Lypla1 (lysophospholipase 1) - Rat Genome Database

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Gene: Lypla1 (lysophospholipase 1) Rattus norvegicus
Analyze
Symbol: Lypla1
Name: lysophospholipase 1
RGD ID: 3025
Description: Exhibits lysophospholipase activity. Predicted to be involved in negative regulation of Golgi to plasma membrane protein transport and protein depalmitoylation. Predicted to localize to several cellular components, including cytosol; endoplasmic reticulum; and nuclear membrane. Orthologous to human LYPLA1 (lysophospholipase 1); PARTICIPATES IN glycerophospholipid metabolic pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: 25KDL; acyl-protein thioesterase 1; APT-1; LPL-I; lysophospholipase I; lysoPLA I; Pla1a
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
mRatBN7.2514,679,605 - 14,708,774 (-)NCBI
Rnor_6.0 Ensembl514,559,334 - 14,588,422 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0514,559,333 - 14,588,447 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0519,341,836 - 19,370,929 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4514,882,196 - 14,911,284 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1514,882,195 - 14,911,284 (-)NCBI
Celera514,050,814 - 14,079,913 (-)NCBICelera
Cytogenetic Map5q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3H-1,2-dithiole-3-thione  (EXP)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
9-cis-retinoic acid  (EXP)
acetamide  (EXP)
acrolein  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bexarotene  (EXP)
bisphenol A  (EXP,ISO)
C60 fullerene  (EXP)
cadmium dichloride  (EXP)
calcitriol  (EXP)
calcium atom  (EXP)
calcium(0)  (EXP)
carbon nanotube  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
copper(II) sulfate  (ISO)
diarsenic trioxide  (ISO)
Diisodecyl phthalate  (ISO)
diuron  (EXP)
doxorubicin  (ISO)
elemental selenium  (ISO)
ethanol  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
folpet  (ISO)
gentamycin  (EXP)
glafenine  (EXP)
iron atom  (EXP)
iron(0)  (EXP)
lithocholic acid  (ISO)
methylseleninic acid  (ISO)
N-nitrosodiethylamine  (EXP)
nefazodone  (EXP)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctanoic acid  (ISO)
phenylpropanolamine  (ISO)
phenytoin  (EXP)
pregnenolone 16alpha-carbonitrile  (ISO)
rac-lactic acid  (ISO)
selenium atom  (ISO)
sodium dichromate  (ISO)
sodium dodecyl sulfate  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (ISO)
Tributyltin oxide  (EXP)
triptonide  (ISO)
undecane  (EXP)
valproic acid  (ISO)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (IBA,ISO,ISS)
cytosol  (ISO)
endoplasmic reticulum  (ISO,ISS)
nuclear membrane  (ISO,ISS)
plasma membrane  (ISO,ISS)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:9624183   PMID:12477932   PMID:14651853   PMID:15489334   PMID:15555596   PMID:19439193   PMID:20418879   PMID:21393252   PMID:22399288   PMID:23376485   PMID:23533145   PMID:24682756  
PMID:27307232   PMID:31505169  


Genomics

Comparative Map Data
Lypla1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2514,679,605 - 14,708,774 (-)NCBI
Rnor_6.0 Ensembl514,559,334 - 14,588,422 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0514,559,333 - 14,588,447 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0519,341,836 - 19,370,929 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4514,882,196 - 14,911,284 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1514,882,195 - 14,911,284 (-)NCBI
Celera514,050,814 - 14,079,913 (-)NCBICelera
Cytogenetic Map5q12NCBI
LYPLA1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl854,046,367 - 54,102,017 (-)EnsemblGRCh38hg38GRCh38
GRCh38854,046,367 - 54,101,997 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37854,958,927 - 55,014,507 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36855,121,491 - 55,177,130 (-)NCBINCBI36hg18NCBI36
Build 34855,121,490 - 55,177,130NCBI
Celera850,949,236 - 51,005,140 (-)NCBI
Cytogenetic Map8q11.23NCBI
HuRef850,427,322 - 50,482,732 (-)NCBIHuRef
CHM1_1855,010,550 - 55,065,879 (-)NCBICHM1_1
Lypla1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3914,878,046 - 4,916,958 (+)NCBIGRCm39mm39
GRCm39 Ensembl14,878,011 - 4,918,633 (+)Ensembl
GRCm3814,807,823 - 4,846,735 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl14,807,788 - 4,848,410 (+)EnsemblGRCm38mm10GRCm38
MGSCv3714,797,974 - 4,836,816 (+)NCBIGRCm37mm9NCBIm37
MGSCv3614,797,974 - 4,836,816 (+)NCBImm8
Celera14,819,711 - 4,858,108 (+)NCBICelera
Cytogenetic Map1A1NCBI
Lypla1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495545413,356,851 - 13,385,110 (-)NCBIChiLan1.0ChiLan1.0
LYPLA1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1847,850,592 - 47,905,377 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl847,850,592 - 47,905,367 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0850,474,238 - 50,529,167 (-)NCBIMhudiblu_PPA_v0panPan3
LYPLA1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1295,656,376 - 5,696,901 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl295,616,961 - 5,697,284 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha296,031,347 - 6,072,546 (-)NCBI
ROS_Cfam_1.0295,732,636 - 5,773,863 (-)NCBI
UMICH_Zoey_3.1295,669,309 - 5,710,546 (-)NCBI
UNSW_CanFamBas_1.0295,874,942 - 5,916,139 (-)NCBI
UU_Cfam_GSD_1.0295,957,952 - 5,999,169 (-)NCBI
Lypla1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530373,814,174 - 73,848,519 (+)NCBI
SpeTri2.0NW_004936496937,918 - 971,315 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LYPLA1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl477,083,585 - 77,102,408 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1477,083,624 - 77,102,407 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2484,154,849 - 84,172,657 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LYPLA1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1850,120,930 - 50,171,517 (-)NCBI
Vero_WHO_p1.0NW_02366603991,764,068 - 91,814,847 (+)NCBI
Lypla1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247351,582,169 - 1,622,307 (+)NCBI

Position Markers
RH128529  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2514,679,665 - 14,679,881 (+)MAPPER
Rnor_6.0514,559,390 - 14,559,605NCBIRnor6.0
Rnor_5.0519,341,892 - 19,342,107UniSTSRnor5.0
RGSC_v3.4514,882,252 - 14,882,467UniSTSRGSC3.4
Celera514,050,870 - 14,051,085UniSTS
Cytogenetic Map5q12UniSTS
RH132667  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2514,704,984 - 14,705,193 (+)MAPPER
Rnor_6.0514,584,709 - 14,584,917NCBIRnor6.0
Rnor_5.0519,367,210 - 19,367,418UniSTSRnor5.0
RGSC_v3.4514,907,571 - 14,907,779UniSTSRGSC3.4
Celera514,076,202 - 14,076,410UniSTS
Cytogenetic Map5q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5189432042Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5193273395Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51136640934Rat
2312562Pur18Proteinuria QTL 182.60.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)5152509833001026Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5152509878720537Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5166658771552720Rat
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5325132926252076Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5325132948722188Rat
61462Niddm10Non-insulin dependent diabetes mellitus QTL 103.90.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)5452573847978104Rat
631827Alc4Alcohol consumption QTL 43.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)5787561118592319Rat
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)5863228553632285Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)59514842103580403Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512651967117554267Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51328888858288888Rat

miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
Mir138-2rno-miR-138-5pMirtarbaseexternal_infoLuciferase reporter assay//qRT-PCR//Western blotFunctional MTI20064393

Predicted Target Of
Summary Value
Count of predictions:282
Count of miRNA genes:191
Interacting mature miRNAs:228
Transcripts:ENSRNOT00000011312
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 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000011312   ⟹   ENSRNOP00000011312
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl514,559,334 - 14,588,422 (-)Ensembl
RefSeq Acc Id: NM_013006   ⟹   NP_037138
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2514,679,610 - 14,708,698 (-)NCBI
Rnor_6.0514,559,334 - 14,588,422 (-)NCBI
Rnor_5.0519,341,836 - 19,370,929 (-)NCBI
RGSC_v3.4514,882,196 - 14,911,284 (-)RGD
Celera514,050,814 - 14,079,913 (-)RGD
Sequence:
RefSeq Acc Id: XM_008763522   ⟹   XP_008761744
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0514,559,333 - 14,588,447 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039109305   ⟹   XP_038965233
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2514,679,605 - 14,708,746 (-)NCBI
RefSeq Acc Id: XM_039109306   ⟹   XP_038965234
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2514,683,282 - 14,708,746 (-)NCBI
RefSeq Acc Id: XM_039109307   ⟹   XP_038965235
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2514,681,061 - 14,708,774 (-)NCBI
RefSeq Acc Id: XM_039109308   ⟹   XP_038965236
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2514,685,962 - 14,708,722 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_037138   ⟸   NM_013006
- UniProtKB: P70470 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_008761744   ⟸   XM_008763522
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000011312   ⟸   ENSRNOT00000011312
RefSeq Acc Id: XP_038965233   ⟸   XM_039109305
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038965235   ⟸   XM_039109307
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038965234   ⟸   XM_039109306
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038965236   ⟸   XM_039109308
- Peptide Label: isoform X4

Transcriptome

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

Promoters
RGD ID:13693543
Promoter ID:EPDNEW_R4068
Type:initiation region
Name:Lypla1_1
Description:lysophospholipase I
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_6.0514,588,381 - 14,588,441EPDNEW

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)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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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:3025 AgrOrtholog
Ensembl Genes ENSRNOG00000008320 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000011312 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000011312 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.40.50.1820 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7190638 IMAGE-MGC_LOAD
InterPro AB_hydrolase UniProtKB/Swiss-Prot
  PLipase/COase/thioEstase UniProtKB/Swiss-Prot
KEGG Report rno:25514 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93566 IMAGE-MGC_LOAD
NCBI Gene 25514 ENTREZGENE
Pfam Abhydrolase_2 UniProtKB/Swiss-Prot
PhenoGen Lypla1 PhenoGen
Superfamily-SCOP SSF53474 UniProtKB/Swiss-Prot
TIGR TC229522
UniProt LYPA1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-12-04 Lypla1  lysophospholipase 1  Lypla1  lysophospholipase I  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-02-22 Lypla1  lysophospholipase I  Lypla1  lysophospholipase 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2001-06-12 Lypla1  Lysophospholipase 1      Name updated 62408 APPROVED
2001-06-12 Pla1a  Lysophospholipase      Symbol withdrawn, duplicate of Lypla1 (RGD:3025) 62408 WITHDRAWN

RGD Curation Notes
Note Type Note Reference
gene_domains contains a consensus sequence of arboxylesterases 633195
gene_expression ubiquitously expressed; enriched in the kidney and small intestine 633195
gene_protein 24 kDa 633195