Pla2g4d (phospholipase A2 group IVD)

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Gene: Pla2g4d (phospholipase A2 group IVD) Rattus norvegicus

Analyze

Symbol:

Pla2g4d

Name:

phospholipase A2 group IVD

RGD ID:

1593372

Description:

Predicted to have calcium-dependent phospholipase A2 activity. Predicted to be involved in glycerophospholipid catabolic process. Predicted to localize to cytoplasm. Orthologous to human PLA2G4D (phospholipase A2 group IVD); INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A; 1,2-dimethylhydrazine (ortholog).

Type:

protein-coding

RefSeq Status:

MODEL

Also known as:

cytosolic phospholipase A2 delta; LOC311342; LOC691905; phospholipase A2, group IVD; phospholipase A2, group IVD (cytosolic); similar to cytosolic phospholipase A2 delta

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	PLA2G4D (phospholipase A2 group IVD)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Pla2g4d (phospholipase A2, group IVD)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Pla2g4d (phospholipase A2 group IVD)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	PLA2G4D (phospholipase A2 group IVD)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	PLA2G4D (phospholipase A2 group IVD)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Pla2g4d (phospholipase A2 group IVD)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	PLA2G4D (phospholipase A2 group IVD)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	PLA2G4D (phospholipase A2 group IVD)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Pla2g4d (phospholipase A2 group IVD)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Pla2g4d (phospholipase A2, group IVD)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Homo sapiens (human):	PLA2G4D (phospholipase A2 group IVD)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	pla2g4f.1 (phospholipase A2, group IVF, tandem duplicate 1)	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|TreeFam)
Danio rerio (zebrafish):	pla2g4f.2 (phospholipase A2, group IVF, tandem duplicate 2)	Alliance	DIOPT (InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Saccharomyces cerevisiae (baker's yeast):	PLB1	Alliance	DIOPT (OrthoInspector\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	PLB2	Alliance	DIOPT (OrthoInspector\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	PLB3	Alliance	DIOPT (OrthoInspector\|PANTHER\|PhylomeDB)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	107,220,973 - 107,242,224 (-)	NCBI
Rnor_6.0 Ensembl	3	112,041,533 - 112,061,796 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	3	112,040,827 - 112,061,847 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	3	118,589,300 - 118,609,563 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	106,758,373 - 106,778,915 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	3	106,129,471 - 106,150,773 (-)	NCBI		Celera
Cytogenetic Map	3	q35	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

1,2-dimethylhydrazine (ISO)

17beta-estradiol (ISO)

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

2-hydroxypropanoic acid (ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

aflatoxin B1 (ISO)

aflatoxin B2 (ISO)

arsane (ISO)

arsenic atom (ISO)

benzo[a]pyrene (ISO)

bis(2-chloroethyl) sulfide (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

paracetamol (ISO)

paraquat (ISO)

perfluorooctane-1-sulfonic acid (ISO)

perfluorooctanoic acid (ISO)

pirinixic acid (ISO)

rac-lactic acid (ISO)

sodium arsenate (ISO)

triclosan (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

glycerophospholipid catabolic process (IBA,ISO)

Cellular Component

cytoplasm (ISO)

cytosol (IBA)

Molecular Function

calcium ion binding (IBA)

calcium-dependent phospholipase A2 activity (IBA,ISO)

calcium-dependent phospholipid binding (IBA)

phospholipase A2 activity (IBA,ISO)

phospholipase A2 activity (consuming 1,2-dipalmitoylphosphatidylcholine) (IEA)

phospholipase A2 activity consuming 1,2-dioleoylphosphatidylethanolamine) (IEA)

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.	RGD automated data pipeline
3.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:14709560	PMID:15866882

Genomics

Comparative Map Data

Pla2g4d
(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	107,220,973 - 107,242,224 (-)	NCBI
Rnor_6.0 Ensembl	3	112,041,533 - 112,061,796 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	3	112,040,827 - 112,061,847 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	3	118,589,300 - 118,609,563 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	106,758,373 - 106,778,915 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	3	106,129,471 - 106,150,773 (-)	NCBI		Celera
Cytogenetic Map	3	q35	NCBI

PLA2G4D
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	15	42,067,009 - 42,094,562 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	15	42,067,009 - 42,094,562 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	15	42,359,207 - 42,386,760 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	15	40,147,173 - 40,174,044 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	15	40,146,498 - 40,151,368	NCBI
Celera	15	19,127,581 - 19,154,452 (-)	NCBI
Cytogenetic Map	15	q15.1	NCBI
HuRef	15	19,207,893 - 19,235,242 (-)	NCBI		HuRef
CHM1_1	15	42,478,319 - 42,505,190 (-)	NCBI		CHM1_1

Pla2g4d
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	120,096,347 - 120,119,678 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	2	120,096,076 - 120,119,678 (-)	Ensembl
GRCm38	2	120,265,866 - 120,289,069 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	120,265,595 - 120,289,197 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	120,091,605 - 120,114,805 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	2	119,957,310 - 119,980,510 (-)	NCBI			mm8
Celera	2	121,420,286 - 121,443,397 (-)	NCBI		Celera
Cytogenetic Map	2	E5	NCBI

Pla2g4d
(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_004955416	8,841,954 - 8,860,353 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955416	8,841,645 - 8,860,381 (-)	NCBI	ChiLan1.0	ChiLan1.0

PLA2G4D
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	15	39,182,100 - 39,208,996 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	15	39,182,100 - 39,208,996 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	15	21,021,875 - 21,048,848 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

PLA2G4D
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	30	9,092,001 - 9,115,363 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	30	9,091,147 - 9,115,090 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Pla2g4d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936471	5,386,762 - 5,409,165 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PLA2G4D
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	129,247,024 - 129,272,496 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	1	129,251,495 - 129,270,952 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	144,183,508 - 144,207,704 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PLA2G4D
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	26	40,895,718 - 40,923,092 (+)	NCBI
ChlSab1.1 Ensembl	26	40,897,660 - 40,922,031 (+)	Ensembl

Pla2g4d
(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_004624804	9,238,057 - 9,256,503 (-)	NCBI

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
1358885	Bp251	Blood pressure QTL 251	3.8		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	10639528	127023997	Rat
1358888	Bp264	Blood pressure QTL 264	4.43		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	10639528	127023997	Rat
737818	Hcar12	Hepatocarcinoma resistance QTL 12	2.6		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	3	30114912	123700444	Rat
70216	Cm14	Cardiac mass QTL 14	2.1		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	30846101	172879276	Rat
1358362	Srcrt2	Stress Responsive Cort QTL 2	2.78		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	3	39248391	140271184	Rat
2301970	Bw81	Body weight QTL 81	5.19		body mass (VT:0001259)	body weight (CMO:0000012)	3	43295930	163640485	Rat
2301971	Cm71	Cardiac mass QTL 71	4.63		heart left ventricle mass (VT:0007031)	heart left ventricle weight (CMO:0000776)	3	43295930	163640485	Rat
1581503	Cm58	Cardiac mass QTL 58	2.7	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	45406058	127023997	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
2292591	Esta4	Estrogen-induced thymic atrophy QTL 4			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	3	48561928	155263151	Rat
1358186	Ept2	Estrogen-induced pituitary tumorigenesis QTL 2	8.3		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	3	48562146	115249962	Rat
2292613	Ept16	Estrogen-induced pituitary tumorigenesis QTL 16	8.3		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	3	48562146	115249962	Rat
631665	Bw8	Body weight QTL 8	5.5		body mass (VT:0001259)	body weight (CMO:0000012)	3	51821836	124513579	Rat
724523	Tsu1	Thymus enlargement suppressive QTL 1	3.84		thymus mass (VT:0004954)	thymus weight to body weight ratio (CMO:0000612)	3	51822008	120917851	Rat
1582218	Bw74	Body weight QTL 74	3.9	0.0021	body mass (VT:0001259)	body weight (CMO:0000012)	3	54630948	119830094	Rat
1582238	Bw68	Body weight QTL 68	3.2	0.0064	body mass (VT:0001259)	body weight (CMO:0000012)	3	54630948	119830094	Rat
1582239	Epfw1	Epididymal fat weight QTL 1	4.5	0.0006	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	3	54630948	119830094	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
8662816	Vetf4	Vascular elastic tissue fragility QTL 4	4		renal artery integrity trait (VT:0010642)	number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)	3	61241033	165369047	Rat
1300111	Rf12	Renal function QTL 12	3.78		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	3	62922868	127023997	Rat
1582221	Kidm30	Kidney mass QTL 30	3.5	0.0008	kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	3	66711607	119830094	Rat
1582210	Bw71	Body weight QTL 71	3.3	0.0012	body mass (VT:0001259)	body weight (CMO:0000012)	3	66711607	119830094	Rat
12879848	Bw181	Body weght QTL 181		0.015	body mass (VT:0001259)	body weight (CMO:0000012)	3	72672290	127023997	Rat
2301414	Kidm37	Kidney mass QTL 37		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	72973445	127023997	Rat
1600376	Arunc5	Aerobic running capacity QTL 5		0.21	exercise endurance trait (VT:0002332)	maximum distance run on treadmill (CMO:0001406)	3	78700444	123700444	Rat
1581546	Pur13	Proteinuria QTL 13	2.93	0.0335	total urine protein amount (VT:0000032)	urine protein excretion rate (CMO:0000759)	3	81136227	154416635	Rat
2302273	Gluco35	Glucose level QTL 35	5.3	0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	83817637	119509260	Rat
7387306	Bw124	Body weight QTL 124	3.2	0.0003	body mass (VT:0001259)	body weight (CMO:0000012)	3	88910015	133910015	Rat
631649	Bp123	Blood pressure QTL 123	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	94788365	139788365	Rat
8694437	Bw167	Body weight QTL 167	22.46	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	3	97009185	142009185	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
1582219	Bw63	Body weight QTL 63	3.8	0.001	body mass (VT:0001259)	body weight (CMO:0000012)	3	100730984	119830094	Rat
724532	Cm17	Cardiac mass QTL 17	2		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	3	101058963	146058963	Rat
2293087	Iddm27	Insulin dependent diabetes mellitus QTL 27	2.68		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	102152812	155263151	Rat
1354611	Despr2	Despair related QTL 2	3.03	0.0028	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	3	102466149	147466149	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
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
1582216	Bw65	Body weight QTL 65	6.3		body mass (VT:0001259)	body weight (CMO:0000012)	3	106900427	119830094	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	139
Count of miRNA genes:	111
Interacting mature miRNAs:	119
Transcripts:	ENSRNOT00000056258
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

	alimentary part of gastrointestinal system	endocrine system	hemolymphoid system	nervous system	renal system	reproductive system	respiratory system
High
Medium
Low							7
Below cutoff	1	5	6	34	4	21

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_001080051	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JACYVU010000118	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000056258 ⟹ ENSRNOP00000053100

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	3	112,041,533 - 112,061,796 (-)	Ensembl

RefSeq Acc Id:

XM_001080051 ⟹ XP_001080051

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	107,220,973 - 107,242,224 (-)	NCBI
Rnor_6.0	3	112,040,827 - 112,061,847 (-)	NCBI
Rnor_5.0	3	118,589,300 - 118,609,563 (-)	NCBI
RGSC_v3.4	3	106,758,373 - 106,778,915 (-)	RGD

Sequence:

show sequence

ACAACTGGACTCTGCATCCAGCCAGGGAACTGGCTTCTTGGCAGGAGTTGGATGTGGAGTGGAG
ATAGAAGAGTTGTCATGGAGAGCCTGTCACCTGAGAGACTACCTGTCTATCCTCGCCAGGAGGA
GGCCTCTGTCTTCTGCCAGCTCACTGTGAAAATCCTGGAGGCTCGGAGTCTGCCCAGGGCTGAC
CTGTTGAGCAAGGCCGATCCATATGTGACTCTGCGACTGCCAACAGCTTCTGGAAGGAAATTCA
AGACGCAAACAGTCACCAACTCCAGTAATCCTGTGTGGAACGAGACCTTCAGTTTCCTCATCCA
GAGTCAGGTCAAGAATATTCTAGAACTGACTGTCTATGACGAAGACTTAATTACGAAAGATGAC
ATCTGTTTCAAGATTTCTTATGATATCTCAGAAATCCTCCCTGGACAACTGGTCCAGAAAACCT
TCAGCCTGAATCCTCAGGGACCAGAAGAGTTAGACGTGGAGTTCCTGGTGGAAAGAACGTGCGA
CCCTCCAGAAAACCTCATCACCAACAATGTTCTTGTGGCCCGAGAACTGTCACACCTGGATGTC
TCCCTGGACAGAGCTGGAAGCACCACCATGGCAGCAGGTCAGGACAAACTAGAGCTGGAGCTTA
TGCTGAAGGGGTCGTATGAGGACACACAGACATTTTTACCGGACACAGCTTTTACCCTCAGCTT
CCACTACATGAGGAGCCAAGACACAGAGCTGAACGGGTACCTGAGGAGCTCCAGAAACAGTGAC
TGGAACTCAGATACCTCAGCAACACCTTTCAATGTACCCCTGACGTTGTTGGCTGCAGGGAAGG
AGGTGACCGTAGACATTCCTGCTACAAAGGATCCAGAAAGGAAGCTGCAACTTAAGACAGACAG
TTGCCCTAAGGAGCTGTCTGTGCGGCTGAGCTATGGGCTCTGTCCCGAGGAGCAGGCCTTCCTA
GGCAGGAGGAAAAAGCTGGTTGCTGCTGCCCTGAAGCAGGCTCTGCAACTGGATGAAGACTTGA
AAGAAGATGAGGTCCCTGTTGTGGGCATCAACGCCGAGGGAGGAGGTATGCGGGCTATGATCTC
ACTCTACGGCCATCTATTGGCACTTCAGAAGTTGGGGCTCCTGGACTGTGTGACCTACTTCAGT
GGCATCTCTGGCGCTACATGGACAATGGCCCACCTGTACCGGGACCCAGAGTGGTCACAGAAGG
ACCTTGAGGGACCCATCAGTCATGCCAGGGAGCATGTGGCTAAAAGCCTGCTGAAGGAATTCCT
CCCCGAACACTTGGCAAGCTACCGTCAGACTCTGAAGCTTCGGGAAGAGCAGGGCTACACCGTC
ACCATAGCAGACCTGTGGGGCCTGGTGCTGGAGTCCAAGCTGCATGGGCAGGTGACAGATCAGA
AGCTGTCAGAACAGAGAGCTGCACTGGAGCGGGGTCAGAACCCTTTGCCTCTCTACTTGAGCCT
AAATGTCAAAGAGAACCATCTGGAGACCCTCCACTTTAAGGAGTGGGTGGAGTTCTCTCCCTAT
GAAGTTGGGTTCCTGAAATATGGAGGCTTCGTCCCTTCTGAGCTCTTTGGCTCGGAGTTCTTCA
TGGGACGGCTGATGAAGAGGCTTCCCGAGTCCCAGATTTGCTTTCTGGAAGGTATCTGGAGCAA
TCTTTTCTCTGTGAACTTGATGGATATCTGGTATGACATCACCTCTGGGAGAGACTCGAACGAT
TTCCCTGTGGATGTCCAGAACTCAGAGAAGGAGCCCTCATCCTCAGCAGGAGTCTCCTCTGGTG
TGGAGGCCCCATGGCTGCAGCCTGGAACAGCTCTGGCTCAGGCATTCAAGGGCTTTCTGACTGG
CAGGCCATTCAACCAGCGTAGTGCCAACTTCCTCCATGGTCTCCAGCTGCACCGGGACTACTGT
AACCAGAGAGACTTCTCCACCTGGGCAGATTGCAACCTAGATGACACCCCGAATCAGCTGACCC
CACAGGACCCTCAGCTCTGCCTAATTGATGCTGGCTGCTTCATGAACAGCAGCTGTCCCTCCCT
GTTCCGCTCAGGTCGCCAAGTGGACCTCATACTCTCCTTCAACTACAATCAGTCCTTTCCCTTT
AAGGGACTGCAGCAATCTGGGAAATACTGCAGCGCTCAGGGCCTGCCCTTCCCCCGTGTGGAGC
CCAGCCCTGAAGACCACCTCCAGCCCCAGGAATGTTACCTTTTCTCAGACCCCACCTGCCCGGA
AGCCCCAGCTGTGCTGCACTTCCCCCTGGTCAATGACTCCTTCCAGGACCACTCAGCCCCTGGT
GTCCGGCGCAGCCCTGATGAGCTCAAGGCTGGGCAGGTGGATCTCACAGGGGTCGCCTCCCCCT
ACTTCCTGTACAACATGACCTACAAGAACGAAGATTTTGACAGGTTGCTTCGGCTCTCTGAGTA
CAACATTCAGAACAACCAGGGCACTATCCTGCAGGCCCTGAAGACAGTTCTGAAACGGAGGGCT
TCAGAGACCAGGCCATTGGGAGTGAAGACATGAGGCTTCTCAGGGGGTCTCTGAGGCTCTGAAG
ACCACAATATGACCCTCCAACTTCCAAGGGCTTAACTCAGCCTGCAGCTAGGCACAGCTGCCTC
TGGCTGGAGCTCCCAGTTCTCCAAGTCTTGGGCTTCCATTGCAGCTAGTCTTGCCGCCCAGAGG
AGCTGTACCCCACTCTCCATTCTCTCCCTGGGTTTCTGGCTGGTCTGAGAGGAGTCGAAAACCT
CCCGTGACCAGTGCATAAGACACCTGACCACAGCAGGCTTTCATTGCCAATGGAGTTTGTTAAA
CAGTTTTTGTAGTTTAAACTTGAATCCTGCAATCTTCAACTTACTGACTTAAATATTTTTTGGT
GGACTCTTCAGGGTATTCAGTTATGGATCTTGCCTCTACAAAAGAGATGGTCTTCCTTCTTCCT
CCCTGATTCAAATGTGTTTTATTTCTTTTTCTGACTGAATTGCCCTGACTAGAACCCCTGACAT
TGGGTTCAACTGACCTGGCAAGAGCAGCCATCCTGGTTTTTATCCCTGGTGTGGAAGGAAAACA
TCAAGGCGTCCTACCATTTTGCTCTTCAGTCTTAAGTGGTTTTGGGTTTTGTCAGGTTGAAACC
GTTCAGTTCGGGCCCTAGTTTGTTGAGTGGTTTTGTTGTTGTTTATATCATAAAAAGGTATTGA
ATGTTGTCATGTAACTTTTGTGTCTATTGGGAAAA

hide sequence

RefSeq Acc Id:

XM_002726160 ⟹ XP_002726206

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Celera	3	106,129,471 - 106,150,773 (-)	NCBI

Sequence:

show sequence

ACAACTGGACTCTGCATCCAGCCAGGGAACTGGCTTCTTGGCAGGAGTTGGATGTGGAGTGGAG
ATAGAAGAGTTGTCATGGAGAGCCTGTCACCTGAGAGACTACCTGTCTATCCTCGCCAGGAGGA
GGCCTCTGTCTTCTGCCAGCTCACTGTGAAAATCCTGGAGGCTCGGAGTCTGCCCAGGGCTGAC
CTGTTGAGCAAGGCCGATCCATATGTGACTCTGCGACTGCCAACAGCTTCTGGAAGGAAATTCA
AGACGCAAACAGTCACCAACTCCAGTAATCCTGTGTGGAACGAGACCTTCAGTTTCCTCATCCA
GAGTCAGGTCAAGAATATTCTAGAACTGACTGTCTATGACGAAGACTTAATTACGAAAGATGAC
ATCTGTTTCAAGATTTCTTATGATATCTCAGAAATCCTCCCTGGACAACTGGTCCAGAAAACCT
TCAGCCTGAATCCTCAGGGACCAGAAGAGTTAGACGTGGAGTTCCTGGTGGAAAGAACGTGCGA
CCCTCCAGAAAACCTCATCACCAACAATGTTCTTGTGGCCCGAGAACTGTCACACCTGGATGTC
TCCCTGGACAGAGCTGGAAGCACCACCATGGCAGCAGGTCAGGACAAACTAGAGCTGGAGCTTA
TGCTGAAGGGGTCGTATGAGGACACACAGACATTTTTACCGGACACAGCTTTTACCCTCAGCTT
CCACTACATGAGGAGCCAAGACACAGAGCTGAACGGGTACCTGAGGAGCTCCAGAAACAGTGAC
TGGAACTCAGATACCTCAGCAACACCTTTCAATGTACCCCTGACGTTGTTGGCTGCAGGGAAGG
AGGTGACCGTAGACATTCCTGCTACAAAGGATCCAGAAAGGAAGCTGCAACTTAAGACAGACAG
TTGCCCTAAGGAGCTGTCTGTGCGGCTGAGCTATGGGCTCTGTCCCGAGGAGCAGGCCTTCCTA
GGCAGGAGGAAAAAGCTGGTTGCTGCTGCCCTGAAGCAGGCTCTGCAACTGGATGAAGACTTGA
AAGAAGATGAGGTCCCTGTTGTGGGCATCAACGCCGAGGGAGGAGGTATGCGGGCTATGATCTC
ACTCTACGGCCATCTATTGGCACTTCAGAAGTTGGGGCTCCTGGACTGTGTGACCTACTTCAGT
GGCATCTCTGGCGCTACATGGACAATGGCCCACCTGTACCGGGACCCAGAGTGGTCACAGAAGG
ACCTTGAGGGACCCATCAGTCATGCCAGGGAGCATGTGGCTAAAAGCCTGCTGAAGGAATTCCT
CCCCGAACACTTGGCAAGCTACCGTCAGACTCTGAAGCTTCGGGAAGAGCAGGGCTACACCGTC
ACCATAGCAGACCTGTGGGGCCTGGTGCTGGAGTCCAAGCTGCATGGGCAGGTGACAGATCAGA
AGCTGTCAGAACAGAGAGCTGCACTGGAGCGGGGTCAGAACCCTTTGCCTCTCTACTTGAGCCT
AAATGTCAAAGAGAACCATCTGGAGACCCTCCACTTTAAGGAGTGGGTGGAGTTCTCTCCCTAT
GAAGTTGGGTTCCTGAAATATGGAGGCTTCGTCCCTTCTGAGCTCTTTGGCTCGGAGTTCTTCA
TGGGACGGCTGATGAAGAGGCTTCCCGAGTCCCAGATTTGCTTTCTGGAAGGTATCTGGAGCAA
TCTTTTCTCTGTGAACTTGATGGATATCTGGTATGACATCACCTCTGGGAGAGACTCGAACGAT
TTCCCTGTGGATGTCCAGAACTCAGAGAAGGAGCCCTCATCCTCAGCAGGAGTCTCCTCTGGTG
TGGAGGCCCCATGGCTGCAGCCTGGAACAGCTCTGGCTCAGGCATTCAAGGGCTTTCTGACTGG
CAGGCCATTCAACCAGCGTAGTGCCAACTTCCTCCATGGTCTCCAGCTGCACCGGGACTACTGT
AACCAGAGAGACTTCTCCACCTGGGCAGATTGCAACCTAGATGACACCCCGAATCAGCTGACCC
CACAGGACCCTCAGCTCTGCCTAATTGATGCTGGCTGCTTCATGAACAGCAGCTGTCCCTCCCT
GTTCCGCTCAGGTCGCCAAGTGGACCTCATACTCTCCTTCAACTACAATCAGTCCTTTCCCTTT
AAGGGACTGCAGCAATCTGGGAAATACTGCAGCGCTCAGGGCCTGCCCTTCCCCCGTGTGGAGC
CCAGCCCTGAAGACCACCTCCAGCCCCAGGAATGTTACCTTTTCTCAGACCCCACCTGCCCGGA
AGCCCCAGCTGTGCTGCACTTCCCCCTGGTCAATGACTCCTTCCAGGACCACTCAGCCCCTGGT
GTCCGGCGCAGCCCTGATGAGCTCAAGGCTGGGCAGGTGGATCTCACAGGGGTCGCCTCCCCCT
ACTTCCTGTACAACATGACCTACAAGAACGAAGATTTTGACAGGTTGCTTCGGCTCTCTGAGTA
CAACATTCAGAACAACCAGGGCACTATCCTGCAGGCCCTGAAGACAGTTCTGAAACGGAGGGCT
TCAGAGACCAGGCCATTGGGAGTGAAGACATGAGGCTTCTCAGGGGGTCTCTGAGGCTCTGAAG
ACCACAATATGACCCTCCAACTTCCAAGGGCTTAACTCAGCCTGCAGCTAGGCACAGCTGCCTC
TGGCTGGAGCTCCCAGTTCTCCAAGTCTTGGGCTTCCATTGCAGCTAGTCTTGCCGCCCAGAGG
AGCTGTACCCCACTCTCCATTCTCTCCCTGGGTTTCTGGCTGGTCTGAGAGGAGTCGAAAACCT
CCCGTGACCAGTGCATAAGACACCTGACCACAGCAGGCTTTCATTGCCAATGGAGTTTGTTAAA
CAGTTTTTGTAGTTTAAACTTGAATCCTGCAATCTTCAACTTACTGACTTAAATATTTTTTGGT
GGACTCTTCAGGGTATTCAGTTATGGATCTTGCCTCTACAAAAGAGATGGTCTTCCTTCTTCCT
CCCTGATTCAAATGTGTTTTATTTCTTTTTCTGACTGAATTGCCCTGACTAGAACCCCTGACAT
TGGGTTCAACTGACCTGGCAAGAGCAGCCATCCTGGTTTTTATCCCTGGTGTGGAAGGAAAACA
TCAAGGCGTCCTACCATTTTGCTCTTCAGTCTTAAGTGGTTTTGGGTTTTGTCAGGTTGAAACC
GTTCAGTTCGGGCCCTAGTTTGTTGAGTGGTTTTGTTGTTGTTTATATCATAAAAAGGTATTGA
ATGTTGTCATGTAACTTTTGTGTCTATTGGGAAAA

hide sequence

Protein Sequences


Protein RefSeqs	XP_001080051	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

XP_002726206 ⟸ XM_002726160

- Sequence:

show sequence

MWSGDRRVVMESLSPERLPVYPRQEEASVFCQLTVKILEARSLPRADLLSKADPYVTLRLPTAS
GRKFKTQTVTNSSNPVWNETFSFLIQSQVKNILELTVYDEDLITKDDICFKISYDISEILPGQL
VQKTFSLNPQGPEELDVEFLVERTCDPPENLITNNVLVARELSHLDVSLDRAGSTTMAAGQDKL
ELELMLKGSYEDTQTFLPDTAFTLSFHYMRSQDTELNGYLRSSRNSDWNSDTSATPFNVPLTLL
AAGKEVTVDIPATKDPERKLQLKTDSCPKELSVRLSYGLCPEEQAFLGRRKKLVAAALKQALQL
DEDLKEDEVPVVGINAEGGGMRAMISLYGHLLALQKLGLLDCVTYFSGISGATWTMAHLYRDPE
WSQKDLEGPISHAREHVAKSLLKEFLPEHLASYRQTLKLREEQGYTVTIADLWGLVLESKLHGQ
VTDQKLSEQRAALERGQNPLPLYLSLNVKENHLETLHFKEWVEFSPYEVGFLKYGGFVPSELFG
SEFFMGRLMKRLPESQICFLEGIWSNLFSVNLMDIWYDITSGRDSNDFPVDVQNSEKEPSSSAG
VSSGVEAPWLQPGTALAQAFKGFLTGRPFNQRSANFLHGLQLHRDYCNQRDFSTWADCNLDDTP
NQLTPQDPQLCLIDAGCFMNSSCPSLFRSGRQVDLILSFNYNQSFPFKGLQQSGKYCSAQGLPF
PRVEPSPEDHLQPQECYLFSDPTCPEAPAVLHFPLVNDSFQDHSAPGVRRSPDELKAGQVDLTG
VASPYFLYNMTYKNEDFDRLLRLSEYNIQNNQGTILQALKTVLKRRASETRPLGVKT

hide sequence

RefSeq Acc Id:

XP_001080051 ⟸ XM_001080051

- UniProtKB:

D3ZQH6 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MWSGDRRVVMESLSPERLPVYPRQEEASVFCQLTVKILEARSLPRADLLSKADPYVTLRLPTAS
GRKFKTQTVTNSSNPVWNETFSFLIQSQVKNILELTVYDEDLITKDDICFKISYDISEILPGQL
VQKTFSLNPQGPEELDVEFLVERTCDPPENLITNNVLVARELSHLDVSLDRAGSTTMAAGQDKL
ELELMLKGSYEDTQTFLPDTAFTLSFHYMRSQDTELNGYLRSSRNSDWNSDTSATPFNVPLTLL
AAGKEVTVDIPATKDPERKLQLKTDSCPKELSVRLSYGLCPEEQAFLGRRKKLVAAALKQALQL
DEDLKEDEVPVVGINAEGGGMRAMISLYGHLLALQKLGLLDCVTYFSGISGATWTMAHLYRDPE
WSQKDLEGPISHAREHVAKSLLKEFLPEHLASYRQTLKLREEQGYTVTIADLWGLVLESKLHGQ
VTDQKLSEQRAALERGQNPLPLYLSLNVKENHLETLHFKEWVEFSPYEVGFLKYGGFVPSELFG
SEFFMGRLMKRLPESQICFLEGIWSNLFSVNLMDIWYDITSGRDSNDFPVDVQNSEKEPSSSAG
VSSGVEAPWLQPGTALAQAFKGFLTGRPFNQRSANFLHGLQLHRDYCNQRDFSTWADCNLDDTP
NQLTPQDPQLCLIDAGCFMNSSCPSLFRSGRQVDLILSFNYNQSFPFKGLQQSGKYCSAQGLPF
PRVEPSPEDHLQPQECYLFSDPTCPEAPAVLHFPLVNDSFQDHSAPGVRRSPDELKAGQVDLTG
VASPYFLYNMTYKNEDFDRLLRLSEYNIQNNQGTILQALKTVLKRRASETRPLGVKT

hide sequence

RefSeq Acc Id:

ENSRNOP00000053100 ⟸ ENSRNOT00000056258

Protein Domains

C2 PLA2c

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

ACI/EurMcwi (RGD)

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

ACI/N (MCW)

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

BBDP/Wor (RGD)

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

BN/SsN (MCW)

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

Buf/N (MCW)

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

COP/CrCrl (MCW & UW)

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

F344/NCrl (RGD)

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

F344/NRrrc (MCW)

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

FHH/EurMcwi (MCW)

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

FHH/EurMcwi (RGD)

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

FHL/EurMcwi (MCW)

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

FHL/EurMcwi (RGD)

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

GH/OmrMcwi (MCW)

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

GK/Ox (RGD)

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

LE/Stm (RGD)

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

LEW/Crl (RGD)

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

LEW/NCrlBR (RGD)

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

LH/MavRrrc (RGD)

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

LL/MavRrrc (RGD)

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

LN/MavRrrc (RGD)

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

M520/N (MCW)

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

MHS/Gib (RGD)

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

MNS/Gib (RGD)

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

MR/N (MCW)

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

SBH/Ygl (MCW)

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

SBH/Ygl (RGD)

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

SBN/Ygl (MCW)

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

SBN/Ygl (RGD)

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

SHR/NHsd (RGD)

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

SHRSP/Gcrc (RGD)

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

SR/JrHsd (MCW)

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

SR/JrHsd (RGD)

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

SS/Jr (RGD)

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

SS/JrHsdMcwi (MCW)

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

SS/JrHsdMcwi (RGD)

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

WAG/Rij (RGD)

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

WKY/Gcrc (RGD)

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

WKY/N (MCW)

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

WKY/NCrl (RGD)

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

WKY/NHsd (RGD)

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

WN/N (MCW)

Visual

CSV

TAB

Printer

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1593372	AgrOrtholog
Ensembl Genes	ENSRNOG00000037231	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000053100	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000056258	UniProtKB/TrEMBL
Gene3D-CATH	2.60.40.150	UniProtKB/TrEMBL
InterPro	Acyl_Trfase/lysoPlipase	UniProtKB/TrEMBL
	C2_Ca-dep	UniProtKB/TrEMBL
	C2_cPLA2	UniProtKB/TrEMBL
	C2_domain_sf	UniProtKB/TrEMBL
	cPLA2_C2	UniProtKB/TrEMBL
	Lysophospholipase_cat_dom	UniProtKB/TrEMBL
KEGG Report	rno:691905	UniProtKB/TrEMBL
NCBI Gene	691905	ENTREZGENE
Pfam	cPLA2_C2	UniProtKB/TrEMBL
	PF00168	UniProtKB/TrEMBL
	PLA2_B	UniProtKB/TrEMBL
PhenoGen	Pla2g4d	PhenoGen
PROSITE	PLA2C	UniProtKB/TrEMBL
	PS50004	UniProtKB/TrEMBL
SMART	PLAc	UniProtKB/TrEMBL
	SM00239	UniProtKB/TrEMBL
Superfamily-SCOP	Acyl_Trfase/lysoPlipase	UniProtKB/TrEMBL
UniProt	D3ZQH6	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-11-30	Pla2g4d	phospholipase A2 group IVD	Pla2g4d	phospholipase A2, group IVD (cytosolic)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-09-09	Pla2g4d	phospholipase A2, group IVD (cytosolic)	Pla2g4d	phospholipase A2, group IVD	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-06	Pla2g4d	phospholipase A2, group IVD	LOC691905	similar to cytosolic phospholipase A2 delta	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-01-09	LOC691905	similar to cytosolic phospholipase A2 delta	RGD1305282_predicted	similar to phospholipase A2, group IVB (cytosolic) (predicted)	Data Merged	1643240	APPROVED
2006-11-20	LOC691905	similar to cytosolic phospholipase A2 delta			Symbol and Name status set to provisional	70820	PROVISIONAL
2005-01-20	RGD1305282_predicted	similar to phospholipase A2, group IVB (cytosolic) (predicted)	LOC311342_predicted		Symbol and Name status set to approved	1331353	APPROVED
2005-01-12	LOC311342_predicted	similar to phospholipase A2, group IVB (cytosolic) (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)