Lypla1 (lysophospholipase 1) - Rat Genome Database

Name: Lypla1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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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 ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	LYPLA1 (lysophospholipase 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Lypla1 (lysophospholipase 1)	HGNC	Treefam, EggNOG, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Lypla1 (lysophospholipase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LYPLA1 (lysophospholipase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LYPLA1 (lysophospholipase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Lypla1 (lysophospholipase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LYPLA1 (lysophospholipase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	LYPLA1 (lysophospholipase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Lypla1 (lysophospholipase 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	LYPLA2 (lysophospholipase 2)	HGNC	OrthoDB
Alliance orthologs ³
Homo sapiens (human):	LYPLA1 (lysophospholipase 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Lypla1 (lysophospholipase 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	CG18815	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Saccharomyces cerevisiae (baker's yeast):	TML25	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Caenorhabditis elegans (roundworm):	ath-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	14,679,605 - 14,708,774 (-)	NCBI
Rnor_6.0 Ensembl	5	14,559,334 - 14,588,422 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	5	14,559,333 - 14,588,447 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	5	19,341,836 - 19,370,929 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	14,882,196 - 14,911,284 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	14,882,195 - 14,911,284 (-)	NCBI
Celera	5	14,050,814 - 14,079,913 (-)	NCBI		Celera
Cytogenetic Map	5	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-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

fatty acid metabolic process (IEA)

negative regulation of Golgi to plasma membrane protein transport (ISO)

protein depalmitoylation (IBA,ISO,ISS)

Cellular Component

cytoplasm (IBA,ISO,ISS)

cytosol (ISO)

endoplasmic reticulum (ISO,ISS)

nuclear membrane (ISO,ISS)

plasma membrane (ISO,ISS)

Molecular Function

carboxylic ester hydrolase activity (IBA)

lipase activity (ISO)

lysophospholipase activity (IDA,ISO)

palmitoyl-(protein) hydrolase activity (IBA,ISO,ISS)

phospholipase activity (ISO)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

glycerophospholipid metabolic pathway (IEA,ISO)

References

References - curated


1.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	GOA data from the GO Consortium
3.	MGD data from the GO Consortium
4.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
5.	Ottolenghi A and Rowland JT, Arch Biochem Biophys 2002 Oct 15;406(2):190-202.
6.	Pipeline to import KEGG annotations from KEGG into RGD
7.	Pipeline to import SMPDB annotations from SMPDB into RGD
8.	Portilla D, etal., J Am Soc Nephrol 1998 Jul;9(7):1178-86.
9.	RGD automated data pipeline
10.	RGD automated import pipeline for gene-chemical interactions
11.	Sugimoto H, etal., J Biol Chem 1996 Mar 29;271(13):7705-11.
12.	Tentative Sequence Data IDs. TIGR Gene Index, Rat Data

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 Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	5	14,679,605 - 14,708,774 (-)	NCBI
Rnor_6.0 Ensembl	5	14,559,334 - 14,588,422 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	5	14,559,333 - 14,588,447 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	5	19,341,836 - 19,370,929 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	14,882,196 - 14,911,284 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	5	14,882,195 - 14,911,284 (-)	NCBI
Celera	5	14,050,814 - 14,079,913 (-)	NCBI		Celera
Cytogenetic Map	5	q12	NCBI

LYPLA1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	8	54,046,367 - 54,102,017 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	8	54,046,367 - 54,101,997 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	8	54,958,927 - 55,014,507 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	55,121,491 - 55,177,130 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	8	55,121,490 - 55,177,130	NCBI
Celera	8	50,949,236 - 51,005,140 (-)	NCBI
Cytogenetic Map	8	q11.23	NCBI
HuRef	8	50,427,322 - 50,482,732 (-)	NCBI		HuRef
CHM1_1	8	55,010,550 - 55,065,879 (-)	NCBI		CHM1_1

Lypla1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	4,878,046 - 4,916,958 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	1	4,878,011 - 4,918,633 (+)	Ensembl
GRCm38	1	4,807,823 - 4,846,735 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	4,807,788 - 4,848,410 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	4,797,974 - 4,836,816 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	1	4,797,974 - 4,836,816 (+)	NCBI			mm8
Celera	1	4,819,711 - 4,858,108 (+)	NCBI		Celera
Cytogenetic Map	1	A1	NCBI

Lypla1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0	NW_004955454	13,356,851 - 13,385,110 (-)	NCBI	ChiLan1.0	ChiLan1.0

LYPLA1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	8	47,850,592 - 47,905,377 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	47,850,592 - 47,905,367 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	8	50,474,238 - 50,529,167 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

LYPLA1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	29	5,656,376 - 5,696,901 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	29	5,616,961 - 5,697,284 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	29	6,031,347 - 6,072,546 (-)	NCBI
ROS_Cfam_1.0	29	5,732,636 - 5,773,863 (-)	NCBI
UMICH_Zoey_3.1	29	5,669,309 - 5,710,546 (-)	NCBI
UNSW_CanFamBas_1.0	29	5,874,942 - 5,916,139 (-)	NCBI
UU_Cfam_GSD_1.0	29	5,957,952 - 5,999,169 (-)	NCBI

Lypla1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405303	73,814,174 - 73,848,519 (+)	NCBI
SpeTri2.0	NW_004936496	937,918 - 971,315 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LYPLA1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	77,083,585 - 77,102,408 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	77,083,624 - 77,102,407 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	84,154,849 - 84,172,657 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LYPLA1
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	8	50,120,930 - 50,171,517 (-)	NCBI
Vero_WHO_p1.0	NW_023666039	91,764,068 - 91,814,847 (+)	NCBI

Lypla1
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624735	1,582,169 - 1,622,307 (+)	NCBI

Position Markers

RH128529

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	14,679,665 - 14,679,881 (+)	MAPPER
Rnor_6.0	5	14,559,390 - 14,559,605	NCBI	Rnor6.0
Rnor_5.0	5	19,341,892 - 19,342,107	UniSTS	Rnor5.0
RGSC_v3.4	5	14,882,252 - 14,882,467	UniSTS	RGSC3.4
Celera	5	14,050,870 - 14,051,085	UniSTS
Cytogenetic Map	5	q12	UniSTS

RH132667

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	14,704,984 - 14,705,193 (+)	MAPPER
Rnor_6.0	5	14,584,709 - 14,584,917	NCBI	Rnor6.0
Rnor_5.0	5	19,367,210 - 19,367,418	UniSTS	Rnor5.0
RGSC_v3.4	5	14,907,571 - 14,907,779	UniSTS	RGSC3.4
Celera	5	14,076,202 - 14,076,410	UniSTS
Cytogenetic Map	5	q12	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1331771	Rf35	Renal function QTL 35	4.36965		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	1	89432042	Rat
1331756	Rf34	Renal function QTL 34	4.16275		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	1	93273395	Rat
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	1	136640934	Rat
2312562	Pur18	Proteinuria QTL 18	2.6	0.001	total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	5	1525098	33001026	Rat
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	1525098	78720537	Rat
8662454	Vetf3	Vascular elastic tissue fragility QTL 3	27.4		artery integrity trait (VT:0010639)	number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)	5	1666587	71552720	Rat
2313085	Bss59	Bone structure and strength QTL 59	2.9	0.0001	long bone metaphysis morphology trait (VT:0000133)	tibia midshaft total cross-sectional area (CMO:0001715)	5	3251329	26252076	Rat
1300117	Hrtrt8	Heart rate QTL 8	3.49		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	5	3251329	48722188	Rat
61462	Niddm10	Non-insulin dependent diabetes mellitus QTL 10	3.9	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	5	4525738	47978104	Rat
631827	Alc4	Alcohol consumption QTL 4	3.5		consumption behavior trait (VT:0002069)	ethanol drink intake rate (CMO:0001407)	5	7875611	18592319	Rat
2293666	Bmd38	Bone mineral density QTL 38	4.4		femur size trait (VT:1000369)	femoral neck cortical cross-sectional area (CMO:0001702)	5	8632285	53632285	Rat
7394712	Emca13	Estrogen-induced mammary cancer QTL 13			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	9514842	103580403	Rat
634305	Mamtr1	Mammary tumor resistance QTL 1		0.0001	mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	12651967	117554267	Rat
1641903	Alcrsp3	Alcohol response QTL 3			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	13288888	58288888	Rat

miRNA Target Status

Confirmed Target Of

miRNA Gene	Mature miRNA	Method Name	Result Type	Data Type	Support Type	PMID
Mir138-2	rno-miR-138-5p	Mirtarbase	external_info	Luciferase reporter assay//qRT-PCR//Western blot	Functional MTI	20064393

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

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_013006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008763522	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109305	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109306	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109307	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039109308	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC131369	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC085750	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473984	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	D63885	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000160	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U97146	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000011312 ⟹ ENSRNOP00000011312

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	5	14,559,334 - 14,588,422 (-)	Ensembl

RefSeq Acc Id:

NM_013006 ⟹ NP_037138

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	14,679,610 - 14,708,698 (-)	NCBI
Rnor_6.0	5	14,559,334 - 14,588,422 (-)	NCBI
Rnor_5.0	5	19,341,836 - 19,370,929 (-)	NCBI
RGSC_v3.4	5	14,882,196 - 14,911,284 (-)	RGD
Celera	5	14,050,814 - 14,079,913 (-)	RGD

Sequence:

show sequence

CTCGCACGCCCTTCGGCTGCCGGGAGCCCGAGCTCCCTTCCGCCTTCCGACGCGCTGTCCGCCA
GCCGGTGGATGTGCGGCAACAACATGTCCGCCCCGATGCCCGCCGTTGTGCCCGCCGCCCGGAA
GGCCACCGCCGCGGTTATTTTCCTTCACGGATTGGGAGATACTGGGCACGGATGGGCAGAAGCC
TTCGCAGGTATCAAAAGTTCCCACATCAAATACATCTGTCCACATGCGCCTGTTATGCCAGTCA
CACTAAACATGAGTATGATGATGCCTTCTTGGTTTGATATTATTGGACTTTCACCAGATTCCCA
GGAGGATGAATCTGGAATTAAGCAGGCGGCAGAAACTGTAAAAGCCTTGATAGATCAAGAAGTG
AAGAATGGCATTCCTTCTAACAGAATTATTTTGGGAGGATTTTCTCAGGGAGGCGCCTTATCTT
TATACACTGCTCTCACCACACAGCAGAAACTGGCTGGTGTCACTGCACTCAGTTGCTGGCTTCC
ACTTCGGGCTTCGTTTTCACAGGGGCCTATCAATAGTGCTAATCGAGATATTTCTGTTCTCCAG
TGTCATGGAGACTGTGACCCTTTAGTTCCCCTAATGTTTGGTTCTCTTACTGTTGAAAGACTAA
AAGGATTGGTAAATCCAGCCAATGTAACCTTCAAAGTCTATGAAGGCATGATGCACAGCTCATG
TCAGCAGGAAATGATGGATGTCAAGTACTTCATTGATAAGCTCCTACCTCCAATTGATTGATGT
CACTAAGAGGCCTTGAGTAGACGTTCACCAGCATCACAGTAGTGGAGTATAAACCTTTCCCCAT
GACTGATCATAAAACTGCTAATGTTTGCAGTGTTAAAATGTTTTGCAAATACATACCAATGAGA
CAGACTAAATGATGTCTCCCTCATGGGAAATGTATGATCCTTTTACGTTTCTATGCATATATTT
GTATAATACAATTCAGAATATACTAGTATTACAGTAGGTAAGTGAAGCAACTAGCTTCTTTGTC
TCAAATTAATTCAGCAAAATAAGATAACACAAGCAGAGTTTTATTACATCATTTCAATTACTAG
TATGCTCTCTGAAAGTTTGTTCAGGTCTAAACAAGCTGTTAAGATGTAAGTGACTTCTTAATTC
TGTGAGTTAGACTATAGTTTTACTCCACAAGTGTTGAGTCATCACGCAGTGTCTGTGTTTCTGT
TTGTATTCACACATACGTGACTGGGATACCTAAGATGGTATTACATCATCCCTGACCATAGGGA
TCGTGCTCTTAAGTGTCAAAAGTAATACTGCTCTCTGCAATTAATCGCCCTGCTACTGGGGGAC
CAGGCTTCCCCCCTTCGATGTAACTTTTCTCCTTTCAAGAAGAAAAAGGTAGATTCTTTTTTGG
TTTCCATAGAAAAGTAATATTGCCTCCCTGTCATAAAGAAATATCTGTCATTATATATTATTTT
GACATTCTGAAACACAGACATACAGTATTTCCAATATAGGTAATATGAAAAGAAACCACACATT
ACTTAAGCGTACATATTTCAAATAACAATCTTCAGACCAGAATCTTCAGTGCTGGTCATTAATT
CTGTGGTTTTATTTTTCTATAAAAACTTAAAGGGTAAATAATATCTTGGCGTGTTTAGAAATAC
TTGTGACTGGTTTTAGAATATAATTTCTTAAACATAGCAGAGTTTAAGTTTACATTTTCTGTAC
ATGTTATGCTTAAAACCAAATACTGTTCAAGATGAGCAGTCAAATTTGTTTTATTTTCATCTGG
GTAACATGCTAATTTGAAATTTTCATCTTCAGTAAAGGAGCTTTTGATAATCAGTCTCCTGTGC
AAATATTAAAATAACAATCATTTGATTTTAAATCATCAACATGTTCAAAATACTGCTGAAAATT
ATTTAATTTATGGATAATAAGGACTGGTTAGAACCCACATATATAAACCCATATTTATAACTGT
TTCCACACAGTTGAGTATGTTACAAAAATTATGGTTATTTCTGAACAGTTTCTTTTCCTGCTGT
TTTTCAACCGACCAAGAAGAAGGAAGCATCTTTGTAAGCAGGAGCTAACTGATGTGGGGTCATT
TGGTGTGTCCGAGATAGAGTGTTAACAATGAAGCCGATTGTTTATGTCTAGATTTAAAACAATT
TCAAACAATCATTTACTATTTTGCTTTACTTTGAAGAGCATACATTTACTTCAGTTATTGTATC
TGTAAAAATTTATTTGGGGTAAGAAATATTCCGTTGAATTTGTGTGCTGTAATGTGGGAAAATG
TCATGTTTTTCACAGTTTCTATCAATGTGAAATAAAATTTAATTTTGGCTTT

hide sequence

RefSeq Acc Id:

XM_008763522 ⟹ XP_008761744

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	5	14,559,333 - 14,588,447 (-)	NCBI

Sequence:

show sequence

CGGAGGGGCGGGCTGGGACTCTCGGCTCGCACGCCCTTCGGCTGCCGGGAGCCCGAGCTCCCTT
CCGCTTCCGACGCGCTGTCCGCCAGCCGGTGGATGTGCGGCAACAACATGTCCGCCCCGATGCC
CGCCGTTGTGCCCGCCGCCCGGAAGGCCACCGCCGCGGCACGGATGGGCAGAAGCCTTCGCAGG
TATCAAAAGTTCCCACATCAAATACATCTGTCCACATGCGCCTGTTATGCCAGTCACACTAAAC
ATGAGTATGATGATGCCTTCTTGGTTTGATATTATTGGACTTTCACCAGATTCCCAGGAGGATG
AATCTGGAATTAAGCAGGCGGCAGAAACTGTAAAAGCCTTGATAGATCAAGAAGTGAAGAATGG
CATTCCTTCTAACAGAATTATTTTGGGAGGATTTTCTCAGGGAGGCGCCTTATCTTTATACACT
GCTCTCACCACACAGCAGAAACTGGCTGGTGTCACTGCACTCAGTTGCTGGCTTCCACTTCGGG
CTTCGTTTTCACAGGGGCCTATCAATAGTGCTAATCGAGATATTTCTGTTCTCCAGTGTCATGG
AGACTGTGACCCTTTAGTTCCCCTAATGTTTGGTTCTCTTACTGTTGAAAGACTAAAAGGATTG
GTAAATCCAGCCAATGTAACCTTCAAAGTCTATGAAGGCATGATGCACAGCTCATGTCAGCAGG
AAATGATGGATGTCAAGTACTTCATTGATAAGCTCCTACCTCCAATTGATTGATGTCACTAAGA
GGCCTTGAGTAGACGTTCACCAGCATCACAGTAGTGGAGTATAAACCTTTCCCCATGACTGATC
ATAAAACTGCTAATGTTTGCAGTGTTAAAATGTTTTGCAAATACATACCAATGAGACAGACTAA
ATGATGTCTCCCTCATGGGAAATGTATGATCCTTTTACGTTTCTATGCATATATTTGTATAATA
CAATTCAGAATATACTAGTATTACAGTAGGTAAGTGAAGCAACTAGCTTCTTTGTCTCAAATTA
ATTCAGCAAAATAAGATAACACAAGCAGAGTTTTATTACATCATTTCAATTACTAGTATGCTCT
CTGAAAGTTTGTTCAGGTCTAAACAAGCTGTTAAGATGTAAGTGACTTCTTAATTCTGTGAGTT
AGACTATAGTTTTACTCCACAAGTGTTGAGTCATCACGCAGTGTCTGTGTTTCTGTTTGTATTC
ACACATACGTGACTGGGATACCTAAGATGGTATTACATCATCCCTGACCATAGGGATCGTGCTC
TTAAGTGTCAAAAGTAATACTGCTCTCTGCAATTAATCGCCCTGCTACTGGGGGACCAGGCTTC
CCCCCTTCGATGTAACTTTTCTCCTTTCAAGAAGAAAAAGGTAGATTCTTTTTTGGTTTCCATA
GAAAAGTAATATTGCCTCCCTGTCATAAAGAAATATCTGTCATTATATATTATTTTGACATTCT
GAAACACAGACATACAGTATTTCCAATATAGGTAATATGAAAAGAAACCACACATTACTTAAGC
GTACATATTTCAAATAACAATCTTCAGACCAGAATCTTCAGTGCTGGTCATTAATTCTGTGGTT
TTATTTTTCTATAAAAACTTAAAGGGTAAATAATATCTTGGCGTGTTTAGAAATACTTGTGACT
GGTTTTAGAATATAATTTCTTAAACATAGCAGAGTTTAAGTTTACATTTTCTGTACATGTTATG
CTTAAAACCAAATACTGTTCAAGATGAGCAGTCAAACTTGTTTTATTTTCATCTGGGTAACATG
CTAATTTGAAATTTTCATCTTCAGTAAAGGAGCTTTTGATAATCAGTCTCCTGTGCAAATATTA
AAATAACAATCATTTGATTTTAAATCATCAACATGTTCAAAATACTGCTGAAAATTATTTAATT
TATGGATAATAAGGACTGGTTAGAACCCACATATATAAACCCATATTTATAACTGTTTCCACAC
AGTTGAGTATGTTACAAAAATTATGGTTATTTCTGAACGGTTTCTTTTCCTGCTGTTTTTCAAC
CGACCAAGAAGAAGGAAGCATCTTTGTAAGCAGGAGCTAACTGATGTGGGGTCATTTGGTGTGT
CCGAGATAGAGTGTTAACAATGAAGCCGATTGTTTATGTCTAGATTTAAAACAATTTCAAACAA
TCATTTACTATTTTGCTTTACTTTGAAGAGCATACATTTACTTCAGTTATTGTATCTGTAAAAA
TTTATTTGGGGTAAGAAATATTCTGTTGAATTTGTGTGCTGTAATGTGGGAAAATGTCATGTTT
TTCACAGTTTCTATCAATGTGAAATAAAATTTAATTTTGGCTTTA

hide sequence

RefSeq Acc Id:

XM_039109305 ⟹ XP_038965233

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	14,679,605 - 14,708,746 (-)	NCBI

RefSeq Acc Id:

XM_039109306 ⟹ XP_038965234

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	14,683,282 - 14,708,746 (-)	NCBI

RefSeq Acc Id:

XM_039109307 ⟹ XP_038965235

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	14,681,061 - 14,708,774 (-)	NCBI

RefSeq Acc Id:

XM_039109308 ⟹ XP_038965236

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	5	14,685,962 - 14,708,722 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_037138	(Get FASTA)	NCBI Sequence Viewer
	XP_038965233	(Get FASTA)	NCBI Sequence Viewer
	XP_038965234	(Get FASTA)	NCBI Sequence Viewer
	XP_038965235	(Get FASTA)	NCBI Sequence Viewer
	XP_038965236	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC63430	(Get FASTA)	NCBI Sequence Viewer
	AAH85750	(Get FASTA)	NCBI Sequence Viewer
	BAA09935	(Get FASTA)	NCBI Sequence Viewer
	EDM11589	(Get FASTA)	NCBI Sequence Viewer
	P70470	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_037138 ⟸ NM_013006

- UniProtKB:

P70470 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MCGNNMSAPMPAVVPAARKATAAVIFLHGLGDTGHGWAEAFAGIKSSHIKYICPHAPVMPVTLN
MSMMMPSWFDIIGLSPDSQEDESGIKQAAETVKALIDQEVKNGIPSNRIILGGFSQGGALSLYT
ALTTQQKLAGVTALSCWLPLRASFSQGPINSANRDISVLQCHGDCDPLVPLMFGSLTVERLKGL
VNPANVTFKVYEGMMHSSCQQEMMDVKYFIDKLLPPID

hide sequence

RefSeq Acc Id:	XP_008761744 ⟸ XM_008763522
- Peptide Label:	isoform X1
- Sequence:	show sequence MPVTLNMSMMMPSWFDIIGLSPDSQEDESGIKQAAETVKALIDQEVKNGIPSNRIILGGFSQGG ALSLYTALTTQQKLAGVTALSCWLPLRASFSQGPINSANRDISVLQCHGDCDPLVPLMFGSLTV ERLKGLVNPANVTFKVYEGMMHSSCQQEMMDVKYFIDKLLPPID hide 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 Assembly	Chr	Position (strand)	Source
Rnor_6.0	5	14,588,381 - 14,588,441	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

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

ACI/EurMcwi (RGD)

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

ACI/N (MCW)

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

BBDP/Wor (RGD)

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

BN/SsN (MCW)

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

Buf/N (MCW)

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

COP/CrCrl (MCW & UW)

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

F344/NCrl (RGD)

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

F344/NRrrc (MCW)

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

FHH/EurMcwi (MCW)

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

FHH/EurMcwi (RGD)

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

FHL/EurMcwi (MCW)

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

FHL/EurMcwi (RGD)

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

GH/OmrMcwi (MCW)

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

GK/Ox (RGD)

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

LE/Stm (RGD)

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

LEW/Crl (RGD)

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

LEW/NCrlBR (RGD)

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

LH/MavRrrc (RGD)

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

LL/MavRrrc (RGD)

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

LN/MavRrrc (RGD)

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

M520/N (MCW)

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

MHS/Gib (RGD)

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

MNS/Gib (RGD)

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

MR/N (MCW)

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

SBH/Ygl (MCW)

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

SBH/Ygl (RGD)

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

SBN/Ygl (MCW)

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

SBN/Ygl (RGD)

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

SHR/NHsd (RGD)

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

SHRSP/Gcrc (RGD)

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

SR/JrHsd (MCW)

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

SR/JrHsd (RGD)

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

SS/Jr (RGD)

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

SS/JrHsdMcwi (MCW)

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

SS/JrHsdMcwi (RGD)

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

WAG/Rij (RGD)

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

WKY/Gcrc (RGD)

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

WKY/N (MCW)

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

WKY/NCrl (RGD)

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

WKY/NHsd (RGD)

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

WN/N (MCW)

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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

External Database Links

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

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)

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Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)