344	80003418	Rat
1298079	Activ2	Activity QTL 2	9.5	0.000001	voluntary movement trait (VT:0003491)	rearing measurement (CMO:0001515)	8	45712344	90712344	Rat
70161	Bp62	Blood pressure QTL 62	2.9	0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	46588437	96998640	Rat
12879882	Am8	Aortic mass QTL 8		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	8	47200750	106394378	Rat
12879878	Bw183	Body weight QTL 183		0.001	body mass (VT:0001259)	body weight (CMO:0000012)	8	47200750	106394378	Rat
12879879	Cm99	Cardiac mass QTL 99		0.001	heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	8	47200750	106394378	Rat
12879880	Cm100	Cardiac mass QTL 100		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	8	47200750	106394378	Rat
12879881	Cm101	Cardiac mass QTL 101		0.001	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	8	47200750	106394378	Rat
12879883	Kidm65	Kidney mass QTL 65		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	8	47200750	106394378	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	absolute change in systolic blood pressure (CMO:0000607)	8	50529480	128036471	Rat
70197	BpQTLcluster8	Blood pressure QTL cluster 8	3.482		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	50529480	128036471	Rat
1331837	Bw23	Body weight QTL 23	4.19	0.00007	body mass (VT:0001259)	body weight (CMO:0000012)	8	50529563	106506973	Rat
2313086	Bss60	Bone structure and strength QTL 60	4.1	0.0001	tibia length (VT:0004357)	tibia length (CMO:0000450)	8	54065044	89058369	Rat
4889938	Bss89	Bone structure and strength QTL 89	3.8		tibia size trait (VT:0100001)	tibia cortical bone volume (CMO:0001725)	8	54065044	89058369	Rat
5684973	Bss100	Bone structure and strength QTL 100	4.7		tibia area (VT:1000281)	tibia area measurement (CMO:0001382)	8	54065044	89058369	Rat
1358912	Bw51	Body weight QTL 51	2.95		body mass (VT:0001259)	body weight (CMO:0000012)	8	55435004	115812386	Rat
2303570	Gluco48	Glucose level QTL 48	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	8	55659105	100659105	Rat
2293697	Bmd39	Bone mineral density QTL 39			femur strength trait (VT:0010010)	femur total energy absorbed before break (CMO:0001677)	8	58230766	106394378	Rat
1582243	Bw66	Body weight QTL 66	3.4	0.0048	body mass (VT:0001259)	body weight (CMO:0000012)	8	58425510	91990535	Rat
1582254	Kidm31	Kidney mass QTL 31	3		kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	8	58425510	91990535	Rat
631664	Hcar3	Hepatocarcinoma resistance QTL 3	2.9	0.0005	liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	8	58425510	106526740	Rat
1300177	Cm2	Cardiac mass QTL 2	3.65		heart mass (VT:0007028)	heart weight (CMO:0000017)	8	59234112	108068306	Rat
2301402	Bp316	Blood pressure QTL 316		0.005	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	61394378	106394378	Rat
10402857	Bp380	Blood pressure QTL 380		0.95	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	8	61394378	106394378	Rat
2303171	Bp331	Blood pressure QTL 331	5.57	0.005	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	65717449	128033050	Rat
631653	Bp125	Blood pressure QTL 125	3.3		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	8	72849686	117849686	Rat
631210	Bw3	Body weight QTL3	5.9		mesenteric fat pad mass (VT:0010427)	mesenteric fat pad weight as a percentage of body weight (CMO:0000654)	8	74917593	121080545	Rat
1300171	Bp184	Blood pressure QTL 184	3.66		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	8	76103982	127182642	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	88
Count of miRNA genes:	72
Interacting mature miRNAs:	79
Transcripts:	ENSRNOT00000021757
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		28	6	6		6		1	44	25	38	11
Low	3	15	49	33	19	33	8	10	28	10	3		8
Below cutoff			2	2		2			2

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_053896	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC114842	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC098910	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BE111477	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474041	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	EV764818	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000199	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U60063	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000079115 ⟹ ENSRNOP00000073203

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	8	77,640,222 - 77,719,489 (+)	Ensembl

RefSeq Acc Id:

NM_053896 ⟹ NP_446348

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	8	71,877,850 - 71,957,107 (+)	NCBI
Rnor_6.0	8	77,640,234 - 77,719,488 (+)	NCBI
Rnor_5.0	8	75,363,285 - 75,442,554 (-)	NCBI
RGSC_v3.4	8	75,692,099 - 75,771,159 (+)	RGD
Celera	8	69,779,737 - 69,858,993 (-)	RGD

Sequence:

show sequence

CGGCCGCCCATGACTTCCAGCGAGATCGCCATGCCCGGCGAGGTGAAGGCCGACCCCGCCGCGC
TCATGGCCTCGCTGCAGCTCCTGCCGTCACCCACGCCCAACCTCGAGATCAAGTACACCAAGAT
CTTTATTAACAATGAATGGCAGAACTCAGAGAGTGGGAGAGTGTTCCCTGTCTGTAATCCAGCC
ACAGGAGAGCAAGTGTGTGAAGTTCAAGAAGCAGACAAGGTGGATATAGACAAGGCAGTGCAGG
CGGCCCGCCTGGCCTTCTCTCTTGGTTCTGTGTGGAGAAGGATGGACGCTTCTGAAAGAGGACG
TCTGCTGGACAAGCTTGCAGACTTGGTGGAACGGGACAGGGCAACTCTTGCAACTATGGAATCA
CTAAATGGCGGTAAGCCATTCCTGCAAGCTTTTTACATCGATTTGCAGGGAGTCATCAAAACCC
TGAGGTATTATGCAGGCTGGGCTGATAAAATTCACGGAATGACCATTCCTGTAGATGGAGACTA
TTTTACCTTCACGAGACATGAGCCCATCGGAGTGTGTGGACAGATTATCCCGTGGAATTTCCCC
CTGCTGATGTTCACCTGGAAAATTGCTCCCGCACTGTGCTGTGGTAACACTGTGGTCATCAAGC
CTGCAGAGCAGACACCACTCAGTGCACTGTATATGGGAGCCCTCATCAAGGAGGCTGGCTTTCC
ACCCGGGGTCGTCAACATTCTGCCAGGGTATGGGCCAACAGCAGGGGCAGCAATAGCGTCTCAC
ATTGGCATAGACAAGATTGCATTCACAGGCTCTACTGAGGTTGGAAAGCTTATTCAAGAAGCAG
CTGGAAGAAGTAATTTGAAGAGAGTAACTCTGGAACTTGGAGGGAAAAGCCCTAATATTATTTT
TGCAGATGCTGACTTGGACTACGCTGTGGAGCAGGCTCACCAGGGTGTGTTCTTCAACCAAGGC
CAGTGCTGCACTGCGGGGTCTCGAATCTTTGTGGAGGAGTCCATCTATGAGGAATTTGTGAAAA
GAAGTGTGGAAAGAGCCAAGAGGCGCATTGTGGGGAGCCCCTTTGATCCCACTACTGAGCAGGG
TCCTCAGATTGATAAGAAGCAATACAACAAAATCCTGGAGCTCATCCAGAGCGGTGTGGCCGAG
GGCGCCAAGCTCGAGTGTGGAGGCAAAGGACTGGGAAGGAAGGGCTTCTTCATTGAGCCTACCG
TGTTCTCCAACGTTACAGATGACATGCGGATCGCCAAGGAGGAGATCTTTGGTCCTGTCCAGGA
AATTTTGAGGTTTAAGACTATGGATGAAGTTATAGAAAGAGCCAATAACTCAGACTTCGGGCTT
GTAGCGGCTGTCTTCACTAATGACATCAACAAGGCTCTCATGGTGTCCTCTGCAATGCAAGCTG
GGACAGTTTGGATCAATTGTTACAACGCCTTAAATGCTCAGAGCCCCTTCGGGGGGTTCAAGAT
GTCTGGAAATGGGAGAGAAATGGGTGAGTTTGGCTTACGGGAGTACTCAGAAGTAAAGACCGTG
ACGGTGAAGATCCCCCAGAAGAACTCCTAAGAGGCCCAGGCCGAAGAGCACCAGTGTGCCAAGA
CTGCCACCTATCACCAGGCCTCCTTCGTCATGCCCTGTGGCCCGCCCGACGTCGGTTTACCACT
CTTGCCTCACAACAAGTGAGCTTCAGCCTGCAGAAGGGGAGCTGTGAAGCAAGCCTGACTCTCC
TTCCTTCCAACCCCACCCCCTTCCCTCTGCCTTCCAATGAACCCCATTTTGTGTGAGCAGCACT
GGCTTCCTTCCCTTCTCTCCTGAGCTGCCAAATCGAAGCCAGTCTCTAACCTGGGTGAATACCA
TTTATTTAATAATGCCAAACATAACCTAGGTGTAGAATATGGTCATGTATCTATTGCCTTCTCT
ATTTAATGGTTTTTTGCTTTCTAACCAAACCAGTTTTCAGTTTTCTATTTATAACCTGCCTGTC
CACGATGTTTTCAAGCAAGCCCTCCATACTGTTACTGACAAATGAGGACAACGCGCTCAGCAGA
CAGCCCTGACATGGGCTTTGAGTCCTTCCAGCAGGCGCCCTGCTCTTCCTACAGCGCACCCATG
TGAACACACGATTAACCAGCTAGCTCCCTTCAACCCACAGTATAGAATGTGAAAAGGAAGATTT
ATGACTTTTAATTTACTTCAAAAGAAACCTCGTGCTAGCAATAAAGCATTTATATTGTGTACAC
CTCGAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_446348	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC52637	(Get FASTA)	NCBI Sequence Viewer
	AAH98910	(Get FASTA)	NCBI Sequence Viewer
	EDL84165	(Get FASTA)	NCBI Sequence Viewer
	Q63639	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_446348 ⟸ NM_053896

- UniProtKB:

Q63639 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MTSSEIAMPGEVKADPAALMASLQLLPSPTPNLEIKYTKIFINNEWQNSESGRVFPVCNPATGE
QVCEVQEADKVDIDKAVQAARLAFSLGSVWRRMDASERGRLLDKLADLVERDRATLATMESLNG
GKPFLQAFYIDLQGVIKTLRYYAGWADKIHGMTIPVDGDYFTFTRHEPIGVCGQIIPWNFPLLM
FTWKIAPALCCGNTVVIKPAEQTPLSALYMGALIKEAGFPPGVVNILPGYGPTAGAAIASHIGI
DKIAFTGSTEVGKLIQEAAGRSNLKRVTLELGGKSPNIIFADADLDYAVEQAHQGVFFNQGQCC
TAGSRIFVEESIYEEFVKRSVERAKRRIVGSPFDPTTEQGPQIDKKQYNKILELIQSGVAEGAK
LECGGKGLGRKGFFIEPTVFSNVTDDMRIAKEEIFGPVQEILRFKTMDEVIERANNSDFGLVAA
VFTNDINKALMVSSAMQAGTVWINCYNALNAQSPFGGFKMSGNGREMGEFGLREYSEVKTVTVK
IPQKNS

hide sequence

RefSeq Acc Id:

ENSRNOP00000073203 ⟸ ENSRNOT00000079115

Transcriptome

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

Promoters

RGD ID:

13696110

Promoter ID:

EPDNEW_R6635

Type:

initiation region

Name:

Aldh1a2_1

Description:

aldehyde dehydrogenase 1 family, member A2

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	8	77,640,211 - 77,640,271	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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

ACI/EurMcwi (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

ACI/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

BBDP/Wor (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

BN/SsN (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

Buf/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

COP/CrCrl (MCW & UW)

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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)

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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

F344/NRrrc (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

FHH/EurMcwi (MCW)

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

FHH/EurMcwi (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

FHL/EurMcwi (MCW)

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

FHL/EurMcwi (RGD)

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CSV

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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

GH/OmrMcwi (MCW)

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

GK/Ox (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

LE/Stm (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

LEW/Crl (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

LEW/NCrlBR (RGD)

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

LH/MavRrrc (RGD)

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

LL/MavRrrc (RGD)

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

LN/MavRrrc (RGD)

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

M520/N (MCW)

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

MHS/Gib (RGD)

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

MNS/Gib (RGD)

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

MR/N (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

SBH/Ygl (MCW)

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

SBH/Ygl (RGD)

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

SBN/Ygl (MCW)

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

SBN/Ygl (RGD)

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

SHR/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

SHRSP/Gcrc (RGD)

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

SR/JrHsd (MCW)

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

SR/JrHsd (RGD)

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

SS/Jr (RGD)

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

SS/JrHsdMcwi (MCW)

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

SS/JrHsdMcwi (RGD)

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

WAG/Rij (RGD)

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

WKY/Gcrc (RGD)

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

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

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:620250	AgrOrtholog
Ensembl Genes	ENSRNOG00000055049	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000073203	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000079115	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	3.40.309.10	UniProtKB/Swiss-Prot
	3.40.605.10	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7455646	IMAGE-MGC_LOAD
InterPro	Ald_DH/histidinol_DH	UniProtKB/Swiss-Prot
	Ald_DH_C	UniProtKB/Swiss-Prot
	Ald_DH_CS_CYS	UniProtKB/Swiss-Prot
	Ald_DH_CS_GLU	UniProtKB/Swiss-Prot
	Ald_DH_N	UniProtKB/Swiss-Prot
	Aldehyde_DH_dom	UniProtKB/Swiss-Prot
KEGG Report	rno:116676	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:114283	IMAGE-MGC_LOAD
NCBI Gene	116676	ENTREZGENE
Pfam	Aldedh	UniProtKB/Swiss-Prot
PhenoGen	Aldh1a2	PhenoGen
PROSITE	ALDEHYDE_DEHYDR_CYS	UniProtKB/Swiss-Prot
	ALDEHYDE_DEHYDR_GLU	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF53720	UniProtKB/Swiss-Prot
UniProt	AL1A2_RAT	UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary	Q4FZY8	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-09-26	Aldh1a2	aldehyde dehydrogenase 1 family, member A2	Aldh1a2	aldehyde dehydrogenase family 1, subfamily A2	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-02-26	Aldh1a2	aldehyde dehydrogenase family 1, subfamily A2			Symbol and Name status set to approved	625702	APPROVED
2002-08-07	Aldh1a2	aldehyde dehydrogenase family 1, subfamily A2			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_function	recognizes as substrates free retinal and cellular retinol-binding protein-bound retinal. does metabolize octanal and decanal but does not metabolize citral, benzaldehyde, acetaldehyde and propanal efficiently	724707

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 Disease Annotations - CTD

Imported Disease Annotations - MGI

RGD Manual Annotations

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

RGD Manual Annotations

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)