PLD2 (phospholipase D2) - Rat Genome Database

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Gene: PLD2 (phospholipase D2) Homo sapiens
Analyze
Symbol: PLD2
Name: phospholipase D2
RGD ID: 733873
HGNC Page HGNC
Description: Predicted to enable phospholipase D activity. Predicted to be involved in cell motility. Predicted to act upstream of or within G protein-coupled receptor internalization. Predicted to be located in brush border membrane. Biomarker of renal cell carcinoma.
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: choline phosphatase 2; hPLD2; phosphatidylcholine-hydrolyzing phospholipase D2; PLD 2; PLD1C
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl174,807,152 - 4,823,434 (+)EnsemblGRCh38hg38GRCh38
GRCh38174,807,152 - 4,823,432 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37174,710,447 - 4,726,725 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36174,657,378 - 4,673,694 (+)NCBINCBI36hg18NCBI36
Build 34174,657,391 - 4,673,694NCBI
Celera174,725,830 - 4,742,140 (+)NCBI
Cytogenetic Map17p13.2NCBI
HuRef174,598,848 - 4,615,181 (+)NCBIHuRef
CHM1_1174,719,366 - 4,735,679 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (EXP)
(S)-nicotine  (EXP)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
17beta-estradiol 3-benzoate  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-naphthylamine  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
acrylamide  (EXP)
actinomycin D  (ISO)
aflatoxin B1  (ISO)
ammonium chloride  (ISO)
amphetamine  (ISO)
aspartame  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (EXP,ISO)
beta-endorphin  (EXP)
beta-naphthoflavone  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (ISO)
bisphenol F  (ISO)
butan-1-ol  (EXP,ISO)
C60 fullerene  (ISO)
cadmium dichloride  (ISO)
calcitriol  (EXP)
cholesterol  (EXP)
cisplatin  (EXP,ISO)
cobalt dichloride  (EXP)
cocaine  (ISO)
decabromodiphenyl ether  (ISO)
dimethylarsinic acid  (ISO)
ethanol  (ISO)
fentanyl  (EXP)
flavonoids  (ISO)
folic acid  (ISO)
furan  (ISO)
ganglioside GM1  (ISO)
Goe 6976  (EXP)
hydrogen peroxide  (ISO)
Ilimaquinone  (EXP)
ionomycin  (EXP,ISO)
leflunomide  (EXP)
linoleic acid  (EXP)
lithocholic acid  (ISO)
loperamide  (EXP)
manganese(II) chloride  (ISO)
methadone  (EXP)
monosodium L-glutamate  (ISO)
N-acetyl-L-cysteine  (EXP)
N-nitrosodiethylamine  (ISO)
nicotine  (EXP)
ochratoxin A  (ISO)
phorbol 13-acetate 12-myristate  (EXP,ISO)
phosphatidic acid  (ISO)
potassium chloride  (ISO)
prostaglandin E2  (EXP)
reactive oxygen species  (ISO)
SB 203580  (EXP)
sunitinib  (EXP)
testosterone  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:9395408   PMID:9582313   PMID:9761774   PMID:9837959   PMID:9858823   PMID:10675563   PMID:10764771   PMID:10801846   PMID:10926929   PMID:11018470   PMID:11032811   PMID:11042115  
PMID:11076863   PMID:11373276   PMID:11672434   PMID:11687572   PMID:11741937   PMID:11744693   PMID:11876650   PMID:12149127   PMID:12374567   PMID:12429836   PMID:12446727   PMID:12477932  
PMID:12486109   PMID:12519790   PMID:12601529   PMID:12615079   PMID:12646582   PMID:12697812   PMID:12753082   PMID:12782287   PMID:14675200   PMID:14704231   PMID:14718562   PMID:14744865  
PMID:15052337   PMID:15052340   PMID:15210717   PMID:15265082   PMID:15282299   PMID:15489334   PMID:15489336   PMID:15548524   PMID:15665518   PMID:15798205   PMID:15896299   PMID:15919668  
PMID:16118212   PMID:16341931   PMID:16344560   PMID:16381901   PMID:16407827   PMID:16622417   PMID:16824927   PMID:16837165   PMID:16873675   PMID:16964281   PMID:17276458   PMID:17486115  
PMID:17486117   PMID:17627030   PMID:17640750   PMID:17853892   PMID:17914593   PMID:17977756   PMID:17986621   PMID:18296444   PMID:18344600   PMID:18423386   PMID:18432522   PMID:18523140  
PMID:18625302   PMID:18694819   PMID:19086053   PMID:19366706   PMID:19519662   PMID:19578796   PMID:19666113   PMID:19707939   PMID:19864325   PMID:19896495   PMID:19913121   PMID:20147969  
PMID:20176813   PMID:20188462   PMID:20410302   PMID:20628086   PMID:20647543   PMID:20711340   PMID:20733000   PMID:21145461   PMID:21147981   PMID:21276418   PMID:21308979   PMID:21378159  
PMID:21414324   PMID:21440060   PMID:21760893   PMID:21854185   PMID:21873635   PMID:21944249   PMID:22094461   PMID:22106281   PMID:22199357   PMID:22359512   PMID:22504301   PMID:23213138  
PMID:23238254   PMID:23404507   PMID:23649737   PMID:23723068   PMID:23752189   PMID:24103483   PMID:24164897   PMID:24252804   PMID:24257753   PMID:24270883   PMID:24618697   PMID:24637612  
PMID:24650665   PMID:24947526   PMID:24956203   PMID:24990944   PMID:25064843   PMID:25065577   PMID:25172550   PMID:25197053   PMID:25308783   PMID:25354038   PMID:25432699   PMID:25475140  
PMID:25523098   PMID:26124282   PMID:26186194   PMID:26611735   PMID:26673895   PMID:26687479   PMID:26695710   PMID:26781944   PMID:26818087   PMID:27034005   PMID:27197753   PMID:27280401  
PMID:27510034   PMID:28087476   PMID:28514442   PMID:28656282   PMID:28675297   PMID:28831159   PMID:29656494   PMID:29660846   PMID:30091007   PMID:30305726   PMID:30369483   PMID:31586073  
PMID:31673104   PMID:32327488   PMID:32661773   PMID:32687545   PMID:32780723   PMID:32800947   PMID:32814053   PMID:33495125   PMID:33927069   PMID:33961781  


Genomics

Comparative Map Data
PLD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl174,807,152 - 4,823,434 (+)EnsemblGRCh38hg38GRCh38
GRCh38174,807,152 - 4,823,432 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37174,710,447 - 4,726,725 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36174,657,378 - 4,673,694 (+)NCBINCBI36hg18NCBI36
Build 34174,657,391 - 4,673,694NCBI
Celera174,725,830 - 4,742,140 (+)NCBI
Cytogenetic Map17p13.2NCBI
HuRef174,598,848 - 4,615,181 (+)NCBIHuRef
CHM1_1174,719,366 - 4,735,679 (+)NCBICHM1_1
Pld2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391170,430,318 - 70,448,936 (+)NCBIGRCm39mm39
GRCm39 Ensembl1170,430,890 - 70,448,936 (+)Ensembl
GRCm381170,539,492 - 70,558,110 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1170,540,064 - 70,558,110 (+)EnsemblGRCm38mm10GRCm38
MGSCv371170,353,666 - 70,371,612 (+)NCBIGRCm37mm9NCBIm37
MGSCv361170,356,359 - 70,374,305 (+)NCBImm8
Celera1178,088,483 - 78,106,417 (+)NCBICelera
Cytogenetic Map11B3NCBI
cM Map1142.99NCBI
Pld2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21055,256,326 - 55,274,192 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1055,256,359 - 55,272,808 (+)Ensembl
Rnor_6.01057,161,921 - 57,181,148 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1057,163,174 - 57,179,730 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01056,908,891 - 56,926,691 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41057,388,474 - 57,439,063 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11057,402,096 - 57,452,684 (+)NCBI
Celera1054,402,188 - 54,419,867 (+)NCBICelera
Cytogenetic Map10q24NCBI
Pld2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546710,239,177 - 10,250,890 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546710,239,177 - 10,250,516 (+)NCBIChiLan1.0ChiLan1.0
PLD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1174,843,095 - 4,858,991 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl174,843,217 - 4,858,425 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0174,853,919 - 4,870,254 (+)NCBIMhudiblu_PPA_v0panPan3
PLD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1531,755,881 - 31,767,131 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl531,756,433 - 31,767,066 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha531,895,467 - 31,907,045 (-)NCBI
ROS_Cfam_1.0531,861,137 - 31,872,703 (-)NCBI
UMICH_Zoey_3.1531,827,405 - 31,838,971 (-)NCBI
UNSW_CanFamBas_1.0531,787,088 - 31,798,653 (-)NCBI
UU_Cfam_GSD_1.0531,963,496 - 31,975,051 (-)NCBI
Pld2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560253,017,042 - 53,030,311 (+)NCBI
SpeTri2.0NW_0049366772,870,664 - 2,883,545 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1252,073,896 - 52,087,809 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11252,073,913 - 52,087,804 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21254,192,761 - 54,204,085 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PLD2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1164,283,248 - 4,298,034 (+)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl164,283,521 - 4,298,632 (+)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605917,339,077 - 17,355,649 (-)NCBIVero_WHO_p1.0
Pld2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247868,690,968 - 8,702,213 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
RH12418  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37174,726,455 - 4,726,601UniSTSGRCh37
Build 36174,673,422 - 4,673,568RGDNCBI36
Celera174,741,868 - 4,742,014RGD
Cytogenetic Map17p13.1UniSTS
HuRef174,614,909 - 4,615,055UniSTS
A006R35  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37174,726,588 - 4,726,695UniSTSGRCh37
Build 36174,673,555 - 4,673,662RGDNCBI36
Celera174,742,001 - 4,742,108RGD
Cytogenetic Map17p13.1UniSTS
HuRef174,615,042 - 4,615,149UniSTS
GeneMap99-GB4 RH Map1744.76UniSTS

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:4846
Count of miRNA genes:1115
Interacting mature miRNAs:1426
Transcripts:ENST00000263088, ENST00000571273, ENST00000572127, ENST00000572199, ENST00000572940, ENST00000573258, ENST00000574268, ENST00000574796, ENST00000575246, ENST00000575316, ENST00000575813, ENST00000575945, ENST00000576329, ENST00000576864, ENST00000576983
Prediction methods:Microtar, 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.


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 sensory system adipose tissue appendage entire extraembryonic component
High
Medium 2282 1725 1273 283 1003 125 3506 956 3039 269 1199 1535 171 1191 1969 3
Low 150 1259 449 339 926 339 849 1236 669 149 249 73 13 819 1
Below cutoff 1 14 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NG_029608 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001243108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_002663 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_005256696 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017024764 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001752533 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001752534 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001752535 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001752536 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_001752537 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_002958023 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_002958024 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB209374 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC109333 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC233723 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF033850 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF035483 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF038440 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF038441 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK304246 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK314797 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY178289 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC015033 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC056871 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DA390950 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DC407587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000263088   ⟹   ENSP00000263088
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,807,152 - 4,823,430 (+)Ensembl
RefSeq Acc Id: ENST00000571273
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,817,944 - 4,819,213 (+)Ensembl
RefSeq Acc Id: ENST00000572127
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,818,198 - 4,819,465 (+)Ensembl
RefSeq Acc Id: ENST00000572199
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,816,708 - 4,817,375 (+)Ensembl
RefSeq Acc Id: ENST00000572940   ⟹   ENSP00000459571
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,807,169 - 4,823,428 (+)Ensembl
RefSeq Acc Id: ENST00000573258
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,815,903 - 4,817,137 (+)Ensembl
RefSeq Acc Id: ENST00000574268
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,807,192 - 4,809,118 (+)Ensembl
RefSeq Acc Id: ENST00000574796
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,814,150 - 4,815,869 (+)Ensembl
RefSeq Acc Id: ENST00000575246   ⟹   ENSP00000459304
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,807,183 - 4,818,385 (+)Ensembl
RefSeq Acc Id: ENST00000575316   ⟹   ENSP00000458795
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,807,562 - 4,809,325 (+)Ensembl
RefSeq Acc Id: ENST00000575813   ⟹   ENSP00000461459
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,810,807 - 4,815,554 (+)Ensembl
RefSeq Acc Id: ENST00000575945
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,821,640 - 4,822,795 (+)Ensembl
RefSeq Acc Id: ENST00000576329
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,815,859 - 4,816,905 (+)Ensembl
RefSeq Acc Id: ENST00000576864   ⟹   ENSP00000460477
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,818,593 - 4,823,434 (+)Ensembl
RefSeq Acc Id: ENST00000576983   ⟹   ENSP00000460250
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p13 Ensembl174,817,146 - 4,819,515 (+)Ensembl
RefSeq Acc Id: NM_001243108   ⟹   NP_001230037
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,807,152 - 4,823,430 (+)NCBI
GRCh37174,710,396 - 4,726,727 (+)NCBI
HuRef174,598,848 - 4,615,181 (+)NCBI
CHM1_1174,719,366 - 4,735,679 (+)NCBI
Sequence:
RefSeq Acc Id: NM_002663   ⟹   NP_002654
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,807,152 - 4,823,430 (+)NCBI
GRCh37174,710,396 - 4,726,727 (+)NCBI
Build 36174,657,378 - 4,673,694 (+)NCBI Archive
HuRef174,598,848 - 4,615,181 (+)NCBI
CHM1_1174,719,366 - 4,735,679 (+)NCBI
Sequence:
RefSeq Acc Id: XM_005256696   ⟹   XP_005256753
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,810,807 - 4,823,432 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017024764   ⟹   XP_016880253
RefSeq Status:
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,807,165 - 4,823,432 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001752533
RefSeq Status:
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,807,165 - 4,821,895 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001752534
RefSeq Status:
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,807,165 - 4,823,432 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001752535
RefSeq Status:
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,807,165 - 4,821,895 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001752536
RefSeq Status:
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,807,165 - 4,823,432 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001752537
RefSeq Status:
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,807,165 - 4,823,432 (+)NCBI
Sequence:
RefSeq Acc Id: XR_002958023
RefSeq Status:
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,807,165 - 4,823,432 (+)NCBI
Sequence:
RefSeq Acc Id: XR_002958024
RefSeq Status:
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,807,165 - 4,823,432 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_002654   ⟸   NM_002663
- Peptide Label: isoform PLD2A
- UniProtKB: O14939 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001230037   ⟸   NM_001243108
- Peptide Label: isoform PLD2B
- UniProtKB: O14939 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_005256753   ⟸   XM_005256696
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_016880253   ⟸   XM_017024764
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSP00000459571   ⟸   ENST00000572940
RefSeq Acc Id: ENSP00000458795   ⟸   ENST00000575316
RefSeq Acc Id: ENSP00000459304   ⟸   ENST00000575246
RefSeq Acc Id: ENSP00000461459   ⟸   ENST00000575813
RefSeq Acc Id: ENSP00000460250   ⟸   ENST00000576983
RefSeq Acc Id: ENSP00000460477   ⟸   ENST00000576864
RefSeq Acc Id: ENSP00000263088   ⟸   ENST00000263088
Protein Domains
PH   PLD phosphodiesterase   PX

Promoters
RGD ID:6794434
Promoter ID:HG_KWN:24751
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   CD4+TCell_2Hour,   HeLa_S3,   K562,   Lymphoblastoid,   NB4
Transcripts:OTTHUMT00000207561,   UC002FZD.2
Position:
Human AssemblyChrPosition (strand)Source
Build 36174,657,009 - 4,657,509 (+)MPROMDB
RGD ID:7233459
Promoter ID:EPDNEW_H22475
Type:initiation region
Name:PLD2_2
Description:phospholipase D2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H22476  
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,806,747 - 4,806,807EPDNEW
RGD ID:7233465
Promoter ID:EPDNEW_H22476
Type:initiation region
Name:PLD2_1
Description:phospholipase D2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_H22475  
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh38174,807,183 - 4,807,243EPDNEW

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 17p13.3-13.2(chr17:193307-5652222)x1 copy number loss See cases [RCV000053384] Chr17:193307..5652222 [GRCh38]
Chr17:45835..5555542 [GRCh37]
Chr17:43098..5496266 [NCBI36]
Chr17:17p13.3-13.2
pathogenic
GRCh38/hg38 17p13.2-13.1(chr17:3601515-7178024)x1 copy number loss See cases [RCV000053406] Chr17:3601515..7178024 [GRCh38]
Chr17:3504809..7081343 [GRCh37]
Chr17:3451558..7022067 [NCBI36]
Chr17:17p13.2-13.1
pathogenic
GRCh38/hg38 17p13.2(chr17:4141725-4841701)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000054003]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000054003]|See cases [RCV000054003] Chr17:4141725..4841701 [GRCh38]
Chr17:4045019..4744996 [GRCh37]
Chr17:3991768..4691654 [NCBI36]
Chr17:17p13.2
uncertain significance
NM_002663.4(PLD2):c.732C>T (p.Phe244=) single nucleotide variant Malignant melanoma [RCV000071567] Chr17:4809901 [GRCh38]
Chr17:4713196 [GRCh37]
Chr17:4660160 [NCBI36]
Chr17:17p13.2
not provided
NM_002663.4(PLD2):c.2243C>T (p.Pro748Leu) single nucleotide variant Malignant melanoma [RCV000071568] Chr17:4819153 [GRCh38]
Chr17:4722448 [GRCh37]
Chr17:4669414 [NCBI36]
Chr17:17p13.2
not provided
NM_002663.5(PLD2):c.1657C>T (p.Arg553Trp) single nucleotide variant not provided [RCV000122502] Chr17:4817011 [GRCh38]
Chr17:4720306 [GRCh37]
Chr17:17p13.2
uncertain significance
GRCh38/hg38 17p13.3-13.2(chr17:2062380-5258340)x1 copy number loss See cases [RCV000133721] Chr17:2062380..5258340 [GRCh38]
Chr17:1965674..5161635 [GRCh37]
Chr17:1912424..5102359 [NCBI36]
Chr17:17p13.3-13.2
pathogenic
GRCh38/hg38 17p13.3-13.1(chr17:162088-6959050)x1 copy number loss See cases [RCV000134135] Chr17:162088..6959050 [GRCh38]
Chr17:45835..6862369 [GRCh37]
Chr17:11879..6803093 [NCBI36]
Chr17:17p13.3-13.1
pathogenic
GRCh38/hg38 17p13.3-13.1(chr17:198748-7491129)x3 copy number gain See cases [RCV000134970] Chr17:198748..7491129 [GRCh38]
Chr17:50690..7394448 [GRCh37]
Chr17:48539..7335172 [NCBI36]
Chr17:17p13.3-13.1
pathogenic
GRCh38/hg38 17p13.2(chr17:4044302-5943772)x1 copy number loss See cases [RCV000135548] Chr17:4044302..5943772 [GRCh38]
Chr17:3947596..5847092 [GRCh37]
Chr17:3894345..5787816 [NCBI36]
Chr17:17p13.2
likely pathogenic
GRCh38/hg38 17p13.3-13.1(chr17:162016-7697012)x1 copy number loss See cases [RCV000138214] Chr17:162016..7697012 [GRCh38]
Chr17:45835..7600330 [GRCh37]
Chr17:11807..7541055 [NCBI36]
Chr17:17p13.3-13.1
pathogenic
GRCh38/hg38 17p13.3-12(chr17:162016-12343901)x3 copy number gain See cases [RCV000138531] Chr17:162016..12343901 [GRCh38]
Chr17:45835..12247218 [GRCh37]
Chr17:11807..12187943 [NCBI36]
Chr17:17p13.3-12
pathogenic
GRCh38/hg38 17p13.2(chr17:4092608-5354473)x3 copy number gain See cases [RCV000139650] Chr17:4092608..5354473 [GRCh38]
Chr17:3995902..5257768 [GRCh37]
Chr17:3942651..5198492 [NCBI36]
Chr17:17p13.2
likely benign
GRCh38/hg38 17p13.3-13.2(chr17:150732-5935377)x1 copy number loss See cases [RCV000141658] Chr17:150732..5935377 [GRCh38]
Chr17:525..5838697 [GRCh37]
Chr17:525..5779421 [NCBI36]
Chr17:17p13.3-13.2
pathogenic
GRCh38/hg38 17p13.3-12(chr17:150732-14764202)x3 copy number gain See cases [RCV000142236] Chr17:150732..14764202 [GRCh38]
Chr17:525..14667519 [GRCh37]
Chr17:525..14608244 [NCBI36]
Chr17:17p13.3-12
pathogenic
GRCh38/hg38 17p13.2(chr17:4141725-4873241)x3 copy number gain See cases [RCV000143014] Chr17:4141725..4873241 [GRCh38]
Chr17:4045019..4776536 [GRCh37]
Chr17:3991768..4722711 [NCBI36]
Chr17:17p13.2
uncertain significance
GRCh37/hg19 17p13.3-13.2(chr17:1751557-5378509)x1 copy number loss See cases [RCV000445994] Chr17:1751557..5378509 [GRCh37]
Chr17:17p13.3-13.2
pathogenic
GRCh37/hg19 17p13.3-13.1(chr17:1113102-6742486) copy number gain See cases [RCV000445679] Chr17:1113102..6742486 [GRCh37]
Chr17:17p13.3-13.1
pathogenic
GRCh37/hg19 17p13.2(chr17:4389607-4829150)x3 copy number gain See cases [RCV000448511] Chr17:4389607..4829150 [GRCh37]
Chr17:17p13.2
uncertain significance
GRCh37/hg19 17p13.2(chr17:4633847-4856516)x1 copy number loss See cases [RCV000510443] Chr17:4633847..4856516 [GRCh37]
Chr17:17p13.2
uncertain significance
GRCh37/hg19 17p13.3-q25.3(chr17:526-81041938) copy number gain See cases [RCV000511439] Chr17:526..81041938 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.3-12(chr17:525-15027737)x3 copy number gain See cases [RCV000511786] Chr17:525..15027737 [GRCh37]
Chr17:17p13.3-12
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:526-81041938)x3 copy number gain See cases [RCV000512441] Chr17:526..81041938 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.3-12(chr17:525-11186432)x3 copy number gain not provided [RCV000683866] Chr17:525..11186432 [GRCh37]
Chr17:17p13.3-12
pathogenic
GRCh37/hg19 17p13.2(chr17:4475016-4884701)x3 copy number gain not provided [RCV000683882] Chr17:4475016..4884701 [GRCh37]
Chr17:17p13.2
uncertain significance
GRCh37/hg19 17p13.2(chr17:4633847-4926646)x3 copy number gain not provided [RCV000683883] Chr17:4633847..4926646 [GRCh37]
Chr17:17p13.2
uncertain significance
GRCh37/hg19 17p13.2(chr17:4036861-5174346)x3 copy number gain not provided [RCV000683881] Chr17:4036861..5174346 [GRCh37]
Chr17:17p13.2
uncertain significance
NM_002663.5(PLD2):c.2447G>A (p.Arg816Gln) single nucleotide variant not provided [RCV000714773] Chr17:4819567 [GRCh38]
Chr17:4722862 [GRCh37]
Chr17:17p13.2
uncertain significance
GRCh37/hg19 17p13.3-q25.3(chr17:12344-81057996)x3 copy number gain not provided [RCV000739325] Chr17:12344..81057996 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:8547-81060040)x3 copy number gain not provided [RCV000739324] Chr17:8547..81060040 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.3-q25.3(chr17:7214-81058310)x3 copy number gain not provided [RCV000739320] Chr17:7214..81058310 [GRCh37]
Chr17:17p13.3-q25.3
pathogenic
GRCh37/hg19 17p13.2(chr17:3336162-4918458)x1 copy number loss not provided [RCV000739374] Chr17:3336162..4918458 [GRCh37]
Chr17:17p13.2
likely pathogenic
NM_002663.5(PLD2):c.1702-6C>T single nucleotide variant not provided [RCV000895177] Chr17:4817140 [GRCh38]
Chr17:4720435 [GRCh37]
Chr17:17p13.2
benign
NM_002663.5(PLD2):c.1638C>T (p.Val546=) single nucleotide variant not provided [RCV000898759] Chr17:4816992 [GRCh38]
Chr17:4720287 [GRCh37]
Chr17:17p13.2
likely benign
NM_002663.5(PLD2):c.1468C>T (p.Arg490Cys) single nucleotide variant not provided [RCV000882875] Chr17:4816632 [GRCh38]
Chr17:4719927 [GRCh37]
Chr17:17p13.2
likely benign
GRCh37/hg19 17p13.3-13.2(chr17:47546-6287620) copy number gain Chromosome 17p13.3, telomeric, duplication syndrome [RCV000767586] Chr17:47546..6287620 [GRCh37]
Chr17:17p13.3-13.2
pathogenic
NM_002663.5(PLD2):c.1008G>A (p.Arg336=) single nucleotide variant not provided [RCV000908028] Chr17:4810949 [GRCh38]
Chr17:4714244 [GRCh37]
Chr17:17p13.2
likely benign
NM_002663.5(PLD2):c.832C>T (p.His278Tyr) single nucleotide variant not provided [RCV000961453] Chr17:4810001 [GRCh38]
Chr17:4713296 [GRCh37]
Chr17:17p13.2
benign
NM_002663.5(PLD2):c.1658G>A (p.Arg553Gln) single nucleotide variant not provided [RCV000896044] Chr17:4817012 [GRCh38]
Chr17:4720307 [GRCh37]
Chr17:17p13.2
benign
NM_002663.5(PLD2):c.1705A>G (p.Thr569Ala) single nucleotide variant not provided [RCV000915240] Chr17:4817149 [GRCh38]
Chr17:4720444 [GRCh37]
Chr17:17p13.2
likely benign
GRCh37/hg19 17p13.2(chr17:3759126-6128911)x1 copy number loss not provided [RCV000849625] Chr17:3759126..6128911 [GRCh37]
Chr17:17p13.2
uncertain significance
GRCh37/hg19 17p13.3-13.2(chr17:8547-5627408)x1 copy number loss See cases [RCV001007429] Chr17:8547..5627408 [GRCh37]
Chr17:17p13.3-13.2
pathogenic
NM_002663.5(PLD2):c.989G>A (p.Arg330Gln) single nucleotide variant not provided [RCV000885845] Chr17:4810930 [GRCh38]
Chr17:4714225 [GRCh37]
Chr17:17p13.2
benign
NM_002663.5(PLD2):c.2010-9C>T single nucleotide variant not provided [RCV000895431] Chr17:4818485 [GRCh38]
Chr17:4721780 [GRCh37]
Chr17:17p13.2
benign
NM_002663.5(PLD2):c.2580C>T (p.Ile860=) single nucleotide variant not provided [RCV000957515] Chr17:4822642 [GRCh38]
Chr17:4725937 [GRCh37]
Chr17:17p13.2
benign

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:9068 AgrOrtholog
COSMIC PLD2 COSMIC
Ensembl Genes ENSG00000129219 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSP00000263088 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000458795 UniProtKB/TrEMBL
  ENSP00000459304 UniProtKB/TrEMBL
  ENSP00000459571 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSP00000460250 UniProtKB/TrEMBL
  ENSP00000460477 UniProtKB/TrEMBL
  ENSP00000461459 UniProtKB/TrEMBL
Ensembl Transcript ENST00000263088 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000572940 ENTREZGENE, UniProtKB/Swiss-Prot
  ENST00000575246 UniProtKB/TrEMBL
  ENST00000575316 UniProtKB/TrEMBL
  ENST00000575813 UniProtKB/TrEMBL
  ENST00000576864 UniProtKB/TrEMBL
  ENST00000576983 UniProtKB/TrEMBL
Gene3D-CATH 2.30.29.30 UniProtKB/Swiss-Prot
  3.30.1520.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000129219 GTEx
HGNC ID HGNC:9068 ENTREZGENE
Human Proteome Map PLD2 Human Proteome Map
InterPro PH-like_dom_sf UniProtKB/Swiss-Prot
  PH_domain UniProtKB/Swiss-Prot
  Phox UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLD-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLipase_D/transphosphatidylase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLipase_D_euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLipase_D_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PX_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:5338 UniProtKB/Swiss-Prot
NCBI Gene 5338 ENTREZGENE
OMIM 602384 OMIM
PANTHER PTHR18896 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PF00787 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLDc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLDc_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA33397 PharmGKB
PIRSF Phospholipase_D_euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE PLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PS50195 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PLDc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00233 UniProtKB/Swiss-Prot
  SM00312 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF64268 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt I3L1F3_HUMAN UniProtKB/TrEMBL
  I3L222_HUMAN UniProtKB/TrEMBL
  I3L381_HUMAN UniProtKB/TrEMBL
  I3L3I7_HUMAN UniProtKB/TrEMBL
  I3L4R5_HUMAN UniProtKB/TrEMBL
  O14939 ENTREZGENE, UniProtKB/Swiss-Prot
  Q86YQ7_HUMAN UniProtKB/TrEMBL
UniProt Secondary I3L2C9 UniProtKB/Swiss-Prot
  O43540 UniProtKB/Swiss-Prot
  O43579 UniProtKB/Swiss-Prot
  O43580 UniProtKB/Swiss-Prot
  Q6PGR0 UniProtKB/Swiss-Prot
  Q96BY3 UniProtKB/Swiss-Prot