Atp9a (ATPase phospholipid transporting 9A (putative))

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Gene: Atp9a (ATPase phospholipid transporting 9A (putative)) Rattus norvegicus

Analyze

Symbol:

Atp9a

Name:

ATPase phospholipid transporting 9A (putative)

RGD ID:

621421

Description:

Predicted to have protease binding activity. Predicted to localize to endosome; perinuclear region of cytoplasm; and trans-Golgi network. Orthologous to human ATP9A (ATPase phospholipid transporting 9A (putative)); INTERACTS WITH ammonium chloride; benzene; ochratoxin A.

Type:

protein-coding

RefSeq Status:

MODEL

Also known as:

ATPase, class II, type 9A; probable phospholipid-transporting ATPase IIA

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	3	157,360,354 - 157,467,628 (-)	NCBI
Rnor_6.0 Ensembl	3	165,412,803 - 165,477,771 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	3	165,405,588 - 165,511,104 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	3	171,545,755 - 171,624,827 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	3	155,928,299 - 155,999,149 (-)	NCBI		Celera
Cytogenetic Map	3	q42	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(S)-nicotine (ISO)

1,2-dimethylhydrazine (ISO)

1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (ISO)

17alpha-ethynylestradiol (ISO)

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

2-methylcholine (ISO)

3,4-methylenedioxymethamphetamine (ISO)

4-hydroxyphenyl retinamide (ISO)

5-fluorouracil (ISO)

aflatoxin B1 (ISO)

ammonium chloride (EXP)

aristolochic acid (ISO)

benzene (EXP)

benzo[a]pyrene (ISO)

bisphenol A (ISO)

butan-1-ol (ISO)

butanal (ISO)

carbon nanotube (ISO)

celecoxib (ISO)

cisplatin (ISO)

coumestrol (ISO)

cyclosporin A (ISO)

dorsomorphin (ISO)

Enterolactone (ISO)

ethanol (ISO)

folic acid (ISO)

glyphosate (ISO)

Heptachlor epoxide (ISO)

isobutanol (ISO)

lead(0) (ISO)

lead(2+) (ISO)

methyl methanesulfonate (ISO)

methylmercury chloride (ISO)

nickel sulfate (ISO)

nicotine (ISO)

ochratoxin A (EXP)

panobinostat (ISO)

phenylephrine (EXP)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

quercetin (ISO)

raloxifene (ISO)

SB 431542 (ISO)

sodium arsenite (ISO)

tamoxifen (ISO)

tetrachloromethane (ISO)

titanium dioxide (ISO)

trichostatin A (ISO)

triptonide (ISO)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

endocytosis (IBA)

negative regulation of exosomal secretion (IEA,ISO)

phospholipid translocation (IBA)

regulation of endocytic recycling (IEA,ISO)

regulation of retrograde transport, endosome to Golgi (IEA,ISO)

retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum (IBA)

Cellular Component

early endosome (ISO)

early endosome membrane (IEA,ISO)

endosome (IBA)

integral component of membrane (IEA)

perinuclear region of cytoplasm (ISO)

plasma membrane (IBA,ISO)

recycling endosome (ISO)

recycling endosome membrane (IEA,ISO)

trans-Golgi network (IBA,ISO)

trans-Golgi network membrane (IEA,ISO)

Molecular Function

ATP binding (IEA)

ATPase-coupled intramembrane lipid transporter activity (IBA)

magnesium ion binding (IEA)

protease binding (ISO)

protein binding (ISO)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Halleck MS, etal., Genome Res 1998 Apr;8(4):354-61.
3.	Halleck MS, etal., Physiol Genomics 1999 Nov 11;1(3):139-50.
4.	MGD data from the GO Consortium
5.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
6.	RGD automated data pipeline
7.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12477932	PMID:21914794	PMID:26094765	PMID:26240149

Genomics

Comparative Map Data

Atp9a
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	157,360,354 - 157,467,628 (-)	NCBI
Rnor_6.0 Ensembl	3	165,412,803 - 165,477,771 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	3	165,405,588 - 165,511,104 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	3	171,545,755 - 171,624,827 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	3	155,928,299 - 155,999,149 (-)	NCBI		Celera
Cytogenetic Map	3	q42	NCBI

ATP9A
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	20	51,596,514 - 51,768,390 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	20	51,596,514 - 51,768,390 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	20	50,213,053 - 50,384,929 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	20	49,646,721 - 49,818,315 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	20	49,646,723 - 49,818,274	NCBI
Celera	20	46,917,463 - 47,089,610 (-)	NCBI
Cytogenetic Map	20	q13.2	NCBI
HuRef	20	46,960,832 - 47,132,885 (-)	NCBI		HuRef
CHM1_1	20	50,118,485 - 50,290,054 (-)	NCBI		CHM1_1

Atp9a
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	168,476,358 - 168,584,290 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	2	168,476,358 - 168,584,329 (-)	Ensembl
GRCm38	2	168,634,438 - 168,742,370 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	168,634,438 - 168,742,409 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	168,459,938 - 168,567,300 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	2	168,325,643 - 168,433,005 (-)	NCBI			mm8
Celera	2	174,575,455 - 174,685,579 (-)	NCBI		Celera
Cytogenetic Map	2	H3	NCBI

Atp9a
(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_004955445	6,876,952 - 6,996,028 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955445	6,876,937 - 6,991,513 (+)	NCBI	ChiLan1.0	ChiLan1.0

ATP9A
(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	20	49,067,994 - 49,202,301 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	20	49,067,994 - 49,204,871 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	20	47,944,444 - 48,116,500 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

ATP9A
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	24	37,797,150 - 37,912,031 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	24	37,800,281 - 37,911,890 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	24	37,037,898 - 37,169,518 (-)	NCBI
ROS_Cfam_1.0	24	38,505,800 - 38,638,000 (-)	NCBI
UMICH_Zoey_3.1	24	37,742,052 - 37,874,876 (-)	NCBI
UNSW_CanFamBas_1.0	24	37,875,184 - 38,007,756 (-)	NCBI
UU_Cfam_GSD_1.0	24	38,420,934 - 38,553,947 (-)	NCBI

Atp9a
(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	187,887,536 - 187,975,368 (+)	NCBI
SpeTri2.0	NW_004936514	3,341,207 - 3,428,948 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

ATP9A
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	17	52,936,173 - 53,103,190 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	17	52,936,169 - 53,072,620 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	17	59,377,939 - 59,514,394 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

ATP9A
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	2	12,216,908 - 12,376,887 (+)	NCBI
ChlSab1.1 Ensembl	2	12,216,930 - 12,376,530 (+)	Ensembl
Vero_WHO_p1.0	NW_023666050	60,640,655 - 60,780,275 (+)	NCBI

Atp9a
(Heterocephalus glaber - naked mole-rat)

Naked Mole-rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624790	4,187,643 - 4,328,933 (+)	NCBI

Position Markers

C78563

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	157,472,931 - 157,473,087 (+)	MAPPER
Rnor_6.0	3	165,518,678 - 165,518,833	NCBI	Rnor6.0
Rnor_5.0	3	171,655,026 - 171,655,181	UniSTS	Rnor5.0
Celera	3	156,037,369 - 156,037,524	UniSTS

RH143096

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	157,417,025 - 157,417,285 (+)	MAPPER
Rnor_6.0	3	165,461,502 - 165,461,761	NCBI	Rnor6.0
Rnor_5.0	3	171,599,691 - 171,599,950	UniSTS	Rnor5.0
Celera	3	155,989,725 - 155,989,984	UniSTS
RH 3.4 Map	3	1483.4	UniSTS

RH141846

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	157,360,488 - 157,360,694 (+)	MAPPER
Rnor_6.0	3	165,405,723 - 165,405,928	NCBI	Rnor6.0
Rnor_5.0	3	171,545,890 - 171,546,095	UniSTS	Rnor5.0
Celera	3	155,928,434 - 155,928,639	UniSTS
RH 3.4 Map	3	1480.7	UniSTS
Cytogenetic Map	18	q12.3	UniSTS

UniSTS:234614

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	157,474,128 - 157,474,212 (+)	MAPPER
Rnor_6.0	3	165,519,879 - 165,519,962	NCBI	Rnor6.0
Rnor_5.0	3	171,656,228 - 171,656,311	UniSTS	Rnor5.0
Celera	3	156,038,564 - 156,038,647	UniSTS

RH124626

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	157,472,956 - 157,473,102 (+)	MAPPER
Rnor_6.0	3	165,518,703 - 165,518,848	NCBI	Rnor6.0
Rnor_5.0	3	171,655,051 - 171,655,196	UniSTS	Rnor5.0
Celera	3	156,037,394 - 156,037,539	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
70216	Cm14	Cardiac mass QTL 14	2.1		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	30846101	172879276	Rat
1578656	Vnigr2	Vascular neointimal growth QTL 2	4.2		artery morphology trait (VT:0002191)	lesioned artery residual lumen area (CMO:0001417)	3	138374177	177699992	Rat
1559282	Emca5	Estrogen-induced mammary cancer QTL 5	3.9		mammary gland integrity trait (VT:0010552)	percentage of study population developing mammary tumors during a period of time (CMO:0000948)	3	45406058	177699992	Rat
2302373	Gluco39	Glucose level QTL 39	5.01		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	3	103141944	170934860	Rat
1331726	Bp208	Blood pressure QTL 208	3.129		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	148348517	171467264	Rat
1298068	Bp167	Blood pressure QTL 167		0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	150368003	177699992	Rat
631673	Iddm13	Insulin dependent diabetes mellitus QTL 13	1.3	0.663	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	3	136876155	170935007	Rat
2312659	Slep7	Serum leptin concentration QTL 7		0.001	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	3	103141814	176418101	Rat
2312670	Bw94	Body weight QTL 94		0.01	inguinal fat pad mass (VT:0010424)	inguinal fat pad weight to body weight ratio (CMO:0001253)	3	103141814	176418101	Rat
2312673	Scl63	Serum cholesterol level QTL 63		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	3	103141814	176418101	Rat
1578653	Vnigr3	Vascular neointimal growth QTL 3	3.1		artery morphology trait (VT:0002191)	artery neointimal hyperplastic lesion area (CMO:0001414)	3	138374177	177699992	Rat
2317883	Alcrsp26	Alcohol response QTL 26	1.8	0.63	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	3	153918022	177699992	Rat
631541	Bp81	Blood pressure QTL 81	4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	129787213	177699992	Rat
1581568	Rf53	Renal function QTL 53			total urine protein amount (VT:0000032)	urine protein excretion rate to body weight ratio (CMO:0001099)	3	58204463	170534769	Rat
1598854	Memor10	Memory QTL 10	2		exploratory behavior trait (VT:0010471)	average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)	3	153412455	170534769	Rat
1598877	Bp285	Blood pressure QTL 285	1.5	0.03	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	128986468	173986468	Rat
2298477	Eau4	Experimental allergic uveoretinitis QTL 4		0.0011	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	3	146232777	177699992	Rat
2301411	Bp320	Blood pressure QTL 320		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	153381237	174632112	Rat
631841	Niddm39	Non-insulin dependent diabetes mellitus QTL 39	3.36		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	99465522	168732722	Rat
1576306	Schws3	Schwannoma susceptibility QTL 3		0.001	nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	3	125848628	170848628	Rat
1578666	Vnigr1	Vascular neointimal growth QTL 1	4.6		artery morphology trait (VT:0002191)	artery lumen area (CMO:0001409)	3	156381661	176418101	Rat
2303620	Vencon4	Ventilatory control QTL 4	3.9		respiration trait (VT:0001943)	tidal volume (CMO:0000222)	3	132875075	176418101	Rat
9589106	Insul23	Insulin level QTL 23	13.86	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	3	139578365	177699992	Rat
8552791	Vie2	Viral induced encephalitis QTL 2	4.1		brain integrity trait (VT:0010579)	encephalitis incidence/prevalence measurement (CMO:0002361)	3	153412455	177699992	Rat
8552952	Pigfal13	Plasma insulin-like growth factor 1 level QTL 13			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	3	148034701	177699992	Rat
12879874	Cm98	Cardiac mass QTL 98		0.005	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	3	153381237	174632112	Rat
12879875	Kidm64	Kidney mass QTL 64		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	153381237	174632112	Rat
10755461	Coatc16	Coat color QTL 16			coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	3	130006659	175006659	Rat
12879871	Am7	Aortic mass QTL 7		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	3	153381237	174632112	Rat
12879872	Cm97	Cardiac mass QTL 97		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	153381237	174632112	Rat
12879873	Cm96	Cardiac mass QTL 96		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	3	153381237	174632112	Rat
12879876	Bw182	Body weight QTL 182		0.003	body mass (VT:0001259)	body weight (CMO:0000012)	3	153381237	174632112	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	134
Count of miRNA genes:	63
Interacting mature miRNAs:	66
Transcripts:	ENSRNOT00000071672, ENSRNOT00000075348
Prediction methods:	Miranda, Rnahybrid
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	41	39	29	2	29	8	11	74	35	41	11	8
Low		2	18	12	17	12
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_008762610	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008775627	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039106727	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039106728	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039106729	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039106730	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039106731	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC084699	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000120	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U78977	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000071672 ⟹ ENSRNOP00000064988

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	3	165,412,803 - 165,477,771 (-)	Ensembl

RefSeq Acc Id:

XM_008762610 ⟹ XP_008760832

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	3	165,405,588 - 165,511,104 (-)	NCBI

Sequence:

show sequence

ATGCGGGGGACCTCCAAGGGCTGGCGGCCCCGGCGGGTCCGATCCCTTGGGGACAGGGGGTCAG
GCTGGAGAGATCGCAGAGTCCAGGCTGCGCCTCACCCGCCAATCGGAGCCCTGGGCGGTGGGGG
GTGGGACCTGGGAGGTGCGTTTCTACGGGCCGCGCAGACTTTGCGTGGAGCACGTCATCTGCAT
GCACTCTCTGCAGGGGTGCCCCCTCCCCACCCCTCCAGCTCCACCATCCGCAGAAGAGGATGCC
GATGTCCCCGTTCTCCTTCCCAGGTGTTGTTCAGTCAGTTCAGATACTTCTTCAACTTCTACTT
CCTGCTTCTCGCCTGCTCCCAGTTCGTCCCCGAGATGAGACTTGGCGCTCTCTACACCTACTGG
GTTCCTCTGGGCTTTGTGCTGGCTGTCACCATCATCCGTGAGGCAGTGGAGGAGATCCGATGCT
ATATTCGTGACAAGGAGATGAACTCCCAGATCTACAGCCGGCTCACGTCACGAGGGACCGTGAA
GGTGAAGAGTTCAAACATCCAGGTGGGAGATCTCATCCTTGTGGAAAAGAACCAGCGGGTGCCT
GCTGACATGATCTTCCTGAGGACATCAGAGAAAAACGGGTCCTGCTTCTTGCGCACAGATCAGC
TGGATGGAGAGACAGACTGGAAGCTTCGGCTCCCCGTGGCCTGCACACAGAGGCTCCCCACAGC
TGCGGACCTCCTGCAGATTCGGTCGTATGTGTATGCTGAAGAGCCCAACATCGACATTCACAAC
TTCCTGGGGACCTTCACCAGGGAAGACAGTGACCCTCCGATCAGCGAGAGCCTGAGCATCGAGA
ACACGCTGTGGGCCGGCACCGTCATAGCCTCAGGCACGGTTGTGGGTGTCGTTCTCTACACTGG
CAGAGAGCTGCGGAGTGTCATGAATACTTCCGATCCCAGAAGTAAGATTGGCCTGTTCGACCTG
GAGGTGAACTGCCTCACCAAGATCCTGTTTGGTGCGCTGGTGGTGGTGTCACTGGTCATGGTGG
CTCTGCAGCACTTCGCCGGCCGCTGGTACCTGCAGATCATCCGCTTCCTGCTTCTGTTTTCCAA
CATCATTCCCATCAGCTTGCGTGTGAACTTGGACATGGGCAAGATCGTGTACAGCTGGGTGATT
CGCAGGGATTCCAAAATCCCCGGGACTGTGGTCCGTTCCAGCACAATCCCCGAGCAGCTGGGCA
GGATCTCCTACTTGCTCACAGATAAGACAGGGACCCTGACTCAGAACGAGATGGTGTTCAAGCG
GTTGCACCTGGGTACGGTGGCCTACGGCCTGGACTCGATGGACGAAGTGCAGAGTCACATCTTC
AGCATCTACACCCAGCCGTCCCAGGACCCACCGGCTCAGAAGGGCCCCACAGTCACCACCAAAG
TCCGAAGGACCATGAGCAGCCGGGTCCACGAGGCCGTGAAGGCCATCGCGCTCTGCCACAACGT
GACACCTGTGTATGAGTGCAACGGCGTGACCGACCAGGCGGAGGCTGAGAAGCAGTTTGAGGAT
TCCTGCCGTGTGTACCAGGCATCCAGCCCAGATGAGGTGGCTCTGGTCCAGTGGACAGAAAGCG
TGGGACTGACGCTTGTGGGTCGAGACCAGTCCTCCATGCAGCTGAGGACCCCTGGTGACCAGAT
CCTGAATCTCACCATCCTGCAGGTCTTCCCGTTCACCTATGAGAGCAAGCGGATGGGCATCATC
GTGCGGGATGAGTCCACAGGGGAGATCACCTTCTACATGAAGGGAGCGGACGTCGTCATGGCTG
GCATTGTTCAGTACAATGACTGGCTGGAGGAGGAGTGTGGCAACATGGCCCGGGAGGGACTGCG
TGTGCTGGTGGTGGCCAAGAAGTCCCTCACAGAAGAGCAGTACCAAGACTTTGAAGCGCGCTAC
GTCCAGGCCAAGTTGAGCGTACATGACCGCTCTCTGAAGGTGGCCACGGTGATCGAGAGCCTGG
AGATGGAGATGGAGCTGCTGTGCCTGACGGGCGTGGAGGACCAGCTGCAGGCCGACGTCAGGCC
CACGCTGGAGACGCTGCGCAATGCCGGCATCAAGGTTTGGATGCTAACAGGGGACAAGCTGGAG
ACAGCCACGTGCACAGCCAAGAACGCACATCTGGTGACCAGAAACCAAGACATCCATGTTTTCC
GACTGGTGACCAACCGCGGGGAGGCACACCTGGAGCTCAACGCCTTCCGCAGGAAGCACGACTG
TGCCCTGGTCATCTCTGGAGACTCTCTGGAGGTTTGCCTCAAGTACTATGAGTATGAGTTCATG
GAGCTGGCCTGCCAGTGCCCGGCCGTGGTATGCTGCCGCTGTGCCCCCACCCAGAAGGCCCAAA
TCGTTCGGCTGCTCCAGGAACGCACCGGAAAGCTCACCTGTGCAGTAGGGGACGGAGGCAATGA
CGTCAGCATGATCCAGGAATCAGACTGCGGCGTGGGCGTGGAGGGCAAGGAAGGAAAGCAGGCT
TCGCTGGCCGCGGACTTCTCCATCACCCAGTTCAAGCATCTCGGCCGGCTACTCATGGTGCACG
GCCGGAACAGCTACAAGCGCTCGGCGGCTCTCAGCCAGTTCGTCATCCACAGGAGCCTCTGCAT
CAGTACCATGCAGGCCGTCTTCTCTTCCGTGTTCTACTTTGCATCCGTTCCTCTCTACCAAGGC
TTCCTGATCATCGGGTGGGTGATAAGAAAGCAGCCCAGCCTCTGCCGTAACCTGTGCGCTCTTC
CTGTTCTCATCTTAGGGCGGCCACTGTCCTACAAGACGTTCTTAATTTGGGTGTTAATCAGCAT
CTATCAAGGGAGCACCATCATGTACGGGGCGCTGCTGCTGTTCGAGTCGGAGTTTGTACACATC
GTGGCTATCTCTTTCACGTCACTCATCCTCACCGAGCTACTGATGGTGGCGCTCACTATCCAGA
CGTGGCACTGGCTCATGACAGTGGCCGAGCTGCTCAGCCTGGCCTGCTACATCGCCTCCCTGGT
GTTCCTCCACGAGTTCATCGATGTCTACTTCATTGCTACCCTGTCGTTCCTCTGGAAGGTGTCC
GTCATCACCCTGGTCAGCTGTCTCCCCCTCTACGTCCTCAAGTACCTGCGGAGACGGTTCTCCC
CCCCCAGCTACTCCAAGCTCACTTCATAAGCTGCAAGGCGGCAGCAGGGCCTCCGGTCTCTGCG
CTCTCCCTGGAGGAGGTCAAGTTCAGGCGCATGAGCCACCTCAGGTGGATGGCGCAGTCACAGC
TGGCACATGAGGCTTTACCGAGGCGAGACTGGGCACCTAGCGGGGTTGTAACACTTGACAGAAT
GGGAGGGAGGGACCTGAGAGCTGTACCTGTCAGAACCTTGGGTGCTATGCTGAATTGAGGGTGA
AGATGTGGGACTGGGTGGCCCGTCTGAGGTTTGTGTGGGTCACTGTGCAAGCTTCTTTATGGTT
TGAACCTCTTGTCATGTGATAAAGTCTCTGTCTCGAA

hide sequence

RefSeq Acc Id:

XM_008775627 ⟹ XP_008773849

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Celera	3	155,928,299 - 155,999,149 (-)	NCBI

Sequence:

show sequence

ATGAAAGAAAAATTTCTATGGTGGGCATCCCTGGAAGCAGAGGTAGGGGATCTCTATGAGTTAG
AGTTCAGCCAGGACTGCACTCAAGGAACACAGACAAACAAACATAAAAACCTGATCTGCTACGG
CGAGTGCCAGACTTTGCGTGGAGCACGTCATCTGCATGCACTCTCTGCAGGGGTGCCCCCTCCC
CACCCCTCCAGCTCCACCATCCGCAGAAGAGGATGCCGATGTCCCCGTTCTCCTTCCCAGGTGT
TGTTCAGTCAGTTCAGATACTTCTTCAACTTCTACTTCCTGCTTCTCGCCTGCTCCCAGTTCGT
CCCCGAGATGAGACTTGGCGCTCTCTACACCTACTGGGTTCCTCTGGGCTTTGTGCTGGCTGTC
ACCATCATCCGTGAGGCAGTGGAGGAGATCCGATGCTATATTCGTGACAAGGAGATGAACTCCC
AGATCTACAGCCGGCTCACGTCACGAGGGACCGTGAAGGTGAAGAGTTCAAACATCCAGGTGGG
AGATCTCATCCTTGTGGAAAAGAACCAGCGGGTGCCTGCTGACATGATCTTCCTGAGGACATCA
GAGAAAAACGGGTCCTGCTTCTTGCGCACAGATCAGCTGGATGGAGAGACAGACTGGAAGCTTC
GGCTCCCCGTGGCCTGCACACAGAGGCTCCCCACAGCTGCGGACCTCCTGCAGATTCGGTCGTA
TGTGTATGCTGAAGAGCCCAACATCGACATTCACAACTTCCTGGGGACCTTCACCAGGGAAGAC
AGTGACCCTCCGATCAGCGAGAGCCTGAGCATCGAGAACACGCTGTGGGCCGGCACCGTCATAG
CCTCAGGCACGGTTGTGGGTGTCGTTCTCTACACTGGCAGAGAGCTGCGGAGTGTCATGAATAC
TTCCGATCCCAGAAGTAAGATTGGCCTGTTCGACCTGGAGGTGAACTGCCTCACCAAGATCCTG
TTTGGTGCGCTGGTGGTGGTGTCACTGGTCATGGTGGCTCTGCAGCACTTCGCCGGCCGCTGGT
ACCTGCAGATCATCCGCTTCCTGCTTCTGTTTTCCAACATCATTCCCATCAGCTTGCGTGTGAA
CTTGGACATGGGCAAGATCGTGTACAGCTGGGTGATTCGCAGGGATTCCAAAATCCCCGGGACT
GTGGTCCGTTCCAGCACAATCCCCGAGCAGCTGGGCAGGATCTCCTACTTGCTCACAGATAAGA
CAGGGACCCTGACTCAGAACGAGATGGTGTTCAAGCGGTTGCACCTGGGTACGGTGGCCTACGG
CCTGGACTCGATGGACGAAGTGCAGAGTCACATCTTCAGCATCTACACCCAGCCGTCCCAGGAC
CCACCGGCTCAGAAGGGCCCCACAGTCACCACCAAAGTCCGAAGGACCATGAGCAGCCGGGTCC
ACGAGGCCGTGAAGGCCATCGCGCTCTGCCACAACGTGACACCTGTGTATGAGTGCAACGGCGT
GACCGACCAGGCGGAGGCTGAGAAGCAGTTTGAGGATTCCTGCCGTGTGTACCAGGCATCCAGC
CCAGATGAGGTGGCTCTGGTCCAGTGGACAGAAAGCGTGGGACTGACGCTTGTGGGTCGAGACC
AGTCCTCCATGCAGCTGAGGACCCCTGGTGACCAGATCCTGAATCTCACCATCCTGCAGGTCTT
CCCGTTCACCTATGAGAGCAAGCGGATGGGCATCATCGTGCGGGATGAGTCCACAGGGGAGATC
ACCTTCTACATGAAGGGAGCGGACGTCGTCATGGCTGGCATTGTTCAGTACAATGACTGGCTGG
AGGAGGAGTGTGGCAACATGGCCCGGGAGGGACTGCGTGTGCTGGTGGTGGCCAAGAAGTCCCT
CACAGAAGAGCAGTACCAAGACTTTGAAGCGCGCTACGTCCAGGCCAAGTTGAGCGTACATGAC
CGCTCTCTGAAGGTGGCCACGGTGATCGAGAGCCTGGAGATGGAGATGGAGCTGCTGTGCCTGA
CGGGCGTGGAGGACCAGCTGCAGGCCGACGTCAGGCCCACGCTGGAGACGCTGCGCAATGCCGG
CATCAAGGTTTGGATGCTAACAGGGGACAAGCTGGAGACAGCCACGTGCACAGCCAAGAACGCA
CATCTGGTGACCAGAAACCAAGACATCCATGTTTTCCGACTGGTGACCAACCGCGGGGAGGCAC
ACCTGGAGCTCAACGCCTTCCGCAGGAAGCACGACTGTGCCCTGGTCATCTCTGGAGACTCTCT
GGAGGTTTGCCTCAAGTACTATGAGTATGAGTTCATGGAGCTGGCCTGCCAGTGCCCGGCCGTG
GTATGCTGCCGCTGTGCCCCCACCCAGAAGGCCCAAATCGTTCGGCTGCTCCAGGAACGCACCG
GAAAGCTCACCTGTGCAGTAGGGGACGGAGGCAATGACGTCAGCATGATCCAGGAATCAGACTG
CGGCGTGGGCGTGGAGGGCAAGGAAGGAAAGCAGGCTTCGCTGGCCGCGGACTTCTCCATCACC
CAGTTCAAGCATCTCGGCCGGCTACTCATGGTGCACGGCCGGAACAGCTACAAGCGCTCGGCGG
CTCTCAGCCAGTTCGTCATCCACAGGAGCCTCTGCATCAGTACCATGCAGGCCGTCTTCTCTTC
CGTGTTCTACTTTGCATCCGTTCCTCTCTACCAAGGCTTCCTGATCATCGGGTATTCTACCATC
TACACCATGTTTCCCGTGTTTTCCCTGGTCTTGGACAAAGACGTGAAGTCAGAAGTTGCCATGT
TGTATCCTGAGCTCTACAAGGACCTCCTCAAGGGGCGGCCACTGTCCTACAAGACGTTCTTAAT
TTGGGTGTTAATCAGCATCTATCAAGGGAGCACCATCATGTACGGGGCGCTGCTGCTGTTCGAG
TCGGAGTTTGTACACATCGTGGCTATCTCTTTCACGTCACTCATCCTCACCGAGCTACTGATGG
TGGCGCTCACTATCCAGACGTGGCACTGGCTCATGACAGTGGCCGAGCTGCTCAGCCTGGCCTG
CTACATCGCCTCCCTGGTGTTCCTCCACGAGTTCATCGATGTCTACTTCATTGCTACCCTGTCG
TTCCTCTGGAAGGTGTCCGTCATCACCCTGGTCAGCTGTCTCCCCCTCTACGTCCTCAAGTACC
TGCGGAGACGGTTCTCCCCCCCCAGCTACTCCAAGCTCACTTCATAAGCTGCAAGGCGGCAGCA
GGGCCTCCGGTCTCTGCGCTCTCCCTGGAGGAGGTCAAGTTCAGGCGCATGAGCCACCTCAGGT
GGATGGCGCAGTCACAGCTGGCACATGAGGCTTTACCGAGGCGAGACTGGGCACCTAGCGGGGT
TGTAACACTTGACAGAATGGGAGGGAGGGACCTGAGAGCTGTACCTGTCAGAACCTTGGGTGCT
ATGCTGAATTGAGGGTGAAGATGTGGGACTGGGTGGCCCGTCTGAGGTTTGTGTGGGTCACTGT
GCAAGCTTCTTTATGGTTTGAACCTCTTGTCATGTGATAAAGTCTCTGTCTCGAA

hide sequence

RefSeq Acc Id:

XM_039106727 ⟹ XP_038962655

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	157,360,354 - 157,467,394 (-)	NCBI

RefSeq Acc Id:

XM_039106728 ⟹ XP_038962656

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	157,360,682 - 157,460,536 (-)	NCBI

RefSeq Acc Id:

XM_039106729 ⟹ XP_038962657

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	157,360,682 - 157,467,628 (-)	NCBI

RefSeq Acc Id:

XM_039106730 ⟹ XP_038962658

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	157,360,682 - 157,439,752 (-)	NCBI

RefSeq Acc Id:

XM_039106731 ⟹ XP_038962659

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	157,360,682 - 157,438,175 (-)	NCBI

Protein Sequences


Protein RefSeqs	XP_038962655	(Get FASTA)	NCBI Sequence Viewer
	XP_038962656	(Get FASTA)	NCBI Sequence Viewer
	XP_038962657	(Get FASTA)	NCBI Sequence Viewer
	XP_038962658	(Get FASTA)	NCBI Sequence Viewer
	XP_038962659	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC05244	(Get FASTA)	NCBI Sequence Viewer
	AAH84699	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

XP_008773849 ⟸ XM_008775627

- Peptide Label:

isoform X2

- Sequence:

show sequence

MKEKFLWWASLEAEVGDLYELEFSQDCTQGTQTNKHKNLICYGECQTLRGARHLHALSAGVPPP
HPSSSTIRRRGCRCPRSPSQVLFSQFRYFFNFYFLLLACSQFVPEMRLGALYTYWVPLGFVLAV
TIIREAVEEIRCYIRDKEMNSQIYSRLTSRGTVKVKSSNIQVGDLILVEKNQRVPADMIFLRTS
EKNGSCFLRTDQLDGETDWKLRLPVACTQRLPTAADLLQIRSYVYAEEPNIDIHNFLGTFTRED
SDPPISESLSIENTLWAGTVIASGTVVGVVLYTGRELRSVMNTSDPRSKIGLFDLEVNCLTKIL
FGALVVVSLVMVALQHFAGRWYLQIIRFLLLFSNIIPISLRVNLDMGKIVYSWVIRRDSKIPGT
VVRSSTIPEQLGRISYLLTDKTGTLTQNEMVFKRLHLGTVAYGLDSMDEVQSHIFSIYTQPSQD
PPAQKGPTVTTKVRRTMSSRVHEAVKAIALCHNVTPVYECNGVTDQAEAEKQFEDSCRVYQASS
PDEVALVQWTESVGLTLVGRDQSSMQLRTPGDQILNLTILQVFPFTYESKRMGIIVRDESTGEI
TFYMKGADVVMAGIVQYNDWLEEECGNMAREGLRVLVVAKKSLTEEQYQDFEARYVQAKLSVHD
RSLKVATVIESLEMEMELLCLTGVEDQLQADVRPTLETLRNAGIKVWMLTGDKLETATCTAKNA
HLVTRNQDIHVFRLVTNRGEAHLELNAFRRKHDCALVISGDSLEVCLKYYEYEFMELACQCPAV
VCCRCAPTQKAQIVRLLQERTGKLTCAVGDGGNDVSMIQESDCGVGVEGKEGKQASLAADFSIT
QFKHLGRLLMVHGRNSYKRSAALSQFVIHRSLCISTMQAVFSSVFYFASVPLYQGFLIIGYSTI
YTMFPVFSLVLDKDVKSEVAMLYPELYKDLLKGRPLSYKTFLIWVLISIYQGSTIMYGALLLFE
SEFVHIVAISFTSLILTELLMVALTIQTWHWLMTVAELLSLACYIASLVFLHEFIDVYFIATLS
FLWKVSVITLVSCLPLYVLKYLRRRFSPPSYSKLTS

hide sequence

RefSeq Acc Id:

XP_008760832 ⟸ XM_008762610

- Peptide Label:

isoform X1

- Sequence:

show sequence

MRGTSKGWRPRRVRSLGDRGSGWRDRRVQAAPHPPIGALGGGGWDLGGAFLRAAQTLRGARHLH
ALSAGVPPPHPSSSTIRRRGCRCPRSPSQVLFSQFRYFFNFYFLLLACSQFVPEMRLGALYTYW
VPLGFVLAVTIIREAVEEIRCYIRDKEMNSQIYSRLTSRGTVKVKSSNIQVGDLILVEKNQRVP
ADMIFLRTSEKNGSCFLRTDQLDGETDWKLRLPVACTQRLPTAADLLQIRSYVYAEEPNIDIHN
FLGTFTREDSDPPISESLSIENTLWAGTVIASGTVVGVVLYTGRELRSVMNTSDPRSKIGLFDL
EVNCLTKILFGALVVVSLVMVALQHFAGRWYLQIIRFLLLFSNIIPISLRVNLDMGKIVYSWVI
RRDSKIPGTVVRSSTIPEQLGRISYLLTDKTGTLTQNEMVFKRLHLGTVAYGLDSMDEVQSHIF
SIYTQPSQDPPAQKGPTVTTKVRRTMSSRVHEAVKAIALCHNVTPVYECNGVTDQAEAEKQFED
SCRVYQASSPDEVALVQWTESVGLTLVGRDQSSMQLRTPGDQILNLTILQVFPFTYESKRMGII
VRDESTGEITFYMKGADVVMAGIVQYNDWLEEECGNMAREGLRVLVVAKKSLTEEQYQDFEARY
VQAKLSVHDRSLKVATVIESLEMEMELLCLTGVEDQLQADVRPTLETLRNAGIKVWMLTGDKLE
TATCTAKNAHLVTRNQDIHVFRLVTNRGEAHLELNAFRRKHDCALVISGDSLEVCLKYYEYEFM
ELACQCPAVVCCRCAPTQKAQIVRLLQERTGKLTCAVGDGGNDVSMIQESDCGVGVEGKEGKQA
SLAADFSITQFKHLGRLLMVHGRNSYKRSAALSQFVIHRSLCISTMQAVFSSVFYFASVPLYQG
FLIIGWVIRKQPSLCRNLCALPVLILGRPLSYKTFLIWVLISIYQGSTIMYGALLLFESEFVHI
VAISFTSLILTELLMVALTIQTWHWLMTVAELLSLACYIASLVFLHEFIDVYFIATLSFLWKVS
VITLVSCLPLYVLKYLRRRFSPPSYSKLTS

hide sequence

RefSeq Acc Id:

ENSRNOP00000064988 ⟸ ENSRNOT00000071672

RefSeq Acc Id:	XP_038962655 ⟸ XM_039106727
- Peptide Label:	isoform X1

RefSeq Acc Id:	XP_038962657 ⟸ XM_039106729
- Peptide Label:	isoform X3

RefSeq Acc Id:	XP_038962656 ⟸ XM_039106728
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038962658 ⟸ XM_039106730
- Peptide Label:	isoform X4

RefSeq Acc Id:	XP_038962659 ⟸ XM_039106731
- Peptide Label:	isoform X5

Protein Domains

PhoLip_ATPase_C

Transcriptome

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

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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CSV

TAB

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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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CSV

TAB

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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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CSV

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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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CSV

TAB

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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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CSV

TAB

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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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CSV

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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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CSV

TAB

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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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CSV

TAB

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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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CSV

TAB

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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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CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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)

Visual

CSV

TAB

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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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CSV

TAB

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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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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

LE/Stm (RGD)

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CSV

TAB

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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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CSV

TAB

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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)

Visual

CSV

TAB

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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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CSV

TAB

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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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CSV

TAB

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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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CSV

TAB

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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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CSV

TAB

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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)

Visual

CSV

TAB

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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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CSV

TAB

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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:621421	AgrOrtholog
Ensembl Genes	ENSRNOG00000049484	Ensembl, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000064988	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000071672	UniProtKB/TrEMBL
Gene3D-CATH	3.40.1110.10	UniProtKB/TrEMBL
	3.40.50.1000	UniProtKB/TrEMBL
InterPro	ATP9A	UniProtKB/TrEMBL
	ATPase_P-typ_cyto_dom_N	UniProtKB/TrEMBL
	ATPase_P-typ_P_site	UniProtKB/TrEMBL
	ATPase_P-typ_TM_dom_sf	UniProtKB/TrEMBL
	ATPase_P-typ_transduc_dom_A_sf	UniProtKB/TrEMBL
	HAD-like_sf	UniProtKB/TrEMBL
	HAD_sf	UniProtKB/TrEMBL
	P-type_ATPase_IV	UniProtKB/TrEMBL
	P_typ_ATPase	UniProtKB/TrEMBL
	P_typ_ATPase_c	UniProtKB/TrEMBL
	P_typ_ATPase_HD_dom	UniProtKB/TrEMBL
NCBI Gene	84011	ENTREZGENE
PANTHER	PTHR24092	UniProtKB/TrEMBL
	PTHR24092:SF49	UniProtKB/TrEMBL
Pfam	PhoLip_ATPase_C	UniProtKB/TrEMBL
PhenoGen	Atp9a	PhenoGen
PROSITE	ATPASE_E1_E2	UniProtKB/TrEMBL
Superfamily-SCOP	SSF56784	UniProtKB/TrEMBL
	SSF81653	UniProtKB/TrEMBL
	SSF81660	UniProtKB/TrEMBL
	SSF81665	UniProtKB/TrEMBL
TIGRFAMs	ATPase-Plipid	UniProtKB/TrEMBL
	ATPase_P-type	UniProtKB/TrEMBL
UniProt	M0R6E0_RAT	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-02-17	Atp9a	ATPase phospholipid transporting 9A (putative)	Atp9a	ATPase, class II, type 9A	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2004-02-26	Atp9a	ATPase, class II, type 9A		ATPase, Class II, type 9A	Symbol and Name status set to approved	625702	APPROVED
2002-08-07	Atp9a	ATPase, Class II, type 9A			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)

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