Pnpla8 (patatin-like phospholipase domain containing 8) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Pnpla8 (patatin-like phospholipase domain containing 8) Rattus norvegicus
Analyze
Symbol: Pnpla8
Name: patatin-like phospholipase domain containing 8
RGD ID: 1311444
Description: Predicted to have calcium-independent phospholipase A2 activity. Predicted to be involved in several processes, including arachidonic acid secretion; glycerophospholipid catabolic process; and unsaturated fatty acid metabolic process. Predicted to localize to mitochondrion and peroxisomal membrane. Orthologous to human PNPLA8 (patatin like phospholipase domain containing 8); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; Brodifacoum.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: calcium-independent phospholipase A2-gamma; intracellular membrane-associated calcium-independent phospholipase A2 gamma; iPLA2-gamma; LOC314075; patatin-like phospholipase domain-containing protein 8; RGD1311444; similar to intracellular membrane-associated calcium-independent phospholipase A2 gamma
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2661,329,810 - 61,391,736 (+)NCBI
Rnor_6.0 Ensembl664,224,861 - 64,286,785 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0664,224,870 - 64,288,465 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0673,814,201 - 73,876,147 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4663,644,462 - 63,676,544 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1663,674,719 - 63,707,771 (+)NCBI
Celera660,325,313 - 60,388,908 (+)NCBICelera
Cytogenetic Map6q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:10744668   PMID:10833412   PMID:15695510   PMID:15908428   PMID:17213206  


Genomics

Comparative Map Data
Pnpla8
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2661,329,810 - 61,391,736 (+)NCBI
Rnor_6.0 Ensembl664,224,861 - 64,286,785 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0664,224,870 - 64,288,465 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0673,814,201 - 73,876,147 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4663,644,462 - 63,676,544 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1663,674,719 - 63,707,771 (+)NCBI
Celera660,325,313 - 60,388,908 (+)NCBICelera
Cytogenetic Map6q21NCBI
PNPLA8
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl7108,470,417 - 108,569,666 (-)EnsemblGRCh38hg38GRCh38
GRCh387108,470,417 - 108,528,178 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh377108,110,861 - 108,168,622 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367107,899,305 - 107,953,874 (-)NCBINCBI36hg18NCBI36
Celera7102,925,427 - 102,979,992 (-)NCBI
Cytogenetic Map7q31.1NCBI
HuRef7102,479,082 - 102,536,797 (-)NCBIHuRef
CHM1_17108,044,179 - 108,101,909 (-)NCBICHM1_1
CRA_TCAGchr7v27107,478,078 - 107,535,820 (-)NCBI
Pnpla8
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391244,315,916 - 44,362,718 (+)NCBIGRCm39mm39
GRCm39 Ensembl1244,268,153 - 44,369,315 (+)Ensembl
GRCm381244,269,132 - 44,315,936 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1244,221,370 - 44,322,532 (+)EnsemblGRCm38mm10GRCm38
MGSCv371245,370,141 - 45,414,424 (+)NCBIGRCm37mm9NCBIm37
MGSCv361245,139,472 - 45,182,573 (+)NCBImm8
Celera1245,626,908 - 45,667,980 (+)NCBICelera
Cytogenetic Map12B2NCBI
Pnpla8
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541012,711,082 - 12,753,433 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541012,715,072 - 12,753,433 (-)NCBIChiLan1.0ChiLan1.0
PNPLA8
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17113,176,014 - 113,230,799 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7113,177,202 - 113,230,799 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v07100,456,096 - 100,511,836 (-)NCBIMhudiblu_PPA_v0panPan3
PNPLA8
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11812,134,921 - 12,181,496 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1812,141,830 - 12,179,974 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1811,779,378 - 11,825,993 (+)NCBI
ROS_Cfam_1.01812,406,088 - 12,453,716 (+)NCBI
UMICH_Zoey_3.11812,223,261 - 12,270,831 (+)NCBI
UNSW_CanFamBas_1.01812,143,880 - 12,191,247 (+)NCBI
UU_Cfam_GSD_1.01812,371,185 - 12,418,564 (+)NCBI
Pnpla8
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511868,318,956 - 68,348,464 (-)NCBI
SpeTri2.0NW_0049366531,470,314 - 1,499,813 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PNPLA8
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9108,255,083 - 108,320,264 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.19108,271,343 - 108,320,574 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29119,139,826 - 119,157,430 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PNPLA8
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12177,385,923 - 77,437,894 (-)NCBI
ChlSab1.1 Ensembl2177,385,537 - 77,437,860 (-)Ensembl
Pnpla8
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473921,252,812 - 21,305,118 (+)NCBI

Position Markers
D6Rat204  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0664,257,523 - 64,257,741NCBIRnor6.0
Rnor_5.0673,846,885 - 73,847,103UniSTSRnor5.0
RGSC_v3.4663,677,094 - 63,677,311RGDRGSC3.4
RGSC_v3.4663,677,095 - 63,677,313UniSTSRGSC3.4
RGSC_v3.1663,680,220 - 63,680,437RGD
Celera660,357,966 - 60,358,184UniSTS
SHRSP x BN Map643.1999UniSTS
SHRSP x BN Map643.1999RGD
Cytogenetic Map6q21UniSTS
RH129565  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0664,286,570 - 64,286,750NCBIRnor6.0
Rnor_5.0673,875,932 - 73,876,112UniSTSRnor5.0
RGSC_v3.4663,706,142 - 63,706,322UniSTSRGSC3.4
Celera660,387,013 - 60,387,193UniSTS
RH 3.4 Map6449.9UniSTS
Cytogenetic Map6q21UniSTS
RH142249  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0664,252,053 - 64,252,232NCBIRnor6.0
Rnor_5.0673,841,415 - 73,841,594UniSTSRnor5.0
RGSC_v3.4663,671,625 - 63,671,804UniSTSRGSC3.4
Celera660,352,496 - 60,352,675UniSTS
RH 3.4 Map6449.5UniSTS
Cytogenetic Map6q21UniSTS
AI454558  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.0664,226,076 - 64,226,278NCBIRnor6.0
Rnor_5.0673,815,438 - 73,815,640UniSTSRnor5.0
RGSC_v3.4663,645,648 - 63,645,850UniSTSRGSC3.4
Celera660,326,519 - 60,326,721UniSTS
RH 3.4 Map6447.1UniSTS
Cytogenetic Map6q21UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2301972Bp325Blood pressure QTL 3254.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)6175623393Rat
1354664Slep2Serum leptin concentration QTL 24.49blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)6112039375023446Rat
1576309Emca7Estrogen-induced mammary cancer QTL 74mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)62537030111715717Rat
1578665Bss16Bone structure and strength QTL 164.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)6616172276002731Rat
1578668Bmd14Bone mineral density QTL 143.8femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)6616172276002731Rat
4145119Mcs25Mammary carcinoma susceptibility QTL 250.0001mammary gland integrity trait (VT:0010552)ratio of deaths to total study population during a period of time (CMO:0001023)67009971115379601Rat
8552910Pigfal5Plasma insulin-like growth factor 1 level QTL 54.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)61941788764417887Rat
1641898Colcr4Colorectal carcinoma resistance QTL43.710.0007intestine integrity trait (VT:0010554)well differentiated malignant colorectal tumor surface area measurement (CMO:0002077)62151530265784818Rat
2293839Kiddil2Kidney dilation QTL 24.8kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62204285484763421Rat
2293841Kiddil4Kidney dilation QTL 44.4kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)62204285484763421Rat
1300143Rf14Renal function QTL 142.92renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)63436743680490628Rat
1331779Rf38Renal function QTL 382.876kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)63499565675623393Rat
6893340Cm77Cardiac mass QTL 770.260.57heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)63626028884763275Rat
1354632Scl29Serum cholesterol level QTL 293.74blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)63760898075023446Rat
634307Bp141Blood pressure QTL 1414arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)63810630883106308Rat
9590290Uminl2Urine mineral level QTL 23.960.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)64167904686679046Rat
9590306Scort18Serum corticosterone level QTL 182.880.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64167904686679046Rat
9590140Scort4Serum corticosterone level QTL 414.490.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)64167904686679046Rat
634330Pia16Pristane induced arthritis QTL 163.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)648432758108268790Rat
4889848Pur25Proteinuria QTL 25140.003total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)65980306594001333Rat
1558641Cm47Cardiac mass QTL 472.90.001heart mass (VT:0007028)heart wet weight (CMO:0000069)660606431108154445Rat
6893332Cm74Cardiac mass QTL 740.40.64heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)660606431108154445Rat
70176Mcsm1Mammary carcinoma susceptibility modifier QTL 1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)662263348107263348Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:664
Count of miRNA genes:302
Interacting mature miRNAs:381
Transcripts:ENSRNOT00000047296
Prediction methods:Microtar, Miranda, 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 3 42 57 41 19 41 8 10 74 35 41 11 8
Low 1 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000047296   ⟹   ENSRNOP00000049214
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl664,252,020 - 64,286,785 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082105   ⟹   ENSRNOP00000073644
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl664,252,111 - 64,284,768 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093159   ⟹   ENSRNOP00000076225
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl664,224,861 - 64,252,776 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093514
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl664,252,715 - 64,253,371 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093567
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl664,224,971 - 64,256,899 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093664   ⟹   ENSRNOP00000076306
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl664,224,970 - 64,252,503 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000093700   ⟹   ENSRNOP00000076265
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl664,252,970 - 64,256,898 (+)Ensembl
RefSeq Acc Id: NM_001108020   ⟹   NP_001101490
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2661,329,810 - 61,391,736 (+)NCBI
RefSeq Acc Id: XM_003750150   ⟹   XP_003750198
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0664,224,870 - 64,288,465 (+)NCBI
Rnor_5.0673,814,201 - 73,876,147 (+)NCBI
Sequence:
RefSeq Acc Id: XM_003754170   ⟹   XP_003754218
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera660,325,313 - 60,388,908 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001101490 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein D3ZRC4 (Get FASTA)   NCBI Sequence Viewer  
  EDM03349 (Get FASTA)   NCBI Sequence Viewer  
  EDM03350 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_003750198   ⟸   XM_003750150
- Sequence:
RefSeq Acc Id: XP_003754218   ⟸   XM_003754170
- Sequence:
RefSeq Acc Id: ENSRNOP00000073644   ⟸   ENSRNOT00000082105
RefSeq Acc Id: ENSRNOP00000076265   ⟸   ENSRNOT00000093700
RefSeq Acc Id: ENSRNOP00000076306   ⟸   ENSRNOT00000093664
RefSeq Acc Id: ENSRNOP00000076225   ⟸   ENSRNOT00000093159
RefSeq Acc Id: ENSRNOP00000049214   ⟸   ENSRNOT00000047296
RefSeq Acc Id: NP_001101490   ⟸   NM_001108020
Protein Domains
PNPLA

Transcriptome

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

Promoters
RGD ID:13694579
Promoter ID:EPDNEW_R5101
Type:initiation region
Name:Pnpla8_1
Description:patatin-like phospholipase domain containing 8
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_6.0664,224,890 - 64,224,950EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
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 (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/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 (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)
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
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
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/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
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 (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHRSP/Gcrc (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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
SS/JrHsdMcwi (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)
SS/JrHsdMcwi (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
WAG/Rij (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/Gcrc (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/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
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)
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
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Damaging Variants


Assembly: Rnor_5.0

Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
6 73842097 73842098 A C snv IS/Kyo (KyushuU)
6 73873964 73873965 A T snv F344/Jcl (KyushuU)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311444 AgrOrtholog
Ensembl Genes ENSRNOG00000039091 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000049214 UniProtKB/Swiss-Prot
  ENSRNOP00000073644 UniProtKB/TrEMBL
  ENSRNOP00000076225 UniProtKB/TrEMBL
  ENSRNOP00000076265 UniProtKB/TrEMBL
  ENSRNOP00000076306 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000047296 UniProtKB/Swiss-Prot
  ENSRNOT00000082105 UniProtKB/TrEMBL
  ENSRNOT00000093159 UniProtKB/TrEMBL
  ENSRNOT00000093664 UniProtKB/TrEMBL
  ENSRNOT00000093700 UniProtKB/TrEMBL
InterPro Acyl_Trfase/lysoPLipase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PNPLA_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:314075 UniProtKB/Swiss-Prot
NCBI Gene 314075 ENTREZGENE
Pfam Patatin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Pnpla8 PhenoGen
PROSITE PNPLA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52151 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2K621_RAT UniProtKB/TrEMBL
  A0A1W2Q6C9_RAT UniProtKB/TrEMBL
  A0A1W2Q6G9_RAT UniProtKB/TrEMBL
  A0A1W2Q6K3_RAT UniProtKB/TrEMBL
  D3ZRC4 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-27 Pnpla8  patatin-like phospholipase domain containing 8  RGD1311444_predicted  similar to intracellular membrane-associated calcium-independent phospholipase A2 gamma (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1311444_predicted  similar to intracellular membrane-associated calcium-independent phospholipase A2 gamma (predicted)  LOC314075_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC314075_predicted  similar to intracellular membrane-associated calcium-independent phospholipase A2 gamma (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL