Pnpla2 (patatin-like phospholipase domain containing 2)

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Gene: Pnpla2 (patatin-like phospholipase domain containing 2) Rattus norvegicus

Analyze

Symbol:

Pnpla2

Name:

patatin-like phospholipase domain containing 2

RGD ID:

1309044

Description:

Predicted to have retinyl-palmitate esterase activity and triglyceride lipase activity. Predicted to be involved in several processes, including acylglycerol metabolic process; negative regulation of sequestering of triglyceride; and positive regulation of triglyceride catabolic process. Predicted to localize to several cellular components, including cytosol; lipid droplet; and nucleoplasm. Orthologous to human PNPLA2 (patatin like phospholipase domain containing 2); INTERACTS WITH (+)-catechin; (-)-cotinine; (S)-nicotine.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

adipose triglyceride lipase; LOC100911615; LOC361676; patatin-like phospholipase domain-containing protein 2; patatin-like phospholipase domain-containing protein 2-like; RGD1309044; similar to RIKEN cDNA 0610039C21

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	1	196,552,723 - 196,557,805 (+)	NCBI
Rnor_6.0 Ensembl	1	214,434,626 - 214,439,720 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0 Ensembl	1	213,997,709 - 214,002,815 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	1	214,434,638 - 214,439,720 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	1	220,914,961 - 220,920,043 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	201,641,939 - 201,647,021 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	1	194,186,305 - 194,191,301 (+)	NCBI		Celera
Cytogenetic Map	1	q41	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

developmental and epileptic encephalopathy (ISO)

early infantile epileptic encephalopathy (ISO)

genetic disease (ISO)

heart disease (ISO)

immunodeficiency 39 (ISO)

neuronal ceroid lipofuscinosis (ISO)

neutral lipid storage disease (ISO)

Neutral Lipid Storage Disease with Myopathy (ISO)

polycystic ovary syndrome (ISO)

Segawa Syndrome, Autosomal Recessive (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-catechin (EXP)

(-)-cotinine (EXP)

(-)-epigallocatechin 3-gallate (ISO)

(S)-nicotine (EXP)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (EXP,ISO)

17beta-estradiol (ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

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

2,4-dinitrotoluene (EXP)

2,6-dinitrotoluene (EXP)

3,3',4,4'-tetrachlorobiphenyl (ISO)

3,3',5-triiodo-L-thyronine (ISO)

3,4-methylenedioxymethamphetamine (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

aldehydo-D-glucose (ISO)

aldrin (ISO)

amphetamine (EXP)

atrazine (ISO)

benzalkonium chloride (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bis(2-ethylhexyl) phthalate (EXP,ISO)

bisphenol A (EXP,ISO)

Bisphenol A diglycidyl ether (ISO)

buspirone (EXP)

cadmium dichloride (ISO)

canrenoic acid (EXP)

carbon nanotube (ISO)

carmustine (EXP)

choline (ISO)

chromium(6+) (ISO)

ciguatoxin CTX1B (ISO)

clofibrate (ISO)

cobalt dichloride (ISO)

colforsin daropate hydrochloride (ISO)

copper(II) sulfate (ISO)

cortisol (ISO)

cycloheximide (ISO)

D-glucose (ISO)

deoxycholic acid (ISO)

dexamethasone (ISO)

dioxygen (ISO)

diuron (EXP)

ethanol (EXP,ISO)

folic acid (ISO)

fructose (ISO)

glucose (ISO)

indometacin (ISO)

ketamine (EXP)

L-methionine (ISO)

leflunomide (EXP)

Licarin A (ISO)

methotrexate (EXP)

MK-2206 (ISO)

N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide (ISO)

N-nitrosodiethylamine (EXP)

nefazodone (EXP)

nevirapine (EXP)

nicotine (EXP)

nimesulide (EXP)

olanzapine (EXP)

ozone (EXP)

paracetamol (EXP,ISO)

paraquat (ISO)

permethrin (ISO)

phosphatidylcholine (ISO)

pirinixic acid (EXP,ISO)

potassium chromate (ISO)

propiconazole (ISO)

quercetin (ISO)

resveratrol (EXP,ISO)

rotenone (EXP)

scopoletin (EXP)

silicon dioxide (ISO)

sirolimus (ISO)

tamoxifen (ISO)

tioguanine (EXP)

titanium dioxide (ISO)

tolcapone (EXP)

triphenyl phosphate (ISO)

urethane (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular lipid catabolic process (ISO)

diacylglycerol biosynthetic process (ISO,ISS)

lipid droplet organization (ISO)

lipid homeostasis (IBA)

lipid storage (ISO)

negative regulation of sequestering of triglyceride (ISO,ISS)

positive regulation of triglyceride catabolic process (ISO,ISS)

retinol metabolic process (IEA)

triglyceride catabolic process (IBA,IEA,ISO,ISS)

Cellular Component

cytoplasm (IBA)

cytosol (ISO)

integral component of membrane (IEA)

lipid droplet (IBA,ISO)

membrane (IBA)

nucleoplasm (ISO)

plasma membrane (IEA)

Molecular Function

protein binding (IPI,ISO)

retinyl-palmitate esterase activity (ISO,ISS)

triglyceride lipase activity (IBA,ISO,ISS)

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.	MacPherson RE, etal., Am J Physiol Regul Integr Comp Physiol. 2013 Apr 15;304(8):R644-50. doi: 10.1152/ajpregu.00418.2012. Epub 2013 Feb 13.
3.	Macpherson RE, etal., Physiol Rep. 2013 Sep;1(4):e00084. doi: 10.1002/phy2.84. Epub 2013 Sep 17.
4.	OMIM Disease Annotation Pipeline
5.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:16679289	PMID:17074755	PMID:17603008	PMID:19389712	PMID:21148142	PMID:21498505	PMID:21944063	PMID:22183409	PMID:23297223	PMID:25436917	PMID:25890298	PMID:26141235
PMID:26277390	PMID:26427354	PMID:26511521	PMID:27179362	PMID:27590244	PMID:27658392

Genomics

Comparative Map Data

Pnpla2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	1	196,552,723 - 196,557,805 (+)	NCBI
Rnor_6.0 Ensembl	1	214,434,626 - 214,439,720 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0 Ensembl	1	213,997,709 - 214,002,815 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	1	214,434,638 - 214,439,720 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	1	220,914,961 - 220,920,043 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	201,641,939 - 201,647,021 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	1	194,186,305 - 194,191,301 (+)	NCBI		Celera
Cytogenetic Map	1	q41	NCBI

PNPLA2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	11	818,914 - 825,573 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	11	818,914 - 825,573 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	11	818,914 - 825,573 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	11	808,902 - 815,217 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	11	808,901 - 815,216	NCBI
Celera	11	885,450 - 892,225 (+)	NCBI
Cytogenetic Map	11	p15.5	NCBI
HuRef	11	634,726 - 640,840 (+)	NCBI		HuRef
CHM1_1	11	817,799 - 824,534 (+)	NCBI		CHM1_1

Pnpla2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	7	141,035,101 - 141,040,656 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	7	141,035,111 - 141,040,656 (+)	Ensembl
GRCm38	7	141,455,188 - 141,460,743 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	7	141,455,198 - 141,460,743 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	7	148,641,087 - 148,646,642 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	7	141,306,527 - 141,311,414 (+)	NCBI			mm8
Celera	7	141,248,977 - 141,254,535 (+)	NCBI		Celera
Cytogenetic Map	7	F5	NCBI

Pnpla2
(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_004955476	11,303,843 - 11,309,181 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955476	11,304,660 - 11,309,755 (-)	NCBI	ChiLan1.0	ChiLan1.0

PNPLA2
(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	11	883,279 - 887,258 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	11	881,934 - 886,896 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	11	838,339 - 844,035 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

PNPLA2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	18	45,182,569 - 45,187,937 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	18	45,182,566 - 45,187,268 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	18	43,849,713 - 43,854,935 (+)	NCBI
ROS_Cfam_1.0	18	45,847,672 - 45,852,617 (+)	NCBI
UMICH_Zoey_3.1	18	45,312,419 - 45,317,644 (+)	NCBI
UNSW_CanFamBas_1.0	18	44,877,261 - 44,882,484 (+)	NCBI
UU_Cfam_GSD_1.0	18	45,615,387 - 45,620,610 (+)	NCBI

Pnpla2
(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_024404947	580,773 - 585,949 (+)	NCBI
SpeTri2.0	NW_004936888	580,773 - 585,949 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PNPLA2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	513,076 - 518,187 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	513,065 - 517,962 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	156,833 - 161,266 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PNPLA2
(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	1	626,060 - 631,556 (+)	NCBI
Vero_WHO_p1.0	NW_023666038	97,715,973 - 97,721,418 (+)	NCBI

Pnpla2
(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_004624766	21,692,023 - 21,697,018 (-)	NCBI

Position Markers

RH133487

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	196,557,567 - 196,557,761 (+)	MAPPER
Rnor_6.0	1	214,439,483 - 214,439,676	NCBI	Rnor6.0
Rnor_6.0	1	214,002,577 - 214,002,770	NCBI	Rnor6.0
Rnor_5.0	1	220,919,806 - 220,919,999	UniSTS	Rnor5.0
Rnor_5.0	1	221,356,595 - 221,356,788	UniSTS	Rnor5.0
RGSC_v3.4	1	201,646,784 - 201,646,977	UniSTS	RGSC3.4
Celera	1	194,191,064 - 194,191,257	UniSTS
Cytogenetic Map	1	q41	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
10059597	Bp377	Blood pressure QTL 377	3.42	0.025	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	35377692	217372257	Rat
634314	Niddm44	Non-insulin dependent diabetes mellitus QTL 44			blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	49578693	217054291	Rat
1578780	Cm52	Cardiac mass QTL 52	3.3	0.0001	heart mass (VT:0007028)	heart wet weight (CMO:0000069)	1	82788437	239853971	Rat
1331749	Hrtrt11	Heart rate QTL 11	2.973		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	1	99983293	216213510	Rat
70209	Niddm23	Non-insulin dependent diabetes mellitus QTL 23	2.82		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	99983293	216325819	Rat
731168	Bp154	Blood pressure QTL 154	3.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	100131562	236763528	Rat
1354591	Cm36	Cardiac mass QTL 36	4.1		heart left ventricle mass (VT:0007031)	calculated heart weight (CMO:0000073)	1	108986301	219232156	Rat
1354615	Cm32	Cardiac mass QTL 32	5.2		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	1	108986301	219232156	Rat
1354606	Bp246	Blood pressure QTL 246	3.6		arterial blood pressure trait (VT:2000000)	pulse pressure (CMO:0000292)	1	108986301	238830534	Rat
7794788	Mcs32	Mammary carcinoma susceptibility QTL 32	2.61		mammary gland integrity trait (VT:0010552)	mammary tumor incidence/prevalence measurement (CMO:0000946)	1	122614824	262664716	Rat
7421630	Bp362	Blood pressure QTL 362		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	125875758	262433692	Rat
631205	Bp196	Blood pressure QTL 196	4	0.0001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	126240667	217054291	Rat
631549	Bp89	Blood pressure QTL 89	5.7		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	130779320	219238476	Rat
724562	Rends1	Renal damage susceptibility QTL 1		0.05	kidney glomerulus integrity trait (VT:0010546)	index of glomerular damage (CMO:0001135)	1	137787261	236763528	Rat
61341	Bp26	Blood pressure QTL 26			arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	137787261	236763528	Rat
7771612	Cm80	Cardiac mass QTL 80	8.4		heart left ventricle mass (VT:0007031)	heart left ventricle weight (CMO:0000776)	1	144634295	241482368	Rat
1598853	Memor3	Memory QTL 3	4.5		exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	1	153834077	232297227	Rat
61348	Bp30	Blood pressure QTL 30	2.4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	154337847	215828102	Rat
737828	Hcas3	Hepatocarcinoma susceptibility QTL 3	4.9		liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	1	156446196	243311614	Rat
2302378	Insul11	Insulin level QTL 11	3.25		blood insulin amount (VT:0001560)	serum insulin level (CMO:0000358)	1	156446196	274977688	Rat
724531	Uae5	Urinary albumin excretion QTL 5	4		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	1	161321152	273792054	Rat
1578759	Uae30	Urinary albumin excretion QTL 30	3.3	0.003	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	1	161321256	273791893	Rat
1578778	Pur4	Proteinuria QTL 4	3.3	0.003	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	1	161321256	273791893	Rat
1354634	Kidm12	Kidney mass QTL 12	3.9		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	1	161784169	219232156	Rat
1354636	Lmblg1	Limb length QTL 1	6.4		tibia length (VT:0004357)	tibia length (CMO:0000450)	1	161784169	219232156	Rat
1354602	Bw35	Body weight QTL 35	12.2		body mass (VT:0001259)	body weight (CMO:0000012)	1	161784169	219232156	Rat
1354620	Kidm19	Kidney mass QTL 19	4		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	161784169	219232156	Rat
1354646	Kidm18	Kidney mass QTL 18	5.7		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	161784169	278228889	Rat
1354661	Bw33	Body weight QTL 33	5.2		body mass (VT:0001259)	body weight (CMO:0000012)	1	161784169	278228889	Rat
1354610	Bw34	Body weight QTL 34	4.1		body mass (VT:0001259)	body weight (CMO:0000012)	1	161784169	278228889	Rat
1358886	Bp260	Blood pressure QTL 260	3.67		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	161784422	246226103	Rat
1549837	Hcar15	Hepatocarcinoma resistance QTL 15		0.05	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	163796316	282763074	Rat
1354618	Kidm15	Kidney mass QTL 15	5		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	1	167394665	219232156	Rat
2312420	Pur17	Proteinuria QTL 17	7.1	0.0001	urine protein amount (VT:0005160)	urine total protein excretion rate (CMO:0000756)	1	167394665	238830534	Rat
1354580	Scort1	Serum corticosterone level QTL 1	3.4		blood corticosterone amount (VT:0005345)	blood corticosterone level (CMO:0001172)	1	167394665	278228889	Rat
2303622	Vencon6	Ventilatory control QTL 6		0.001	respiration trait (VT:0001943)	respiration rate (CMO:0000289)	1	169971964	214971964	Rat
2292222	Bp307	Blood pressure QTL 307	3.06	0.0014	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	174905700	233490237	Rat
2292220	Bp306	Blood pressure QTL 306	3.47	0.00087	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	174905700	264802994	Rat
619613	Bp77	Blood pressure QTL 77		0.01	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	175447029	220447029	Rat
619613	Bp77	Blood pressure QTL 77		0.01	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	175447029	220447029	Rat
61347	Bp197	Blood pressure QTL 197	4.2		arterial blood pressure trait (VT:2000000)	blood pressure measurement (CMO:0000003)	1	175462885	220462885	Rat
619614	Bp78	Blood pressure QTL 78		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	184419946	215097919	Rat
619614	Bp78	Blood pressure QTL 78		0.001	arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	1	184419946	215097919	Rat
1354653	Despr9	Despair related QTL 9		0.00019	locomotor behavior trait (VT:0001392)	amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)	1	185390068	230390068	Rat
1358294	Bw37	Body weight QTL 37	5	0.000011	body mass (VT:0001259)	body weight (CMO:0000012)	1	188850303	233850303	Rat
2300161	Bmd43	Bone mineral density QTL 43	8.4	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	1	189170900	234170900	Rat
2300174	Bmd42	Bone mineral density QTL 42	8.4	0.0001	lumbar vertebra mineral mass (VT:0010511)	bone mineral density (CMO:0001226)	1	189170900	234170900	Rat
2300187	Bmd41	Bone mineral density QTL 41	8.9	0.0001	femur mineral mass (VT:0010011)	volumetric bone mineral density (CMO:0001553)	1	189170900	234170900	Rat
2293654	Bss30	Bone structure and strength QTL 30	32.65	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	1	189170900	234170900	Rat
2293673	Bss27	Bone structure and strength QTL 27	18.63	0.0001	femur morphology trait (VT:0000559)	femur midshaft cortical cross-sectional area (CMO:0001663)	1	189170900	234170900	Rat
2293677	Bss41	Bone structure and strength QTL 41	9.38	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra cross-sectional area (CMO:0001689)	1	189170900	234170900	Rat
2293689	Bss47	Bone structure and strength QTL 47	7.25	0.0001	lumbar vertebra size trait (VT:0010518)	lumbar vertebra trabecular cross-sectional area (CMO:0001692)	1	189170900	234170900	Rat
2293693	Bss22	Bone structure and strength QTL 22	33.52	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	1	189170900	234170900	Rat
70163	Bw20	Body weight QTL 20	5.1		body mass (VT:0001259)	body weight (CMO:0000012)	1	189514504	234514504	Rat
1549830	Bss1	Bone structure and strength QTL 1	4.8		femur strength trait (VT:0010010)	femur ultimate force (CMO:0001675)	1	190282646	235282646	Rat
738032	Hcas5	Hepatocarcinoma susceptibility QTL 5	3.12		liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	191825895	279986079	Rat
1354652	Kidm20	Kidney mass QTL 20	4.3		kidney mass (VT:0002707)	calculated kidney weight (CMO:0000160)	1	192639698	278228889	Rat
1354624	Cm35	Cardiac mass QTL35	5.7		heart left ventricle mass (VT:0007031)	calculated heart weight (CMO:0000073)	1	192639698	278228889	Rat
631214	Bw61	Body weight QTL61	3.4	0.0001	intramuscular adipose amount (VT:0010044)	intramuscular fat area (CMO:0001162)	1	193220385	238220385	Rat
634321	Hc1	Hypercalciuria QTL 1	2.91		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	1	193968438	261264776	Rat
1600380	Niddm70	Non-insulin dependent diabetes mellitus QTL 70	3.1	0.0008	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	1	194554354	239554354	Rat
10059600	Bp378	Blood pressure QTL 378	3.08	0.05	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	194872362	239872362	Rat
1600363	Hc6	Hypercalciuria QTL 6	2.7		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	1	195598053	265002735	Rat
1578763	Kidm29	Kidney mass QTL 29	3.3	0.0001	kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	1	196395041	282763074	Rat
1558658	Bw59	Body weight QTL 59	3.5	0.0003	body mass (VT:0001259)	body weight (CMO:0000012)	1	196738546	241738546	Rat
1302787	Stl25	Serum triglyceride level QTL 25	2.7	0.0073	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	1	197187728	230420772	Rat
6903303	Scl34	Serum cholesterol QTL 34	2.5	0.0033	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	1	197187728	238220385	Rat
737977	Bp160	Blood pressure QTL 160		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	197963658	242963658	Rat
634312	Bp143	Blood pressure QTL 143	3	0.0002	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	198446729	240017341	Rat
724559	Pancm1	Pancreatic morphology QTL 1	7.1		islet of Langerhans morphology trait (VT:0005215)	pancreatic islet damage composite score (CMO:0001156)	1	198585664	236763415	Rat
2293083	Iddm25	Insulin dependent diabetes mellitus QTL 25	4.18		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	198655722	244992610	Rat
1300145	Rf7	Renal function QTL 7	2.96		urine creatinine amount (VT:0010540)	urine creatinine level (CMO:0000125)	1	201146802	241482368	Rat
1359018	Hrtrt20	Heart rate QTL 20	3.08		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	1	201358068	221983732	Rat
2312564	Glom18	Glomerulus QTL 18	2.4	0.003	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	1	201358068	252480016	Rat
8655855	Arrd3	Age-related retinal degeneration QTL 3	3.07		lens clarity trait (VT:0001304)	cataract incidence/prevalence measurement (CMO:0001585)	1	202571665	264802994	Rat
8655655	Arrd2	Age-related retinal degeneration QTL 2	7.79		retinal layer morphology trait (VT:0003727)	percentage of study population developing retinopathy during a period of time (CMO:0002453)	1	202571665	264802994	Rat
631838	Niddm36	Non-insulin dependent diabetes mellitus QTL 36		0.01	insulin secretion trait (VT:0003564)	calculated pancreatic islet insulin release measurement (CMO:0001217)	1	205195290	250195290	Rat
1582206	Kidm33	Kidney mass QTL 33	6.9		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	1	205603081	244401301	Rat
6480780	Insul18	Insulin level QTL 18	4.11		blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	1	206950905	218614387	Rat
1358898	Bp255	Blood pressure QTL 255	3.6		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	208517798	266948272	Rat
631260	Tcas2	Tongue tumor susceptibility QTL 2	4.93		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	1	210019247	217054418	Rat
1358191	Ept10	Estrogen-induced pituitary tumorigenesis QTL 10	3.8		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	1	210360774	264802828	Rat
8552891	Epfw5	Epididymal fat weight QTL 5	4.4		epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	1	210652654	255652654	Rat
634338	Hcar4	Hepatocarcinoma resistance QTL 4	4.6		liver integrity trait (VT:0010547)	liver tumorous lesion number to liver area ratio (CMO:0001210)	1	210960636	236763528	Rat
10059590	Kidm44	Kidney mass QTL 44	3.42	0.025	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	1	210990171	255990171	Rat
1600388	Niddm67	Non-insulin dependent diabetes mellitus QTL 67	5.84	0.000004	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	213476630	278978026	Rat
1600395	Niddm69	Non-insulin dependent diabetes mellitus QTL 69	4.14	0.0002	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	1	213476630	278978026	Rat
1600396	Niddm68	Non-insulin dependent diabetes mellitus QTL 68	4.97	0.0003	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	1	213476630	278978026	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	177
Count of miRNA genes:	119
Interacting mature miRNAs:	143
Transcripts:	ENSRNOT00000025319, ENSRNOT00000025826
Prediction methods:	Microtar, 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

	musculoskeletal system	reproductive system	respiratory system
High
Medium
Low
Below cutoff	1	5	1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001108509	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC109542	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473953	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CK470716	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CV120368	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DW319842	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000044	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000025319 ⟹ ENSRNOP00000025319

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	1	214,434,626 - 214,439,720 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000025826 ⟹ ENSRNOP00000025826

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	1	213,997,709 - 214,002,815 (+)	Ensembl

RefSeq Acc Id:

NM_001108509 ⟹ NP_001101979

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	1	196,552,723 - 196,557,805 (+)	NCBI
Rnor_6.0	1	214,434,638 - 214,439,720 (+)	NCBI
Rnor_5.0	1	220,914,961 - 220,920,043 (+)	NCBI
RGSC_v3.4	1	201,641,939 - 201,647,021 (+)	RGD
Celera	1	194,186,305 - 194,191,301 (+)	RGD

Sequence:

show sequence

TCACCCCGCACTAAAACACCTCCTCCTCTGCCTCCCGGCACAGCGTCTCCGCCTCCGCCGGCGG
GGACCCCAGGTTATCAAGACTGCGGGACCCACTGCCCGCAGGACGTCTAATCACGATGTTCCCA
AGGGAGACCAAGTGGAACATCTCGTTCGCTGGCTGCGGCTTCCTCGGGGTCTACCACATTGGAG
TGGCCTCCTGCCTCCGTGAGCACGCGCCCTTCCTGGTGGCCAACGCCACTCACATCTACGGAGC
CTCGGCAGGGGCGCTTACCGCCACAGCGCTGGTCACTGGGGCCTGCCTGGGCGAAGCGGGTGCC
AACATTATTGAGGTGTCCAAGGAGGCTCGGAAGCGGTTCCTGGGTCCCCTGCACCCCTCCTTCA
ACCTGGTAAAGACCATCCGTGGTTGTCTACTGAAGACCCTGCCTGCTGATTGCCACACGCGTGC
CAGCGGACGCCTGGGCATCTCCCTGACTCGAGTTTCGGATGGAGAGAATGTCATCATATCGCAC
TTTAGCTCCAAGGATGAGCTTATCCAGGCCAATGTTTGCAGCACTTTTATCCCTGTGTACTGTG
GCCTCATTCCTCCTACCCTTCAAGGGGTGCGCTATGTGGATGGCGGCATTTCAGACAACTTGCC
ACTTTATGAGCTGAAGAATACCATCACAGTGTCCCCATTCTCAGGCGAGAGTGACATCTGCCCA
CAAGACAGCTCCACCAACATCCACGAACTTCGTATCACCAACACCAGCATCCAATTCAACCTGC
GCAATCTCTACCGCCTCTCGAAGGCTCTCTTCCCGCCAGAGCCCATGGTTCTCCGAGAGATGTG
CAAACAGGGCTACCGAGATGGACTTCGATTCCTTAGGAGGAATGGCCTACTGAACCAACCCAAC
CCTTTGCTGGCACTGCCCCCGGTTGTCCCCCAGGAAGAGGATGCAGAGGAAGCTGCCGTGACTG
AGGAGAGGACTGGAGGGGAGGATCGGATTCTAGAGCACCTGCCTGCCAGACTCAACGAGGCCCT
GCTGGAGGCCTGTGTGGAACCGAAAGACCTGATGACCACCCTTTCCAACATGCTGCCAGTGCGC
CTGGCCACTGCCATGATGGTACCCTATACTCTGCCACTGGAGAGCGCAGTGTCCTTCACCATCC
GTTTGTTGGAGTGGCTGCCTGATGTCCCTGAGGATATCCGGTGGATGAAGGAGCAGACAGGTAG
CATCTGCCAGTATCTGGTGATGAGGGCCAAGAGGAAATTGGGTGACCATCTACCTTCCAGACTG
TCTGAGCAGGTGGAGCTGCGGCGTGCCCAGTCTCTGCCGTCTGTGCCACTGTCTTGCGCCACCT
ACAGTGAGGCACTGCCCAACTGGGTACGAAACAACCTCTCACTGGGGGACGCGCTGGCCAAGTG
GGAAGAATGCCAGCGTCAGCTACTGCTGGGTCTCTTCTGCACCAATGTGGCCTTCCCGCCTGAT
GCCTTGCGCATGCGCGCACCTGCCAGCCCCACCGCCACAGATCCTGCCACCCCACAGGATCCAT
CTGGCCTCCCACCTTGCTGAGAACCATCATTCTCGGCTCACCCGGCTACCAGCCAAGCTCCAAG
GTGTCCTGCCCCACTCAGAGGAGCCCTGGGGTGGAATAAGACCTCTGTCCCCTGGCTCTCCCCC
CTTACATGCTGTGGAATGAGGACACAGGACCCTGCACAGCTGCAAGTGGGTTTTTGATGGGAAA
CCTTTCACCAGCCACTCACAATGCTACTCCTGGTGGGGAGGGATGAGGAGTAACCCTCCCCCTC
ACCTGTGCCTTACCGTTCACCTTTTCAGTGCAGGGTCAGTCTTAAGAACTCCACATCTGCTGCT
TCTCCCTGTTTTTCAAGTTTCCTTGCAGAGTACATGAAGAATTATTTATTATTGCCAAAGCAGA
TATAATAAAAGCCACAGCTTAGCCTCGGCCGTCCTCACTTCTGCATGTCACTCTTGCCTCTGAC
TTGGGCAGCAGACACTTTCTCCCAGTGGACCGAGGACCTGTGTCTCAGTATCTGACAGTTGGGC
TTCACAGGGTTCTCTAAGTCCTGGCAGCTGGGGACCCTCTCCTATGGTCAGCCCTCTGGCAAGG
ATGTGTGTAAGCCGCTCTGTTTTCCCCAGGCTTGCTGACTGCCTCTTGGGCAGCGTTTAAGGGT
CAGTTTGGGAGTTTGAGACCCTTAGTATTAATAAAAACTAAAACGTTGGGCTCGA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001101979	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDM12061	(Get FASTA)	NCBI Sequence Viewer
	EDM12062	(Get FASTA)	NCBI Sequence Viewer
	EDM12063	(Get FASTA)	NCBI Sequence Viewer
	EDM12064	(Get FASTA)	NCBI Sequence Viewer
	EDM12065	(Get FASTA)	NCBI Sequence Viewer
	EDM12066	(Get FASTA)	NCBI Sequence Viewer
	P0C548	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001101979 ⟸ NM_001108509

- UniProtKB:

P0C548 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MFPRETKWNISFAGCGFLGVYHIGVASCLREHAPFLVANATHIYGASAGALTATALVTGACLGE
AGANIIEVSKEARKRFLGPLHPSFNLVKTIRGCLLKTLPADCHTRASGRLGISLTRVSDGENVI
ISHFSSKDELIQANVCSTFIPVYCGLIPPTLQGVRYVDGGISDNLPLYELKNTITVSPFSGESD
ICPQDSSTNIHELRITNTSIQFNLRNLYRLSKALFPPEPMVLREMCKQGYRDGLRFLRRNGLLN
QPNPLLALPPVVPQEEDAEEAAVTEERTGGEDRILEHLPARLNEALLEACVEPKDLMTTLSNML
PVRLATAMMVPYTLPLESAVSFTIRLLEWLPDVPEDIRWMKEQTGSICQYLVMRAKRKLGDHLP
SRLSEQVELRRAQSLPSVPLSCATYSEALPNWVRNNLSLGDALAKWEECQRQLLLGLFCTNVAF
PPDALRMRAPASPTATDPATPQDPSGLPPC

hide sequence

RefSeq Acc Id:

ENSRNOP00000025319 ⟸ ENSRNOT00000025319

RefSeq Acc Id:

ENSRNOP00000025826 ⟸ ENSRNOT00000025826

Protein Domains

PNPLA

Transcriptome

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

Promoters

RGD ID:

13690546

Promoter ID:

EPDNEW_R1070

Type:

initiation region

Name:

Pnpla2_1

Description:

patatin-like phospholipase domain containing 2

SO ACC ID:

SO:0000170

Source:

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

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	1	214,434,677 - 214,434,737	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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CSV

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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

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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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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

BN/SsN (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

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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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

F344/NRrrc (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

FHH/EurMcwi (MCW)

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CSV

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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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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

FHL/EurMcwi (MCW)

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CSV

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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

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

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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

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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

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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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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

LH/MavRrrc (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

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

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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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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

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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:1309044	AgrOrtholog
	RGD:6492173	AgrOrtholog
Ensembl Genes	ENSRNOG00000018736	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOG00000047551	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000025319	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOP00000025826	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000025319	ENTREZGENE, UniProtKB/Swiss-Prot
	ENSRNOT00000025826	UniProtKB/Swiss-Prot
InterPro	Acyl_Trfase/lysoPLipase	UniProtKB/Swiss-Prot
	PLPL	UniProtKB/Swiss-Prot
	PNPLA2	UniProtKB/Swiss-Prot
	PNPLA_dom	UniProtKB/Swiss-Prot
KEGG Report	rno:100911615	UniProtKB/Swiss-Prot
	rno:361676	UniProtKB/Swiss-Prot
NCBI Gene	361676	ENTREZGENE
PANTHER	PTHR12406	UniProtKB/Swiss-Prot
Pfam	Patatin	UniProtKB/Swiss-Prot
PhenoGen	Pnpla2	PhenoGen
PROSITE	PNPLA	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF52151	UniProtKB/Swiss-Prot
UniProt	P0C548	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-03-09	Pnpla2	patatin-like phospholipase domain containing 2	LOC100911615	patatin-like phospholipase domain-containing protein 2-like	Data Merged	737654	PROVISIONAL
2012-07-05	LOC100911615	patatin-like phospholipase domain-containing protein 2-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2008-04-30	Pnpla2	patatin-like phospholipase domain containing 2	Pnpla2_predicted	patatin-like phospholipase domain containing 2 (predicted)	'predicted' is removed	2292626	APPROVED
2006-03-30	Pnpla2_predicted	patatin-like phospholipase domain containing 2 (predicted)	RGD1309044_predicted	similar to RIKEN cDNA 0610039C21 (predicted)	Symbol and Name updated	1299863	APPROVED
2005-01-20	RGD1309044_predicted	similar to RIKEN cDNA 0610039C21 (predicted)	LOC361676_predicted		Symbol and Name status set to approved	1331353	APPROVED
2005-01-12	LOC361676_predicted	similar to RIKEN cDNA 0610039C21 (predicted)			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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