Pla2g6 (phospholipase A2 group VI) - Rat Genome Database

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Gene: Pla2g6 (phospholipase A2 group VI) Rattus norvegicus
Analyze
Symbol: Pla2g6
Name: phospholipase A2 group VI
RGD ID: 628867
Description: Enables several functions, including ATP-dependent protein binding activity; calcium-independent phospholipase A2 activity; and palmitoyl-CoA hydrolase activity. Involved in several processes, including cardiolipin acyl-chain remodeling; positive regulation of nitrogen compound metabolic process; and positive regulation of secretion. Located in cytosol and mitochondrion. Biomarker of pleurisy. Human ortholog(s) of this gene implicated in dystonia 12; neuroaxonal dystrophy; and neurodegenerative disease (multiple). Orthologous to human PLA2G6 (phospholipase A2 group VI); PARTICIPATES IN angiotensin II signaling pathway; alpha-linolenic acid metabolic pathway; arachidonic acid metabolic pathway; INTERACTS WITH (4Z,7Z,10Z,13Z,16Z)-docosa-4,7,10,13,16-pentaenoic acid; 2,2',4,4'-Tetrabromodiphenyl ether; 2,4,4',6-tetrachlorobiphenyl.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 2-lysophosphatidylcholine acylhydrolase; 85 kDa calcium-independent phospholipase A2; 85/88 kDa calcium-independent phospholipase A2; caI-PLA2; group VI phospholipase A2; GVI PLA2; intracellular membrane-associated calcium-independent phospholipase A2 beta; iPla2; iPLA2-beta; MGC93880; palmitoyl-CoA hydrolase; patatin-like phospholipase domain-containing protein 9; phospholipase A2, group VI; phospholipase A2, group VI (cytosolic, calcium-independent); PNPLA9
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
mRatBN7.27110,851,378 - 110,891,557 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl7110,851,378 - 110,891,114 (-)Ensembl
Rnor_6.07120,519,479 - 120,559,716 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7120,519,467 - 120,559,347 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07120,512,621 - 120,553,123 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47117,266,784 - 117,307,172 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17117,301,013 - 117,341,212 (-)NCBI
Celera7107,184,586 - 107,224,721 (-)NCBICelera
Cytogenetic Map7q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(4Z,7Z,10Z,13Z,16Z)-docosa-4,7,10,13,16-pentaenoic acid  (EXP)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,4',6-tetrachlorobiphenyl  (EXP)
2,6-dinitrotoluene  (EXP)
3'-O-(4-Benzoyl)benzoyl ATP  (ISO)
3,3',5-triiodo-L-thyronine  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
4-vinylcyclohexene dioxide  (ISO)
acetylsalicylic acid  (ISO)
aflatoxin B1  (ISO)
ammonium chloride  (EXP)
arachidonic acid  (EXP)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzene  (EXP)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP)
C60 fullerene  (EXP)
cadmium atom  (EXP)
calcium atom  (EXP)
calcium(0)  (EXP)
carbon nanotube  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cocaine  (EXP)
copper atom  (EXP)
copper(0)  (EXP)
cyproconazole  (ISO)
decabromodiphenyl ether  (EXP)
diarsenic trioxide  (ISO)
diazinon  (EXP)
doxorubicin  (ISO)
endosulfan  (EXP)
epoxiconazole  (ISO)
ethanol  (EXP)
fenvalerate  (EXP)
flutamide  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
hydrogen peroxide  (ISO)
KT 5720  (EXP)
lipopolysaccharide  (EXP)
NAD zwitterion  (ISO)
NAD(+)  (ISO)
p-toluidine  (EXP)
pentanal  (ISO)
perfluorooctanoic acid  (ISO)
phenobarbital  (ISO)
phenylephrine  (EXP)
pirinixic acid  (EXP,ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
propiconazole  (ISO)
resveratrol  (ISO)
sarin  (ISO)
sodium arsenate  (ISO)
sunitinib  (ISO)
tetraphene  (ISO)
thapsigargin  (EXP)
triptonide  (ISO)
troglitazone  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
1. Blanchard H, etal., Neurochem Res. 2014 Aug;39(8):1522-32. doi: 10.1007/s11064-014-1342-y. Epub 2014 Jun 12.
2. Bloch-Shilderman E, etal., J Pharmacol Exp Ther. 2002 Jun;301(3):953-62.
3. Brant K, etal., Biol Reprod. 2006 May;74(5):874-80. Epub 2006 Jan 25.
4. Carper MJ, etal., Biochemistry. 2008 Nov 18;47(46):12241-9. doi: 10.1021/bi800923s. Epub 2008 Oct 21.
5. Fevre C, etal., Biochim Biophys Acta. 2011 Jun;1811(6):409-17. Epub 2010 Dec 21.
6. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. Gilroy DW, etal., FASEB J. 2004 Mar;18(3):489-98.
8. GOA data from the GO Consortium
9. Khateeb S, etal., Am J Hum Genet. 2006 Nov;79(5):942-8. Epub 2006 Sep 19.
10. Kubota Y, etal., Naunyn Schmiedebergs Arch Pharmacol. 2003 Jun;367(6):588-91. Epub 2003 May 15.
11. Lei X, etal., J Biol Chem. 2008 Dec 12;283(50):34819-32. Epub 2008 Oct 20.
12. Lopez-Vales R, etal., Brain. 2008 Oct;131(Pt 10):2620-31. Epub 2008 Aug 21.
13. Lopez-Vales R, etal., FASEB J. 2011 Dec;25(12):4240-52. Epub 2011 Aug 25.
14. Ma Z, etal., J Biol Chem 1997 Apr 25;272(17):11118-27.
15. Ma Z, etal., J Biol Chem. 2001 Apr 20;276(16):13198-208. Epub 2001 Jan 22.
16. MGD data from the GO Consortium
17. OMIM Disease Annotation Pipeline
18. Pipeline to import KEGG annotations from KEGG into RGD
19. RGD automated data pipeline
20. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
21. RGD automated import pipeline for gene-chemical interactions
22. Schaeffer EL and Gattaz WF, Psychopharmacology (Berl). 2005 Sep;181(2):392-400. Epub 2005 Oct 14.
23. Seegers HC, etal., J Pharmacol Exp Ther. 2002 Sep;302(3):918-23.
24. Shinzawa K, etal., J Neurosci. 2008 Feb 27;28(9):2212-20.
25. Sina F, etal., Eur J Neurol. 2009 Jan;16(1):101-4.
26. Smani T, etal., J Biol Chem. 2003 Apr 4;278(14):11909-15. Epub 2003 Jan 23.
27. Song H, etal., J Biol Chem. 2010 Oct 29;285(44):33843-57. Epub 2010 Aug 23.
28. Song H, etal., J Biol Chem. 2014 May 16;289(20):14194-210. doi: 10.1074/jbc.M114.561910. Epub 2014 Mar 19.
29. St-Gelais F, etal., Hippocampus. 2004;14(3):319-25.
30. Strokin M, etal., Am J Physiol Cell Physiol. 2011 Mar;300(3):C542-9. Epub 2010 Dec 22.
31. Strokin M, etal., Hum Mol Genet. 2012 Apr 4.
32. Tomiyama H, etal., J Hum Genet. 2011 May;56(5):401-3. Epub 2011 Mar 3.
33. Wada H, etal., Am J Pathol. 2009 Dec;175(6):2257-63. Epub 2009 Nov 5.
34. Wang Z, etal., J Biol Chem. 2005 Feb 25;280(8):6840-9. Epub 2004 Dec 2.
35. Wu Y, etal., Eur J Neurol. 2009 Feb;16(2):240-5. Epub 2008 Dec 9.
36. Xie Z, etal., J Biol Chem. 2007 Aug 31;282(35):25278-89. Epub 2007 Jul 5.
37. Xie Z, etal., J Biol Chem. 2011 Dec 30;286(52):44646-58. Epub 2011 Nov 4.
38. Yoshino H, etal., Neurology. 2010 Oct 12;75(15):1356-61.
39. Zhang P, etal., Eur J Neurol. 2013 Feb;20(2):322-30. doi: 10.1111/j.1468-1331.2012.03856.x. Epub 2012 Aug 31.
Additional References at PubMed
PMID:12089145   PMID:12477932   PMID:12928445   PMID:15052324   PMID:15630695   PMID:15908428   PMID:16407316   PMID:16603590   PMID:16818490   PMID:16854462   PMID:17267947   PMID:17475622  
PMID:17555549   PMID:17666570   PMID:17685585   PMID:17768607   PMID:17885217   PMID:18171998   PMID:18714013   PMID:19164547   PMID:19741254   PMID:20107037   PMID:20118407   PMID:20132906  
PMID:20406040   PMID:20886109   PMID:21037228   PMID:21094175   PMID:21116712   PMID:22218592   PMID:23533611   PMID:24586040   PMID:25925080   PMID:25979360   PMID:26206229   PMID:26632509  
PMID:27973457   PMID:29637744  


Genomics

Comparative Map Data
Pla2g6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27110,851,378 - 110,891,557 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl7110,851,378 - 110,891,114 (-)Ensembl
Rnor_6.07120,519,479 - 120,559,716 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7120,519,467 - 120,559,347 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.07120,512,621 - 120,553,123 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47117,266,784 - 117,307,172 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17117,301,013 - 117,341,212 (-)NCBI
Celera7107,184,586 - 107,224,721 (-)NCBICelera
Cytogenetic Map7q34NCBI
PLA2G6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2238,111,495 - 38,214,778 (-)EnsemblGRCh38hg38GRCh38
GRCh382238,111,495 - 38,181,830 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372238,507,502 - 38,577,837 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362236,837,448 - 36,907,707 (-)NCBINCBI36hg18NCBI36
Build 342236,832,002 - 36,902,261NCBI
Celera2222,312,199 - 22,382,453 (-)NCBI
Cytogenetic Map22q13.1NCBI
HuRef2221,473,858 - 21,543,900 (-)NCBIHuRef
CHM1_12238,466,463 - 38,536,813 (-)NCBICHM1_1
Pla2g6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391579,170,428 - 79,212,915 (-)NCBIGRCm39mm39
GRCm39 Ensembl1579,170,428 - 79,212,590 (-)Ensembl
GRCm381579,286,228 - 79,328,385 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1579,286,228 - 79,328,390 (-)EnsemblGRCm38mm10GRCm38
MGSCv371579,116,658 - 79,158,598 (-)NCBIGRCm37mm9NCBIm37
MGSCv361579,113,483 - 79,155,423 (-)NCBImm8
Celera1581,406,243 - 81,447,891 (-)NCBICelera
Cytogenetic Map15E1NCBI
Pla2g6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541324,429,589 - 24,482,537 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541324,431,592 - 24,482,229 (-)NCBIChiLan1.0ChiLan1.0
PLA2G6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12236,849,794 - 36,930,403 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2236,849,794 - 36,919,509 (-)Ensemblpanpan1.1panPan2
PanPan1.1 Ensembl2236,823,637 - 36,848,824 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02218,998,060 - 19,094,507 (-)NCBIMhudiblu_PPA_v0panPan3
PLA2G6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11026,499,033 - 26,559,533 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1026,509,695 - 26,634,087 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1026,454,462 - 26,514,846 (+)NCBI
ROS_Cfam_1.01027,290,620 - 27,351,106 (+)NCBI
UMICH_Zoey_3.11027,011,336 - 27,071,396 (+)NCBI
UNSW_CanFamBas_1.01027,322,574 - 27,382,942 (+)NCBI
UU_Cfam_GSD_1.01027,499,582 - 27,559,773 (+)NCBI
Pla2g6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494510,001,353 - 10,050,548 (+)NCBI
SpeTri2.0NW_0049364923,011,752 - 3,060,962 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLA2G6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl59,685,214 - 9,777,922 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.159,713,809 - 9,777,921 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.256,996,400 - 7,060,421 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PLA2G6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11920,818,575 - 20,884,243 (-)NCBI
Vero_WHO_p1.0NW_023666045104,880,026 - 104,951,884 (+)NCBI
Pla2g6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247529,792,778 - 9,841,817 (+)NCBI

Position Markers
BE108691  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27110,856,315 - 110,856,466 (+)MAPPERmRatBN7.2
Rnor_6.07120,524,416 - 120,524,566NCBIRnor6.0
Rnor_5.07120,517,558 - 120,517,708UniSTSRnor5.0
RGSC_v3.47117,271,722 - 117,271,872UniSTSRGSC3.4
Celera7107,189,524 - 107,189,674UniSTS
RH 3.4 Map7842.8UniSTS
Cytogenetic Map7q34UniSTS
RH141625  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27110,891,299 - 110,891,517 (+)MAPPERmRatBN7.2
Rnor_6.07120,559,459 - 120,559,676NCBIRnor6.0
Rnor_5.07120,552,866 - 120,553,083UniSTSRnor5.0
RGSC_v3.47117,307,284 - 117,307,501UniSTSRGSC3.4
Celera7107,224,833 - 107,225,050UniSTS
RH 3.4 Map7843.5UniSTS
Cytogenetic Map7q34UniSTS
BI275205  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27110,882,375 - 110,882,547 (+)MAPPERmRatBN7.2
Rnor_6.07120,550,535 - 120,550,706NCBIRnor6.0
Rnor_5.07120,543,942 - 120,544,113UniSTSRnor5.0
RGSC_v3.47117,298,360 - 117,298,531UniSTSRGSC3.4
Celera7107,215,906 - 107,216,077UniSTS
RH 3.4 Map7842.5UniSTS
Cytogenetic Map7q34UniSTS
BM382819  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27110,878,748 - 110,878,944 (+)MAPPERmRatBN7.2
Rnor_6.07120,546,908 - 120,547,103NCBIRnor6.0
Rnor_5.07120,540,315 - 120,540,510UniSTSRnor5.0
RGSC_v3.47117,294,733 - 117,294,928UniSTSRGSC3.4
Celera7107,212,279 - 107,212,474UniSTS
RH 3.4 Map7856.3UniSTS
Cytogenetic Map7q34UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
61357Bp38Blood pressure QTL 381.60.052arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)741333674119109060Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)743747012135012528Rat
631504Cm27Cardiac mass QTL 273.45heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)744421311118198041Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)764002457135012528Rat
2316947Rf58Renal function QTL 587.8kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)768938720113886318Rat
2316952Pur22Proteinuria QTL 225.2urine protein amount (VT:0005160)urine protein level (CMO:0000591)768938720113886318Rat
2316955Stl24Serum triglyceride level QTL 247.1blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)768938720113886318Rat
631540Bw9Body weight QTL 94.5body mass (VT:0001259)body weight (CMO:0000012)769736226117455174Rat
1357338Stl17Serum triglyceride level QTL 173.23blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)769736356112729554Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)773829340130221005Rat
7411654Foco25Food consumption QTL 259.30.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
7411607Foco15Food consumption QTL 150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)775918751120918751Rat
1331746Kidm9Kidney mass QTL 93.934kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)780221299112308525Rat
1331728Bp214Blood pressure QTL 2142.825arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)780221299124373579Rat
1331768Kidm10Kidney mass QTL 104.62096kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)780221299125221299Rat
2317052Aia17Adjuvant induced arthritis QTL 172.13joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)781737938126737938Rat
634322Bw12Body weight QTL 120body mass (VT:0001259)body weight (CMO:0000012)783153392128153392Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)783591953134666232Rat
71114Niddm14Non-insulin dependent diabetes mellitus QTL 144.5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)784257275129257275Rat
2298475Eau6Experimental allergic uveoretinitis QTL 60.0029uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)784257275129257275Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)786983365131983365Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)790482196135012528Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)791281130135012528Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)791412594129807172Rat
2313102Bmd79Bone mineral density QTL 792.30.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)794811085116738842Rat
1357336Gluco6Glucose level QTL 63.4blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)794811326116294265Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)796670164135012528Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7102297359133492884Rat
70159Bp61Blood pressure QTL 610.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7103146217116738842Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7104603555135012528Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7106571501135012528Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:214
Count of miRNA genes:79
Interacting mature miRNAs:93
Transcripts:ENSRNOT00000016827, ENSRNOT00000017108
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 11 2 6 2 3 63 29 35 5
Low 1 43 46 39 13 39 8 8 11 6 6 6 8
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001005560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001270796 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241998 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006241999 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242000 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242002 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006242005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008765757 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017594907 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079362 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039079363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_005486652 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide BC061866 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC081916 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000186 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U51898 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000016827   ⟹   ENSRNOP00000016827
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7110,851,378 - 110,890,577 (-)Ensembl
Rnor_6.0 Ensembl7120,519,479 - 120,559,234 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000017108   ⟹   ENSRNOP00000017104
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7110,851,378 - 110,882,917 (-)Ensembl
Rnor_6.0 Ensembl7120,519,481 - 120,559,347 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087344   ⟹   ENSRNOP00000072104
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl7110,851,385 - 110,891,114 (-)Ensembl
Rnor_6.0 Ensembl7120,519,467 - 120,558,805 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000090565   ⟹   ENSRNOP00000075311
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7120,519,479 - 120,559,157 (-)Ensembl
RefSeq Acc Id: NM_001005560   ⟹   NP_001005560
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,378 - 110,891,188 (-)NCBI
Rnor_6.07120,519,479 - 120,559,347 (-)NCBI
Rnor_5.07120,512,621 - 120,553,123 (-)NCBI
RGSC_v3.47117,266,784 - 117,307,172 (-)RGD
Celera7107,184,586 - 107,224,721 (-)NCBI
Sequence:
RefSeq Acc Id: NM_001270796   ⟹   NP_001257725
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,378 - 110,891,075 (-)NCBI
Rnor_6.07120,519,479 - 120,559,234 (-)NCBI
Rnor_5.07120,512,621 - 120,553,123 (-)NCBI
Celera7107,184,586 - 107,224,608 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241997   ⟹   XP_006242059
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,378 - 110,883,074 (-)NCBI
Rnor_6.07120,519,479 - 120,551,676 (-)NCBI
Rnor_5.07120,512,621 - 120,553,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241998   ⟹   XP_006242060
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,378 - 110,890,483 (-)NCBI
Rnor_6.07120,519,479 - 120,558,730 (-)NCBI
Rnor_5.07120,512,621 - 120,553,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006241999   ⟹   XP_006242061
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,938 - 110,883,070 (-)NCBI
Rnor_6.07120,519,479 - 120,551,675 (-)NCBI
Rnor_5.07120,512,621 - 120,553,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242000   ⟹   XP_006242062
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,378 - 110,891,010 (-)NCBI
Rnor_6.07120,519,479 - 120,559,168 (-)NCBI
Rnor_5.07120,512,621 - 120,553,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242001   ⟹   XP_006242063
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,378 - 110,891,132 (-)NCBI
Rnor_6.07120,519,479 - 120,559,289 (-)NCBI
Rnor_5.07120,512,621 - 120,553,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242002   ⟹   XP_006242064
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,378 - 110,891,557 (-)NCBI
Rnor_6.07120,519,479 - 120,559,716 (-)NCBI
Rnor_5.07120,512,621 - 120,553,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242003   ⟹   XP_006242065
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,378 - 110,891,557 (-)NCBI
Rnor_6.07120,519,479 - 120,559,716 (-)NCBI
Rnor_5.07120,512,621 - 120,553,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242004   ⟹   XP_006242066
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,378 - 110,891,141 (-)NCBI
Rnor_6.07120,519,479 - 120,559,289 (-)NCBI
Rnor_5.07120,512,621 - 120,553,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_006242005   ⟹   XP_006242067
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,938 - 110,883,069 (-)NCBI
Rnor_6.07120,519,479 - 120,551,675 (-)NCBI
Rnor_5.07120,512,621 - 120,553,123 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008765757   ⟹   XP_008763979
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,851,378 - 110,883,073 (-)NCBI
Rnor_6.07120,519,479 - 120,551,675 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039079362   ⟹   XP_038935290
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,861,609 - 110,883,882 (-)NCBI
RefSeq Acc Id: XM_039079363   ⟹   XP_038935291
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,861,464 - 110,883,871 (-)NCBI
RefSeq Acc Id: XR_005486652
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27110,861,532 - 110,883,873 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001005560   ⟸   NM_001005560
- Peptide Label: isoform 1
- UniProtKB: P97570 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001257725   ⟸   NM_001270796
- Peptide Label: isoform 2
- UniProtKB: P97570 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242064   ⟸   XM_006242002
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006242065   ⟸   XM_006242003
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006242063   ⟸   XM_006242001
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006242066   ⟸   XM_006242004
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006242062   ⟸   XM_006242000
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_006242060   ⟸   XM_006241998
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006242067   ⟸   XM_006242005
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_006242059   ⟸   XM_006241997
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_006242061   ⟸   XM_006241999
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008763979   ⟸   XM_008765757
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: ENSRNOP00000075311   ⟸   ENSRNOT00000090565
RefSeq Acc Id: ENSRNOP00000072104   ⟸   ENSRNOT00000087344
RefSeq Acc Id: ENSRNOP00000016827   ⟸   ENSRNOT00000016827
RefSeq Acc Id: ENSRNOP00000017104   ⟸   ENSRNOT00000017108
RefSeq Acc Id: XP_038935291   ⟸   XM_039079363
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038935290   ⟸   XM_039079362
- Peptide Label: isoform X7
Protein Domains
PNPLA

Transcriptome

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

Promoters
RGD ID:13695482
Promoter ID:EPDNEW_R6004
Type:initiation region
Name:Pla2g6_1
Description:phospholipase A2 group VI
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_6.07120,559,198 - 120,559,258EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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
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 (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
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-Lx/CubMcwi (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
BN/NHsdMcwi (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
BN/NHsdMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (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
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 (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
BXH2/CubMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (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: 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)
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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)
DA/OlaHsd (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: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (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
F344/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
F344/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
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
F344/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
FHH/EurMcwi (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
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
FXLE16/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
FXLE18/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
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/FarMcwi (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
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
HXB10/IpcvMcwi (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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/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
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 (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
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
LEXF10A/StmMcwi (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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/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
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)
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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 (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:628867 AgrOrtholog
Ensembl Genes ENSRNOG00000012295 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000016827 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000017104 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000072104 UniProtKB/Swiss-Prot
  ENSRNOP00000075311 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000016827 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000017108 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000087344 UniProtKB/Swiss-Prot
  ENSRNOT00000090565 UniProtKB/Swiss-Prot
Gene3D-CATH 1.25.40.20 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7112407 IMAGE-MGC_LOAD
InterPro Acyl_Trfase/lysoPLipase UniProtKB/Swiss-Prot
  Ankyrin_rpt UniProtKB/Swiss-Prot
  Ankyrin_rpt-contain_dom UniProtKB/Swiss-Prot
  Ankyrin_rpt-contain_sf UniProtKB/Swiss-Prot
  PNPLA_dom UniProtKB/Swiss-Prot
KEGG Report rno:360426 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93880 IMAGE-MGC_LOAD
NCBI Gene 360426 ENTREZGENE
Pfam Ank_2 UniProtKB/Swiss-Prot
  Patatin UniProtKB/Swiss-Prot
PhenoGen Pla2g6 PhenoGen
PRINTS ANKYRIN UniProtKB/Swiss-Prot
PROSITE ANK_REP_REGION UniProtKB/Swiss-Prot
  ANK_REPEAT UniProtKB/Swiss-Prot
  PNPLA UniProtKB/Swiss-Prot
SMART ANK UniProtKB/Swiss-Prot
Superfamily-SCOP SSF48403 UniProtKB/Swiss-Prot
  SSF52151 UniProtKB/Swiss-Prot
UniProt P97570 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary G3V7M8 UniProtKB/Swiss-Prot
  Q66HD1 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-30 Pla2g6  phospholipase A2 group VI  Pla2g6  phospholipase A2, group VI (cytosolic, calcium-independent)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-09 Pla2g6  phospholipase A2, group VI (cytosolic, calcium-independent)  Pla2g6  phospholipase A2, group VI  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Pla2g6  phospholipase A2, group VI      Symbol and Name status set to approved 1299863 APPROVED
2003-02-27 Pla2g6  phospholipase A2, group VI      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains amino acid residues 150-414 contain a domain that is homologous to tubulin binding and integral membrane protein binding domains of ankyrin 729507