Pla2g4a (phospholipase A2 group IVA) - Rat Genome Database

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Gene: Pla2g4a (phospholipase A2 group IVA) Rattus norvegicus
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Symbol: Pla2g4a
Name: phospholipase A2 group IVA
RGD ID: 67366
Description: Enables calcium-dependent phospholipase A2 activity and histone acetyltransferase binding activity. Involved in several processes, including positive regulation of prostaglandin biosynthetic process; reproductive structure development; and surfactant homeostasis. Located in several cellular components, including cytosol; perinuclear region of cytoplasm; and zymogen granule. Used to study hyperglycemia. Biomarker of asthma; brain ischemia; papilloma; polycystic kidney disease; and transitional cell carcinoma. Orthologous to human PLA2G4A (phospholipase A2 group IVA); PARTICIPATES IN cyclooxygenase mediated pathway of arachidonic acid metabolism; endothelin signaling pathway; Fc epsilon receptor mediated signaling pathway; INTERACTS WITH (S)-nicotine; 1,2,3,4-tetrahydroisoquinoline; 1-naphthyl isothiocyanate.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: cPLA2; cytosolic phospholipase A2; cytosolic phospholipase A2-like; LOC100911675; phospholipase A2 cytosolic; Phospholipase A2, cytosolic; phospholipase A2, group IVA (cytosolic, calcium-dependent); Pla2c; Pla2g4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21361,877,818 - 62,022,261 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1361,877,813 - 62,022,266 (-)Ensembl
Rnor_6.01367,062,252 - 67,206,688 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1366,988,937 - 67,206,693 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01372,027,801 - 72,172,613 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41364,135,729 - 64,280,815 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11364,149,803 - 64,294,883 (-)NCBI
Celera1361,840,531 - 61,984,375 (-)NCBICelera
Cytogenetic Map13q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-nicotine  (EXP)
1,2,3,4-tetrahydroisoquinoline  (EXP)
1,2-dimethylhydrazine  (ISO)
1-(5-isoquinolinesulfonyl)-2-methylpiperazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17beta-estradiol  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,4',6-tetrachlorobiphenyl  (EXP)
2,6-di-tert-butyl-4-methylphenol  (ISO)
2-amino-2-deoxy-D-glucopyranose  (EXP)
2-ethoxyethanol  (EXP)
2-methoxyethanol  (EXP)
3',5'-cyclic AMP  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3-[3-(tert-butylsulfanyl)-1-(4-chlorobenzyl)-5-(propan-2-yl)-1H-indol-2-yl]-2,2-dimethylpropanoic acid  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-(N-nitrosomethylamino)-1-(3-pyridyl)butan-1-one  (EXP)
4-hydroxyphenyl retinamide  (ISO)
5-(2-methylpiperazine-1-sulfonyl)isoquinoline  (ISO)
5-fluorouracil  (ISO)
5-methoxy-2-\{[(4-methoxy-3,5-dimethylpyridin-2-yl)methyl]sulfinyl\}-1H-benzimidazole  (ISO)
6-propyl-2-thiouracil  (EXP)
6alpha-methylprednisolone  (ISO)
AACOCF3  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucosamine  (EXP)
all-trans-retinoic acid  (ISO)
aluminium sulfate (anhydrous)  (ISO)
amphetamine  (EXP)
arachidonic acid  (EXP,ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
ATP  (ISO)
beclomethasone  (ISO)
belinostat  (ISO)
benzene  (EXP,ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
beta-D-glucosamine  (EXP)
beta-D-glucosamine 6-sulfate  (ISO)
beta-naphthoflavone  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
budesonide  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (EXP)
cadmium sulfate  (ISO)
capsaicin  (ISO)
carbamazepine  (ISO)
carbofuran  (EXP)
carbon nanotube  (ISO)
celecoxib  (ISO)
chlordecone  (ISO)
chlorothalonil  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
cycloheximide  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
diethyldithiocarbamic acid  (EXP)
dioxygen  (ISO)
diphenhydramine  (ISO)
dorsomorphin  (ISO)
doxorubicin  (EXP,ISO)
entinostat  (ISO)
ethanol  (EXP)
fluoranthene  (ISO)
fluoxetine  (ISO)
flurbiprofen  (ISO)
fluticasone  (ISO)
folic acid  (ISO)
formaldehyde  (EXP)
genistein  (ISO)
histamine  (ISO)
hydrogen peroxide  (EXP,ISO)
icosanoid  (ISO)
iron atom  (EXP)
iron(0)  (EXP)
isoprenaline  (EXP)
L-methionine  (ISO)
lead nitrate  (ISO)
lead(II) chloride  (ISO)
leukotriene B4  (ISO)
Licochalcone B  (ISO)
lipopolysaccharide  (EXP,ISO)
lithium atom  (ISO)
lithium carbonate  (ISO)
lithium hydride  (ISO)
lovastatin  (EXP)
melittin  (ISO)
mercury dibromide  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylseleninic acid  (ISO)
N'-Nitrosonornicotine  (EXP)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (ISO)
N-acetyl-L-cysteine  (EXP)
N-Acetyl-S-(1,2-dichlorovinyl)-cysteine  (ISO)
N-formyl-L-methionyl-L-leucyl-L-phenylalanine  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
N-nitrosodimethylamine  (EXP)
nicotine  (EXP)
nifedipine  (EXP,ISO)
nitric oxide  (EXP)
okadaic acid  (ISO)
olaparib  (EXP)
omeprazole  (ISO)
orientin  (ISO)
oxaliplatin  (EXP)
oxycodone  (EXP)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
panobinostat  (ISO)
paracetamol  (ISO)
phenylmercury acetate  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
prednisolone  (ISO)
procymidone  (ISO)
progesterone  (ISO)
prostaglandin E2  (ISO)
resveratrol  (ISO)
rofecoxib  (ISO)
SB 203580  (EXP,ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sodium chloride  (EXP,ISO)
sodium dodecyl sulfate  (ISO)
Soman  (EXP)
sulindac  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
terephthalic acid  (EXP)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (ISO)
topotecan  (EXP)
triamcinolone acetonide  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (EXP)
triptonide  (ISO)
troglitazone  (ISO)
tyrphostin AG 1478  (ISO)
valproic acid  (ISO)
vancomycin  (ISO)
vorinostat  (ISO)
zinc atom  (EXP)
zinc sulfate  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aging  (IEP)
arachidonic acid metabolic process  (IEA,IMP,ISO,ISS)
arachidonic acid secretion  (IEA,ISO)
cellular response to antibiotic  (IEA,ISO)
decidualization  (IMP)
glycerol metabolic process  (IEA)
glycerophospholipid catabolic process  (IBA)
icosanoid biosynthetic process  (ISO)
leukotriene biosynthetic process  (IEA,ISO)
luteolysis  (IEP)
monoacylglycerol biosynthetic process  (IEA,ISO,ISS)
ovulation from ovarian follicle  (IMP)
phosphatidylcholine acyl-chain remodeling  (IEA,ISO)
phosphatidylcholine catabolic process  (IEA,ISO,ISS)
phosphatidylglycerol catabolic process  (IEA,ISO,ISS)
platelet activating factor biosynthetic process  (IEA,ISO)
positive regulation of apoptotic process  (IMP)
positive regulation of bone mineralization  (IEP)
positive regulation of cell population proliferation  (IMP)
positive regulation of fever generation  (IEP)
positive regulation of inflammatory response  (IMP)
positive regulation of macrophage activation  (IEA,ISO)
positive regulation of platelet activation  (IEA,ISO)
positive regulation of prostaglandin biosynthetic process  (IMP)
positive regulation of prostaglandin secretion  (IEA,ISO)
positive regulation of T-helper 1 type immune response  (IEA,ISO)
positive regulation of vesicle fusion  (IMP)
prostaglandin biosynthetic process  (IEA,ISO,ISS)
regulation of cell population proliferation  (IEA,ISO)
response to calcium ion  (IMP)
response to glucocorticoid  (IEP)
response to heat  (IEP)
response to hormone  (IEP)
response to hydrogen peroxide  (IEP)
response to lipopolysaccharide  (IEP)
response to lithium ion  (IEP)
response to methylmercury  (IEP)
response to organic substance  (IMP)
response to organonitrogen compound  (IEP)
response to vitamin D  (IEP)
surfactant homeostasis  (IMP)

Cellular Component
cytoplasm  (IDA,ISO)
cytosol  (IBA,IDA,IEA,ISO)
endoplasmic reticulum  (IBA,IEA,ISO)
Golgi apparatus  (IBA,ISO)
Golgi membrane  (IEA,ISO,ISS)
intracellular membrane-bounded organelle  (IDA,ISO)
nuclear envelope  (IEA,ISO,ISS)
nucleus  (IBA,IDA)
perinuclear region of cytoplasm  (IDA)
zymogen granule  (IDA)

References

References - curated
1. Akiyama N, etal., Toxicol Appl Pharmacol. 2006 Sep 1;215(2):218-27. Epub 2006 Apr 17.
2. Aukema HM, etal., FASEB J. 2003 Feb;17(2):298-300. Epub 2002 Dec 17.
3. Cybulsky AV, etal., J Biol Chem 2002 Nov 1;277(44):41342-51.
4. De S, etal., Mol Cell Neurosci. 2003 Nov;24(3):753-65.
5. Dolan-O'keefe M and Nick HS, Gastroenterology. 1999 Apr;116(4):855-64.
6. Fevre C, etal., Biochim Biophys Acta. 2011 Jun;1811(6):409-17. Epub 2010 Dec 21.
7. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. Gentili C, etal., J Cell Biochem. 2004 Oct 1;93(2):312-26.
9. Gentili C, etal., J Steroid Biochem Mol Biol. 2004 May;89-90(1-5):297-301.
10. GOA data from the GO Consortium
11. Gracia-Sancho J, etal., J Hepatol. 2007 Aug;47(2):220-7. Epub 2007 Apr 5.
12. Higashi S, etal., Inflamm Res. 2000 Mar;49(3):102-11.
13. Karaa A, etal., Microcirculation. 2006 Sep;13(6):457-66.
14. Kitayama S, etal., Ann Neurol. 1992 Jul;32(1):109-11.
15. Kriem B, etal., FASEB J. 2005 Jan;19(1):85-7. Epub 2004 Oct 14.
16. Kurusu S, etal., Endocrine. 2001 Apr;14(3):337-42.
17. Kurusu S, etal., FEBS Lett. 1999 Feb 12;444(2-3):235-8.
18. Kurusu S, etal., Prostaglandins Leukot Essent Fatty Acids. 1998 Jun;58(6):405-11.
19. Lee KL, etal., J Med Chem. 2007 Mar 22;50(6):1380-400. Epub 2007 Feb 17.
20. Liu L J Cell Biochem. 1999 Jan 1;72(1):103-10.
21. Liu L, etal., J Neurosci. 2006 Nov 8;26(45):11588-98.
22. Liu Y and Taylor CW, FEBS Lett. 2006 Jul 24;580(17):4114-20. Epub 2006 Jun 30.
23. Lopez-Vales R, etal., Brain. 2008 Oct;131(Pt 10):2620-31. Epub 2008 Aug 21.
24. Ma Z, etal., Biochim Biophys Acta 1998 Apr 22;1391(3):384-400.
25. Majed BH and Khalil RA, Pharmacol Rev. 2012 Jul;64(3):540-82. doi: 10.1124/pr.111.004770. Epub 2012 Jun 7.
26. Mariggio S, etal., FASEB J. 2006 Dec;20(14):2567-9. Epub 2006 Oct 23.
27. MGD data from the GO Consortium
28. Nakatani Y, etal., Biol Pharm Bull. 1994 Jan;17(1):47-50.
29. NCBI rat LocusLink and RefSeq merged data July 26, 2002
30. Ni Z, etal., J Biol Chem. 2006 Jun 16;281(24):16245-55. Epub 2006 Apr 7.
31. Niknami M, etal., Int J Biochem Cell Biol. 2009 May;41(5):994-7. doi: 10.1016/j.biocel.2008.07.017. Epub 2008 Aug 8.
32. Offer S, etal., Am J Physiol Lung Cell Mol Physiol. 2005 Mar;288(3):L523-9. Epub 2004 Nov 19.
33. OMIM Disease Annotation Pipeline
34. Pipeline to import KEGG annotations from KEGG into RGD
35. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
36. Pipeline to import SMPDB annotations from SMPDB into RGD
37. RGD automated data pipeline
38. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
39. RGD automated import pipeline for gene-chemical interactions
40. Rintala J, etal., Neuroreport. 1999 Dec 16;10(18):3887-90.
41. Sattar AA and Haque R, J Biochem (Tokyo). 2007 Jan;141(1):77-84. Epub 2006 Dec 5.
42. Shanker G, etal., Neurotoxicology. 2004 Mar;25(3):399-406.
43. Sheridan AM, etal., Mol Cell Biol. 2001 Jul;21(14):4470-81.
44. Shi Y, etal., Prostaglandins Leukot Essent Fatty Acids. 2006 May;74(5):309-15. Epub 2006 Apr 18.
45. Silfani TN and Freeman EJ, Arch Biochem Biophys 2002 Jun 1;402(1):84-93.
46. Slomiany BL and Slomiany A, Inflammopharmacology. 2006 Dec;14(5-6):250-5.
47. Steiner AA, etal., PLoS Biol. 2006 Sep;4(9):e284.
48. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
49. Tong LJ, etal., Mol Cell Biochem. 1998 Dec;189(1-2):55-61.
50. Tovey JA, etal., Ann Clin Biochem. 1992 Jul;29 ( Pt 4):461-2.
51. Tu B and Bazan NG, Exp Neurol 2003 Feb;179(2):167-75.
52. Woo CH, etal., J Biol Chem 2002 Mar 8;277(10):8572-8. Epub 2001 Dec 27.
53. Xia P, etal., J Clin Invest. 1995 Aug;96(2):733-40.
54. Yaksh TL, etal., J Pharmacol Exp Ther. 2006 Jan;316(1):466-75. Epub 2005 Oct 3.
55. Yakubov E, etal., Brain Res Mol Brain Res. 2004 Aug 23;127(1-2):10-26.
56. Zhang JP, etal., Shock. 2007 Jul;28(1):86-93.
Additional References at PubMed
PMID:7794891   PMID:7808237   PMID:7898324   PMID:8702602   PMID:9403692   PMID:9403693   PMID:9425121   PMID:9430701   PMID:9665851   PMID:10946309   PMID:10969066   PMID:11375391  
PMID:12529382   PMID:12582837   PMID:12672805   PMID:14709560   PMID:15003994   PMID:15322111   PMID:15548519   PMID:15637121   PMID:15991247   PMID:16172261   PMID:16617059   PMID:16997278  
PMID:17267947   PMID:17293613   PMID:17462919   PMID:17472963   PMID:17613534   PMID:17643276   PMID:18451993   PMID:18545259   PMID:18632668   PMID:18713832   PMID:18725190   PMID:19130224  
PMID:19409102   PMID:19455582   PMID:19703580   PMID:19753100   PMID:19940072   PMID:20388488   PMID:20601072   PMID:20978898   PMID:21094175   PMID:21247147   PMID:21762109   PMID:23219970  
PMID:23563696   PMID:23909864   PMID:24044897   PMID:24076420   PMID:24782598   PMID:25533654   PMID:25869501   PMID:26632509   PMID:26709877   PMID:26850849   PMID:27642067   PMID:27686454  
PMID:27702653   PMID:30112630   PMID:30251689   PMID:32274627  


Genomics

Candidate Gene Status
Pla2g4a is a candidate Gene for QTL Bp329
Comparative Map Data
Pla2g4a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21361,877,818 - 62,022,261 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl1361,877,813 - 62,022,266 (-)Ensembl
Rnor_6.01367,062,252 - 67,206,688 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1366,988,937 - 67,206,693 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01372,027,801 - 72,172,613 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41364,135,729 - 64,280,815 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11364,149,803 - 64,294,883 (-)NCBI
Celera1361,840,531 - 61,984,375 (-)NCBICelera
Cytogenetic Map13q21NCBI
PLA2G4A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1186,828,949 - 186,988,981 (+)EnsemblGRCh38hg38GRCh38
GRCh381186,828,949 - 186,988,981 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371186,798,081 - 186,958,113 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361185,064,655 - 185,224,736 (+)NCBINCBI36hg18NCBI36
Build 341183,529,761 - 183,689,770NCBI
Celera1159,908,366 - 160,068,522 (+)NCBI
Cytogenetic Map1q31.1NCBI
HuRef1158,032,476 - 158,192,352 (+)NCBIHuRef
CHM1_11188,219,298 - 188,379,410 (+)NCBICHM1_1
Pla2g4a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391149,705,369 - 149,837,041 (-)NCBIGRCm39mm39
GRCm39 Ensembl1149,705,369 - 149,837,041 (-)Ensembl
GRCm381149,829,618 - 149,961,290 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1149,829,618 - 149,961,290 (-)EnsemblGRCm38mm10GRCm38
MGSCv371151,676,752 - 151,808,414 (-)NCBIGRCm37mm9NCBIm37
MGSCv361151,591,840 - 151,723,502 (-)NCBImm8
Celera1152,270,492 - 152,407,425 (-)NCBICelera
Cytogenetic Map1G1NCBI
cM Map163.51NCBI
Pla2g4a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540625,257,355 - 25,394,206 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540625,257,361 - 25,392,079 (+)NCBIChiLan1.0ChiLan1.0
PLA2G4A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11166,512,870 - 166,672,114 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1166,512,870 - 166,672,101 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01162,362,600 - 162,521,974 (+)NCBIMhudiblu_PPA_v0panPan3
PLA2G4A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1719,804,412 - 19,955,215 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl719,832,664 - 19,966,936 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha719,327,033 - 19,477,842 (+)NCBI
ROS_Cfam_1.0719,541,768 - 19,692,656 (+)NCBI
UMICH_Zoey_3.1719,447,440 - 19,598,170 (+)NCBI
UNSW_CanFamBas_1.0719,556,751 - 19,707,439 (+)NCBI
UU_Cfam_GSD_1.0719,688,892 - 19,840,168 (+)NCBI
Pla2g4a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934485,712,619 - 85,843,081 (-)NCBI
SpeTri2.0NW_0049364813,559,377 - 3,689,797 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLA2G4A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9127,859,051 - 128,162,636 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19127,853,581 - 128,164,825 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29140,386,385 - 140,623,416 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PLA2G4A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12542,443,480 - 42,590,895 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl2542,443,385 - 42,590,431 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605543,569,644 - 43,761,073 (-)NCBIVero_WHO_p1.0
Pla2g4a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248146,597,248 - 6,744,294 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
D13Mgh7  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21362,022,374 - 62,022,792 (+)MAPPERmRatBN7.2
Rnor_6.01367,206,802 - 67,207,219NCBIRnor6.0
Rnor_5.01372,172,727 - 72,173,144UniSTSRnor5.0
RGSC_v3.41364,280,928 - 64,281,346RGDRGSC3.4
RGSC_v3.41364,280,929 - 64,281,346UniSTSRGSC3.4
RGSC_v3.11364,295,008 - 64,295,426RGD
Celera1361,984,489 - 61,984,941UniSTS
RH 3.4 Map13292.7UniSTS
RH 3.4 Map13292.7RGD
RH 2.0 Map13410.6RGD
FHH x ACI Map1328.32RGD
Cytogenetic Map13q21UniSTS
D13Mco2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21362,017,665 - 62,017,934 (+)MAPPERmRatBN7.2
Rnor_6.01367,202,093 - 67,202,361NCBIRnor6.0
Rnor_5.01372,168,018 - 72,168,286UniSTSRnor5.0
RGSC_v3.41364,276,219 - 64,276,488RGDRGSC3.4
RGSC_v3.41364,276,220 - 64,276,488UniSTSRGSC3.4
RGSC_v3.11364,290,299 - 64,290,568RGD
Celera1361,979,780 - 61,980,048UniSTS
Cytogenetic Map13q21UniSTS
AU049522  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21361,897,056 - 61,897,206 (+)MAPPERmRatBN7.2
Rnor_6.01367,081,490 - 67,081,639NCBIRnor6.0
Rnor_5.01372,047,039 - 72,047,188UniSTSRnor5.0
RGSC_v3.41364,154,967 - 64,155,116UniSTSRGSC3.4
Celera1361,859,795 - 61,859,944UniSTS
Cytogenetic Map13q21UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)131101056920Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13599483377046787Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132230187567301875Rat
70170Eae14Experimental allergic encephalomyelitis QTL 140.0024nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)132320344868203448Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132369296968692969Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132369296968692969Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133124133193395974Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133228447177284471Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133453521879535218Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133726209282262092Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133737450982374509Rat
4889861Pur29Proteinuria QTL 2913.80.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133741558480753406Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133741558482415584Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
6893344Cm79Cardiac mass QTL 791.50.04heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)134372077062022792Rat
12879444Bp397Blood pressure QTL 397arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134504940490049404Rat
12879471Bp398Blood pressure QTL 398arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134551471990514719Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
2303028Bp329Blood pressure QTL 329arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)135849787273485113Rat
724564Uae11Urinary albumin excretion QTL 115.7urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)135949252277046890Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)135987440885581182Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:18
Count of miRNA genes:17
Interacting mature miRNAs:17
Transcripts:ENSRNOT00000003630
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 8 6 8 6 22 20
Low 3 43 49 35 11 35 8 10 74 13 19 11 8
Below cutoff 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000003630   ⟹   ENSRNOP00000003630
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1361,877,813 - 62,011,487 (-)Ensembl
Rnor_6.0 Ensembl1367,062,257 - 67,206,688 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090693   ⟹   ENSRNOP00000075329
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1361,877,816 - 62,022,266 (-)Ensembl
Rnor_6.0 Ensembl1366,988,937 - 67,206,693 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099118   ⟹   ENSRNOP00000093497
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1361,877,813 - 61,981,789 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000113110   ⟹   ENSRNOP00000080078
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1361,877,813 - 61,981,014 (-)Ensembl
RefSeq Acc Id: NM_133551   ⟹   NP_598235
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21361,877,818 - 62,022,261 (-)NCBI
Rnor_6.01367,062,252 - 67,206,688 (-)NCBI
Rnor_5.01372,027,801 - 72,172,613 (-)NCBI
RGSC_v3.41364,135,729 - 64,280,815 (-)RGD
Celera1361,840,531 - 61,984,375 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_598235 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB33847 (Get FASTA)   NCBI Sequence Viewer  
  AAC21591 (Get FASTA)   NCBI Sequence Viewer  
  AAH70940 (Get FASTA)   NCBI Sequence Viewer  
  EDM09590 (Get FASTA)   NCBI Sequence Viewer  
  P50393 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_598235   ⟸   NM_133551
- UniProtKB: Q6IRF5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000075329   ⟸   ENSRNOT00000090693
RefSeq Acc Id: ENSRNOP00000003630   ⟸   ENSRNOT00000003630
RefSeq Acc Id: ENSRNOP00000093497   ⟸   ENSRNOT00000099118
RefSeq Acc Id: ENSRNOP00000080078   ⟸   ENSRNOT00000113110
Protein Domains
C2   PLA2c

Transcriptome

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

Promoters
RGD ID:13698877
Promoter ID:EPDNEW_R9402
Type:initiation region
Name:Pla2g4a_1
Description:phospholipase A2 group IVA
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01367,206,654 - 67,206,714EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BUF/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
DA/OlaHsd (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
F344/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FXLE16/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/FarMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (2019)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LH/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LL/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
LN/MavRrrcAek (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
M520/NRrrcMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
MWF/Hsd (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
SHR/OlalpcvMcwi (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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
WAG/RijCrl (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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 (2019)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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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 (2020)
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Sequenced By: MCW
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
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

Database Acc Id Source(s)
AGR Gene RGD:67366 AgrOrtholog
Ensembl Genes ENSRNOG00000002657 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000003630 UniProtKB/TrEMBL
  ENSRNOP00000075329 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003630 UniProtKB/TrEMBL
  ENSRNOT00000090693 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.150 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7099813 IMAGE-MGC_LOAD
InterPro Acyl_Trfase/lysoPLipase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_cPLA2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C2_domain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  LysoPLipase_cat_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:24653 UniProtKB/TrEMBL
MGC_CLONE MGC:91503 IMAGE-MGC_LOAD
NCBI Gene 24653 ENTREZGENE
Pfam PF00168 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLA2_B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PLA2G4A RGD
PhenoGen Pla2g4a PhenoGen
PROSITE PLA2C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PS50004 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PLAc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00239 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52151 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt P50393 ENTREZGENE, UniProtKB/Swiss-Prot
  Q6IRF5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Pla2g4a  phospholipase A2 group IVA  LOC100911675  cytosolic phospholipase A2-like  Data Merged 737654 PROVISIONAL
2015-11-30 Pla2g4a  phospholipase A2 group IVA  Pla2g4a  phospholipase A2, group IVA (cytosolic, calcium-dependent)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-05 LOC100911675  cytosolic phospholipase A2-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2003-04-09 Pla2g4a  phospholipase A2, group IVA (cytosolic, calcium-dependent)      Symbol and Name updated 629477 APPROVED
2003-03-10 Pla2g4a  phospholipase A2, group IVA (cytosolic, calcium-dependent)  Pla2g4  Phospholipase A2, cytosolic  Data Merged 628472 PROVISIONAL
2002-06-10 Pla2g4  Phospholipase A2, cytosolic      Symbol and Name status set to approved 70586 APPROVED
2002-06-10 Pla2g4a        Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease induced in hippocampal kindling model of epileptogenesis 729548