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Gene: Pld4 (phospholipase D family, member 4) Rattus norvegicus

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Symbol:

Pld4

Name:

phospholipase D family, member 4

RGD ID:

1598308

Description:

Predicted to enable single-stranded DNA 5'-3' DNA exonuclease activity. Predicted to be involved in phagocytosis and regulation of cytokine production involved in inflammatory response. Predicted to act upstream of or within establishment of localization in cell and hematopoietic progenitor cell differentiation. Predicted to be located in several cellular components, including cytoplasmic vesicle; endoplasmic reticulum membrane; and trans-Golgi network membrane. Predicted to be active in endomembrane system. Orthologous to human PLD4 (phospholipase D family member 4); INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

5'-3' exonuclease PLD4; LOC362792; phospholipase D4; similar to phospholipase D family, member 4

RGD Orthologs

Alliance Orthologs

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):	PLD4 (phospholipase D family member 4)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Pld4 (phospholipase D family member 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Pld4 (phospholipase D family member 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	PLD4 (phospholipase D family member 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	PLD4 (phospholipase D family member 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Pld4 (phospholipase D family member 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	PLD4 (phospholipase D family member 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	PLD4 (phospholipase D family member 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Pld4 (phospholipase D family member 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Pld4 (phospholipase D family member 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	KLC3 (kinesin light chain 3)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	PLD4 (phospholipase D family member 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Pld4 (phospholipase D family member 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG43345	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	CG43345	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER)
Drosophila melanogaster (fruit fly):	CG9248	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG9248	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Caenorhabditis elegans (roundworm):	T05C3.6	Alliance	DIOPT (InParanoid\|OMA\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	T05C3.6	Alliance	DIOPT (InParanoid\|OMA\|OrthoInspector\|PANTHER\|SonicParanoid)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	137,639,948 - 137,647,462 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	6	137,639,945 - 137,649,024 (+)	Ensembl				GRCr8
mRatBN7.2	6	131,818,860 - 131,827,457 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	131,818,860 - 131,826,376 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	6	131,988,310 - 131,995,820 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	132,284,650 - 132,292,162 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	131,648,754 - 131,656,147 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	137,323,713 - 137,331,231 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	137,323,713 - 137,331,231 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	6	146,329,774 - 146,337,292 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	6	137,744,704 - 137,752,222 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	6	129,364,890 - 129,372,215 (+)	NCBI		Celera
Cytogenetic Map	6	q32	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Experimental Liver Cirrhosis (ISO)

Mycoplasma pneumoniae pneumonia (ISO)

rheumatoid arthritis (ISO)

systemic lupus erythematosus (ISS)

Systemic Lupus Erythematosus 18 (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-alpha-phellandrene (ISO)

1,1-dichloroethene (ISO)

1,2-dimethylhydrazine (ISO)

17beta-estradiol (EXP,ISO)

17beta-estradiol 3-benzoate (EXP)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2,4-dibromophenyl 2,4,5-tribromophenyl ether (ISO)

3,4-methylenedioxymethamphetamine (ISO)

3-chloropropane-1,2-diol (EXP)

4,4'-diaminodiphenylmethane (EXP)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

acetamide (EXP)

acrylamide (EXP)

all-trans-retinoic acid (ISO)

alpha-phellandrene (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP,ISO)

buta-1,3-diene (ISO)

cadmium atom (ISO)

cadmium dichloride (ISO)

carbon nanotube (ISO)

chlordecone (ISO)

chloroprene (ISO)

copper atom (EXP)

copper(0) (EXP)

DDT (EXP)

diazinon (ISO)

Dibutyl phosphate (ISO)

dimethylarsinic acid (ISO)

disodium selenite (ISO)

doxorubicin (ISO)

ethanol (ISO)

fonofos (ISO)

Heliotrine (EXP)

indoles (EXP)

iron atom (ISO)

iron(0) (ISO)

ketamine (EXP)

lead diacetate (ISO)

lidocaine (EXP)

methapyrilene (EXP)

methidathion (ISO)

methylarsonic acid (ISO)

N-nitrosodimethylamine (EXP)

nitrates (ISO)

oxaliplatin (EXP)

ozone (ISO)

paracetamol (ISO)

parathion (ISO)

rotenone (ISO)

senecionine (EXP)

sodium arsenate (ISO)

sodium arsenite (ISO)

Soman (EXP)

sulforaphane (ISO)

terbufos (ISO)

testosterone (EXP)

thioacetamide (EXP)

titanium dioxide (ISO)

topotecan (EXP)

trichloroethene (EXP)

triptonide (ISO)

valproic acid (ISO)

vitamin D (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

DNA metabolic process (IEA)

hematopoietic progenitor cell differentiation (ISO)

negative regulation of toll-like receptor 7 signaling pathway (ISO)

negative regulation of toll-like receptor 9 signaling pathway (ISO)

phagocytosis (IBA,ISO)

regulation of cytokine production involved in inflammatory response (ISO)

Cellular Component

early endosome (ISO)

endomembrane system (IBA)

endoplasmic reticulum (ISO)

endoplasmic reticulum membrane (ISO)

lysosome (ISO)

nucleus (ISO)

phagocytic vesicle (ISO)

trans-Golgi network membrane (ISO)

Molecular Function

5'-3' DNA exonuclease activity (ISO)

5'-3' RNA exonuclease activity (ISO)

acyltransferase activity, transferring groups other than amino-acyl groups (ISO)

catalytic activity (IEA)

D-type glycerophospholipase activity (ISO)

hydrolase activity, acting on ester bonds (IEA)

protein binding (ISO)

single-stranded DNA 5'-3' DNA exonuclease activity (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:12477932	PMID:21085684	PMID:22102906	PMID:24029230

Genomics

Comparative Map Data

Pld4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	137,639,948 - 137,647,462 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	6	137,639,945 - 137,649,024 (+)	Ensembl				GRCr8
mRatBN7.2	6	131,818,860 - 131,827,457 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	131,818,860 - 131,826,376 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	6	131,988,310 - 131,995,820 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	132,284,650 - 132,292,162 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	131,648,754 - 131,656,147 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	137,323,713 - 137,331,231 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	137,323,713 - 137,331,231 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	6	146,329,774 - 146,337,292 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	6	137,744,704 - 137,752,222 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	6	129,364,890 - 129,372,215 (+)	NCBI		Celera
Cytogenetic Map	6	q32	NCBI

PLD4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	14	104,924,879 - 104,937,785 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	14	104,924,713 - 104,937,761 (+)	Ensembl			hg38	GRCh38
GRCh37	14	105,391,216 - 105,404,122 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	14	104,462,232 - 104,470,618 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	14	104,462,268 - 104,470,618	NCBI
Celera	14	85,445,332 - 85,453,718 (+)	NCBI		Celera
Cytogenetic Map	14	q32.33	NCBI
HuRef	14	85,585,008 - 85,593,394 (+)	NCBI		HuRef
CHM1_1	14	105,328,651 - 105,337,037 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	14	99,170,773 - 99,184,262 (+)	NCBI		T2T-CHM13v2.0

Pld4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	112,727,089 - 112,735,420 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	112,727,089 - 112,735,424 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	12	112,760,446 - 112,768,986 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	112,760,655 - 112,768,990 (+)	Ensembl			mm10	GRCm38
MGSCv37	12	113,998,866 - 114,007,197 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	12	113,208,463 - 113,216,794 (+)	NCBI		MGSCv36	mm8
Celera	12	113,976,446 - 113,984,774 (+)	NCBI		Celera
Cytogenetic Map	12	F1	NCBI
cM Map	12	61.2	NCBI

Pld4
(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 Ensembl	NW_004955538	3,295,937 - 3,303,802 (+)	Ensembl
ChiLan1.0	NW_004955538	3,296,581 - 3,303,187 (+)	NCBI	ChiLan1.0	ChiLan1.0

PLD4
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	15	106,109,666 - 106,117,996 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	14	105,326,170 - 105,334,498 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	14	85,574,724 - 85,587,176 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	14	105,360,584 - 105,368,931 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	14	105,360,584 - 105,369,247 (+)	Ensembl			panPan2	panpan1.1

PLD4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	8	72,410,076 - 72,417,681 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	8	72,416,637 - 72,417,384 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	8	71,914,155 - 71,921,625 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	8	72,684,030 - 72,691,525 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	8	72,683,944 - 72,691,525 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	8	72,367,136 - 72,374,542 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	8	72,410,391 - 72,417,878 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	8	72,809,787 - 72,817,292 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Pld4
(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_024408640	1,686,753 - 1,694,420 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936621	515,636 - 523,359 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936621	515,710 - 523,317 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PLD4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa10.2	7	131,340,866 - 131,347,958 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PLD4
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	24	82,848,775 - 82,857,359 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	24	82,851,238 - 82,857,579 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666053	70,274,769 - 70,283,752 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Pld4
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624734	431,956 - 438,170 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624734	432,069 - 439,078 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Pld4
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	7	130,349,819 - 130,358,386 (+)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Pld4
80 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	38
Count of miRNA genes:	36
Interacting mature miRNAs:	38
Transcripts:	ENSRNOT00000029017
Prediction methods:	Miranda, Rnahybrid
Result types:	miRGate_prediction

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

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

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
4145118	Mcs26	Mammary carcinoma susceptibility QTL 26		0.0001	mammary gland integrity trait (VT:0010552)	post-insult time to mammary tumor formation (CMO:0000345)	6	112483610	147156653	Rat
1331797	Bp213	Blood pressure QTL 213	3.291		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	6	114241077	147156653	Rat
1641917	Colcr5	Colorectal carcinoma resistance QTL 5	3.18	0.0009	intestine integrity trait (VT:0010554)	benign colorectal tumor number (CMO:0001795)	6	98944780	143944780	Rat
71111	Iddm8	Insulin dependent diabetes mellitus QTL 8	1.9	0.002	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	6	110921244	147156653	Rat
724524	Uae2	Urinary albumin excretion QTL 2	2.7	0.0005	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	6	79198463	144254945	Rat
1358355	Srcrt4	Stress Responsive Cort QTL 4	6.39		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	6	106095977	147156653	Rat
2303624	Vencon5	Ventilatory control QTL 5	4.45		respiration trait (VT:0001943)	minute ventilation (CMO:0000132)	6	93778632	138778632	Rat
737976	Pia24	Pristane induced arthritis QTL 24			joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	6	118366855	147156653	Rat
2312560	Pur20	Proteinuria QTL 20	2.1	0.005	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	6	131392689	143944780	Rat
2313399	Anxrr28	Anxiety related response QTL 28			aggression-related behavior trait (VT:0015014)	tameness/aggressiveness composite score (CMO:0002136)	6	101593607	138161926	Rat
1298087	Iddm18	Insulin dependent diabetes mellitus QTL 18		0.0001	urine glucose amount (VT:0001758)	percentage of study population developing diabetes mellitus during a period of time (CMO:0001114)	6	122236101	147156653	Rat
12801471	Schws9	Schwannoma susceptibility QTL 9			nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	6	101593607	146593607	Rat
2293085	Iddm29	Insulin dependent diabetes mellitus QTL 29	7.66		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	6	121444670	147156653	Rat

Markers in Region

RH132624

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	131,826,005 - 131,826,199 (+)	MAPPER	mRatBN7.2
Rnor_6.0	6	137,330,861 - 137,331,054	NCBI	Rnor6.0
Rnor_5.0	6	146,336,922 - 146,337,115	UniSTS	Rnor5.0
RGSC_v3.4	6	137,751,852 - 137,752,045	UniSTS	RGSC3.4
Celera	6	129,371,845 - 129,372,038	UniSTS
RH 3.4 Map	6	783.0	UniSTS
Cytogenetic Map	6	q32	UniSTS

RH143811

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	6	131,826,701 - 131,826,996 (+)	MAPPER	mRatBN7.2
Rnor_6.0	6	137,331,557 - 137,331,850	NCBI	Rnor6.0
Rnor_5.0	6	146,337,618 - 146,337,911	UniSTS	Rnor5.0
RGSC_v3.4	6	137,752,548 - 137,752,841	UniSTS	RGSC3.4
Celera	6	129,372,541 - 129,372,835	UniSTS
RH 3.4 Map	6	783.7	UniSTS
Cytogenetic Map	6	q32	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	65	162	91	90	59	92	59	6	354	190	11	141	81	92	31	15	15

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001126288	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039112594	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC141959	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC161906	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474034	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ230808	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000029017 ⟹ ENSRNOP00000032119

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	6	137,639,945 - 137,647,444 (+)	Ensembl
mRatBN7.2 Ensembl	6	131,818,860 - 131,826,376 (+)	Ensembl
Rnor_6.0 Ensembl	6	137,323,713 - 137,331,231 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000115557 ⟹ ENSRNOP00000088750

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	6	137,639,958 - 137,649,024 (+)	Ensembl
mRatBN7.2 Ensembl	6	131,818,860 - 131,826,376 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000122215 ⟹ ENSRNOP00000107901

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	6	137,639,958 - 137,649,024 (+)	Ensembl

RefSeq Acc Id:

NM_001126288 ⟹ NP_001119760

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	137,639,948 - 137,647,462 (+)	NCBI
mRatBN7.2	6	131,818,860 - 131,826,376 (+)	NCBI
Rnor_6.0	6	137,323,713 - 137,331,231 (+)	NCBI
Rnor_5.0	6	146,329,774 - 146,337,292 (+)	NCBI
RGSC_v3.4	6	137,744,704 - 137,752,222 (+)	RGD
Celera	6	129,364,890 - 129,372,215 (+)	RGD

Sequence:

show sequence

GTAGAACAAAGGGGAAGTGAATGGAAGGGGAAGCAACAGGCCAGAGAGGAGGCAGGTGCCTGCA
CAGGCAAGGCCTGCAGACAATGACTGGAGCCAGGATGGACAAGAAAAAATGGCACCCAGAGATG
CTGATACCTCTGCAGACAACAATGGAGGTCCCTGACTGGCCCTACTCCACTCCACCTCATGGTC
CACACAACAGAGTTGGCATGGTACTAGGGATGCTGGCTATCCTGGGACTCGGCTCTGTGACTCT
CACCTTGTTCCTGTGGCAAGGGCCCACTTCTTTCACCAGTCCCCAGATGTTCCCTGAGGAAGTG
CCCTCCTGGTTCTGGGAGACCCTGAAAGGAGACACTGAGCAGAATAACTCCTGTCAGCTCATCC
TTGCGGAAAGTATTCCCGAGGACTTGCCGTTTGCAGCCGGCAGCCCCGCTGCCCAGCCGCTGGC
CCAGGCTTGGCTGCAGCTTCTTGACACTGCTCAGGAGAGCGTCCACATTGCCTCATACTACTGG
TCCCTCACCGGACAGGACGTTGGAGTCAATGACTCATCTTCTCAGCAGGGAGAGGCCCTTCTAC
AGAAGTTTCAACAGCTCCTTCTCAGGAATATCTCTGTGGTGGTGGCCACCCACAGCCCAACATT
GGCCAAGACATCCACTGACCTCCAGGTCTTGGCTGCCCACGGTGCCCAGATACGACAGGTTTCC
ATGAAACAGCTTACTGGTGGTGTCCTACACTCCAAATTCTGGGTTGTGGATGGGCGGCATGTCT
ACGTGGGCAGTGCCAACATGGACTGGCGGTCCCTTTCTCAGGTGAAGGAGCTTGGCGCTATCAT
CTACAACTGCAGTCACCTGGCTGAAGACCTTGAGAAAACATTCCAGACCTACTGGGTGCTGGGG
ACTCCCCAAGCTGTTCTCCCTAAACCCTGGCCTCGGAACTTCTCAACCCACATCAACCGGTTCC
ATCCCTTGCGGGGTCTCTTTGACGGGGTTCCCACCACAGCCTATTTCTCGGCCTCTCCTCCCTC
ACTCTGCCCCCATGGCCGTACCCGGGATCTGGACGCAGTGTTGGCAGTGATGGGGGGTGCTGGC
GAGTTCATCTACGTCTCAGTGATGGAGTACTTCCCTACCACGCGCTTCACTCACCCAGCCAGGT
ACTGGCCCGTGCTGGACAATGCACTACGGGCTGCGGCCTTCAATAAGGGTGTGCGTGTGCGCTT
ACTGGTCAGCTGCTGGTTCAACACAGACCCCACCATGTTCGCTTATCTGAGGTCCCTGCAGGCT
TTCAGTAACCCCTTGGCTGGCATCTCAGTGGATGTGAAAGTCTTCATTGTACCTGTGGGAAATC
ACTCCAACATCCCATTCAGCCGCGTGAACCACAGCAAGTTCATGGTCACAGACAAGACAGCCTA
TATAGGCACCTCTAACTGGTCAGAAGACTACTTCAGCGGCACCGCCGGTGTGGGCCTGGTTGTC
AGCCAGAAGACCCCTAGTGCCCAGCCAGCCGTGACCACCGTGCAGGAGCAGCTGAGGCAACTCT
TTGAACGGGACTGGAGTTCCCACTATGCCATGGGCCTGGACAGACAAATCCCGAGCCAGGATTG
TGTCTGGTAGGGCTGAGGGTTGATCCCTTTGACTCTGGCTTACAGCTCTAGGTGGACGCAGATA
CCCATCAGGCTTCCGTCCACCCAAGCTCAGAAACTGGGAAAGCAAAAGGCATCTCCCGGGGCCT
GAGATTGTCACCAGGCAAACAGCTTCTGGCAGAGCTCTAAATGGCTTTTAAATGAAGAGGAGAC
TAAAGCAGAGGAGGGCACACAGTGACACGGAAAGAAAGCAACCTCATCTAAGTGACCCCAGAAC
CCAGTTGGTCCTCCCTGACCTACCTACGATGAGGGTCTAGGGCCGTCCCCAGATGTAATGTTGG
TGCTGTCTGGCCACAACCCCTAATAAAACCCCACCACCAGCTTGCACACCTGACCCAGGTCAAA
GTGAG

hide sequence

RefSeq Acc Id:

XM_039112594 ⟹ XP_038968522

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	6	137,639,978 - 137,647,446 (+)	NCBI
mRatBN7.2	6	131,818,877 - 131,827,457 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001119760	(Get FASTA)	NCBI Sequence Viewer
	XP_038968522	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI61906	(Get FASTA)	NCBI Sequence Viewer
	EDL97419	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000032119
	ENSRNOP00000032119.4
	ENSRNOP00000088750.1
	ENSRNOP00000107901
	ENSRNOP00000107901.1

RefSeq Acc Id:

NP_001119760 ⟸ NM_001126288

- UniProtKB:

G3V904 (UniProtKB/TrEMBL), A6KBW2 (UniProtKB/TrEMBL), B1WBV8 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MEGEATGQRGGRCLHRQGLQTMTGARMDKKKWHPEMLIPLQTTMEVPDWPYSTPPHGPHNRVGM
VLGMLAILGLGSVTLTLFLWQGPTSFTSPQMFPEEVPSWFWETLKGDTEQNNSCQLILAESIPE
DLPFAAGSPAAQPLAQAWLQLLDTAQESVHIASYYWSLTGQDVGVNDSSSQQGEALLQKFQQLL
LRNISVVVATHSPTLAKTSTDLQVLAAHGAQIRQVSMKQLTGGVLHSKFWVVDGRHVYVGSANM
DWRSLSQVKELGAIIYNCSHLAEDLEKTFQTYWVLGTPQAVLPKPWPRNFSTHINRFHPLRGLF
DGVPTTAYFSASPPSLCPHGRTRDLDAVLAVMGGAGEFIYVSVMEYFPTTRFTHPARYWPVLDN
ALRAAAFNKGVRVRLLVSCWFNTDPTMFAYLRSLQAFSNPLAGISVDVKVFIVPVGNHSNIPFS
RVNHSKFMVTDKTAYIGTSNWSEDYFSGTAGVGLVVSQKTPSAQPAVTTVQEQLRQLFERDWSS
HYAMGLDRQIPSQDCVW

hide sequence

Ensembl Acc Id:

ENSRNOP00000032119 ⟸ ENSRNOT00000029017

RefSeq Acc Id:	XP_038968522 ⟸ XM_039112594
- Peptide Label:	isoform X1
- UniProtKB:	B1WBV8 (UniProtKB/TrEMBL)

Ensembl Acc Id:

ENSRNOP00000088750 ⟸ ENSRNOT00000115557

Ensembl Acc Id:

ENSRNOP00000107901 ⟸ ENSRNOT00000122215

Protein Domains

PLD phosphodiesterase

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-G3V904-F1-model_v2	AlphaFold	G3V904	1-529	view protein structure

Transcriptome

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

Promoters

RGD ID:

13694854

Promoter ID:

EPDNEW_R5377

Type:

initiation region

Name:

Pld4_1

Description:

phospholipase D family, member 4

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	6	137,323,755 - 137,323,815	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1598308	AgrOrtholog
BioCyc Gene	G2FUF-35776	BioCyc
Ensembl Genes	ENSRNOG00000028566	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000029017	ENTREZGENE
	ENSRNOT00000029017.5	UniProtKB/TrEMBL
	ENSRNOT00000115557.2	UniProtKB/TrEMBL
	ENSRNOT00000122215	ENTREZGENE
	ENSRNOT00000122215.1	UniProtKB/TrEMBL
Gene3D-CATH	Endonuclease Chain A	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:8367484	IMAGE-MGC_LOAD
InterPro	Diverse_PLD-related	UniProtKB/TrEMBL
	PLDc_3	UniProtKB/TrEMBL
	PLipase_D/transphosphatidylase	UniProtKB/TrEMBL
KEGG Report	rno:362792	UniProtKB/TrEMBL
MGC_CLONE	MGC:187627	IMAGE-MGC_LOAD
NCBI Gene	362792	ENTREZGENE
PANTHER	5'-3' EXONUCLEASE PLD4	UniProtKB/TrEMBL
	PHOSPHOLIPASE D - RELATED	UniProtKB/TrEMBL
Pfam	PLDc	UniProtKB/TrEMBL
	PLDc_3	UniProtKB/TrEMBL
PhenoGen	Pld4	PhenoGen
PROSITE	PLD	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000028566	RatGTEx
SMART	PLDc	UniProtKB/TrEMBL
Superfamily-SCOP	Phospholipase D/nuclease	UniProtKB/TrEMBL
UniProt	A0A8I6A8P9_RAT	UniProtKB/TrEMBL
	A0ABK0LUN9_RAT	UniProtKB/TrEMBL
	A6KBW2	ENTREZGENE, UniProtKB/TrEMBL
	B1WBV8	ENTREZGENE, UniProtKB/TrEMBL
	G3V904	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-03-05	Pld4	phospholipase D family, member 4	LOC362792	similar to phospholipase D family, member 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-11-20	LOC362792	similar to phospholipase D family, member 4			Symbol and Name status set to provisional	70820	PROVISIONAL

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)

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