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Center for Computational Systems Medicine
Soverview

Gene summary

Soverview

RNA A-to-I events

Soverview

Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples

Soverview

Protein coding region RNA A-to-I editings

Soverview

The effects of the RNA editing to the miRNA binding sites

Soverview

The effects of the RNA editing to the stability of the RNA structures

Soverview

Relation with ADAR

Soverview

Relation with cancer stages

Soverview

Relation with survival state

Soverview

Related drugs with this gene

Soverview

Related diseases with this gene

Editing gene: PLCD4 (CAeditome ID:84812)

Gene summary for PLCD4

check button Gene summary
Gene informationGene symbol

PLCD4

Gene ID

84812

Gene namephospholipase C delta 4
Synonyms-
Cytomap

2q35

Type of geneprotein-coding
Description1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase delta-4PLC delta4phosphoinositide phospholipase C-delta-4
Modification date20210518
UniProtAcc

Q9BRC7

Context

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID
PLCD4

GO:0005783

1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase delta-4

0000052

PLCD4

GO:0005829

1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase delta-4

0000052

PLCD4

GO:0005886

1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase delta-4

0000052


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RNA A-to-I events for PLCD4

check buttonRNA A-to-I editing events across TCGA 33 cancers data sets based on Ensembl gene isoform structure.
all structure

check button RNA editing frequencies across 33 cancers of gene: ENSG00000115556.12

check button RNA A-to-I editing events in Cancer.
CAediting_244180(218617505, +), CAediting_244181(218617509, +), CAediting_244182(218617516, +), CAediting_244183(218620355, +), CAediting_244184(218620359, +), CAediting_244185(218620399, +), CAediting_244186(218620806, +), CAediting_244187(218620843, +), CAediting_244188(218621194, +), CAediting_244189(218621868, +), CAediting_244190(218623705, +), CAediting_244191(218623739, +), CAediting_244192(218623786, +), CAediting_244193(218624067, +), CAediting_244194(218624078, +), CAediting_244195(218624572, +), CAediting_244196(218624576, +), CAediting_244197(218624661, +), CAediting_244198(218624664, +), CAediting_244199(218624677, +), CAediting_244200(218624882, +), CAediting_244201(218624901, +), CAediting_244202(218624949, +), CAediting_244203(218624965, +), CAediting_244204(218624981, +), CAediting_244205(218625024, +), CAediting_244206(218625502, +), CAediting_244207(218625705, +), CAediting_244208(218625724, +), CAediting_244209(218625738, +), CAediting_244210(218625778, +), CAediting_244211(218625846, +), CAediting_244212(218625875, +), CAediting_244213(218625885, +), CAediting_244214(218625886, +), CAediting_244215(218625891, +), CAediting_244216(218625994, +), CAediting_244217(218629007, +), CAediting_244218(218629034, +), CAediting_244219(218629135, +), CAediting_244220(218629136, +), CAediting_244221(218629171, +), CAediting_244222(218631369, +), CAediting_244223(218631373, +), CAediting_244224(218634971, +), CAediting_244225(218634978, +), CAediting_244226(218634984, +), CAediting_244227(218634985, +), CAediting_244228(218635005, +), CAediting_244229(218635006, +), CAediting_244230(218635010, +), CAediting_244231(218635083, +), CAediting_244232(218635099, +), CAediting_244233(218635101, +), CAediting_244234(218635102, +), CAediting_244235(218635103, +), CAediting_244236(218635104, +), CAediting_244237(218635105, +), CAediting_244238(218635106, +), CAediting_244239(218635111, +), CAediting_244240(218635112, +), CAediting_244241(218635113, +), CAediting_244242(218635117, +), CAediting_244243(218635169, +), CAediting_244244(218635170, +), CAediting_244245(218635177, +), CAediting_244246(218635183, +), CAediting_244247(218635188, +), CAediting_244248(218635193, +), CAediting_244249(218635217, +), CAediting_244250(218635228, +), CAediting_244251(218635364, +), CAediting_244252(218635366, +), CAediting_244253(218635413, +), CAediting_244254(218635418, +), CAediting_244255(218635419, +), CAediting_244256(218635439, +), CAediting_244257(218635451, +), CAediting_244258(218635456, +), CAediting_244259(218635568, +), CAediting_244260(218635580, +), CAediting_244261(218635616, +),

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RNA editing positional annotations for PLCD4 using Annovar

check button Protein coding RNA editing(s).
CAeditome IDPositionVariant typeENSTNTchangeAAchangeSIFT_scorePolyphen2_HVAR_scorePROVEAN_pred

check button Gene structure information of RNA editing(s).
CAeditome IDPositionVariant type
CAediting_244180chr2_218617505_+ncRNA_intronic
CAediting_244181chr2_218617509_+ncRNA_intronic
CAediting_244182chr2_218617516_+ncRNA_intronic
CAediting_244183chr2_218620355_+ncRNA_intronic
CAediting_244184chr2_218620359_+ncRNA_intronic
CAediting_244185chr2_218620399_+ncRNA_intronic
CAediting_244186chr2_218620806_+ncRNA_intronic
CAediting_244187chr2_218620843_+ncRNA_intronic
CAediting_244188chr2_218621194_+ncRNA_intronic
CAediting_244189chr2_218621868_+ncRNA_intronic
CAediting_244190chr2_218623705_+ncRNA_intronic
CAediting_244191chr2_218623739_+ncRNA_intronic
CAediting_244192chr2_218623786_+ncRNA_intronic
CAediting_244193chr2_218624067_+ncRNA_intronic
CAediting_244194chr2_218624078_+ncRNA_intronic
CAediting_244195chr2_218624572_+ncRNA_intronic
CAediting_244196chr2_218624576_+ncRNA_intronic
CAediting_244197chr2_218624661_+ncRNA_intronic
CAediting_244198chr2_218624664_+ncRNA_intronic
CAediting_244199chr2_218624677_+ncRNA_intronic
CAediting_244200chr2_218624882_+ncRNA_intronic
CAediting_244201chr2_218624901_+ncRNA_intronic
CAediting_244202chr2_218624949_+ncRNA_intronic
CAediting_244203chr2_218624965_+ncRNA_intronic
CAediting_244204chr2_218624981_+ncRNA_intronic
CAediting_244205chr2_218625024_+ncRNA_intronic
CAediting_244206chr2_218625502_+ncRNA_intronic
CAediting_244207chr2_218625705_+ncRNA_intronic
CAediting_244208chr2_218625724_+ncRNA_intronic
CAediting_244209chr2_218625738_+ncRNA_intronic
CAediting_244210chr2_218625778_+ncRNA_intronic
CAediting_244211chr2_218625846_+ncRNA_intronic
CAediting_244212chr2_218625875_+ncRNA_intronic
CAediting_244213chr2_218625885_+ncRNA_intronic
CAediting_244214chr2_218625886_+ncRNA_intronic
CAediting_244215chr2_218625891_+ncRNA_intronic
CAediting_244216chr2_218625994_+ncRNA_intronic
CAediting_244217chr2_218629007_+ncRNA_exonic
CAediting_244218chr2_218629034_+ncRNA_exonic
CAediting_244219chr2_218629135_+ncRNA_exonic
CAediting_244220chr2_218629136_+ncRNA_exonic
CAediting_244221chr2_218629171_+ncRNA_exonic
CAediting_244222chr2_218631369_+ncRNA_intronic
CAediting_244223chr2_218631373_+ncRNA_intronic
CAediting_244224chr2_218634971_+ncRNA_intronic
CAediting_244225chr2_218634978_+ncRNA_intronic
CAediting_244226chr2_218634984_+ncRNA_intronic
CAediting_244227chr2_218634985_+ncRNA_intronic
CAediting_244228chr2_218635005_+ncRNA_intronic
CAediting_244229chr2_218635006_+ncRNA_intronic
CAediting_244230chr2_218635010_+ncRNA_intronic
CAediting_244231chr2_218635083_+ncRNA_intronic
CAediting_244232chr2_218635099_+ncRNA_intronic
CAediting_244233chr2_218635101_+ncRNA_intronic
CAediting_244234chr2_218635102_+ncRNA_intronic
CAediting_244235chr2_218635103_+ncRNA_intronic
CAediting_244236chr2_218635104_+ncRNA_intronic
CAediting_244237chr2_218635105_+ncRNA_intronic
CAediting_244238chr2_218635106_+ncRNA_intronic
CAediting_244239chr2_218635111_+ncRNA_intronic
CAediting_244240chr2_218635112_+ncRNA_intronic
CAediting_244241chr2_218635113_+ncRNA_intronic
CAediting_244242chr2_218635117_+ncRNA_intronic
CAediting_244243chr2_218635169_+ncRNA_intronic
CAediting_244244chr2_218635170_+ncRNA_intronic
CAediting_244245chr2_218635177_+ncRNA_intronic
CAediting_244246chr2_218635183_+ncRNA_intronic
CAediting_244247chr2_218635188_+ncRNA_intronic
CAediting_244248chr2_218635193_+ncRNA_intronic
CAediting_244249chr2_218635217_+ncRNA_intronic
CAediting_244250chr2_218635228_+ncRNA_intronic
CAediting_244251chr2_218635364_+ncRNA_intronic
CAediting_244252chr2_218635366_+ncRNA_intronic
CAediting_244253chr2_218635413_+ncRNA_intronic
CAediting_244254chr2_218635418_+ncRNA_intronic
CAediting_244255chr2_218635419_+ncRNA_intronic
CAediting_244256chr2_218635439_+ncRNA_intronic
CAediting_244257chr2_218635451_+ncRNA_intronic
CAediting_244258chr2_218635456_+ncRNA_intronic
CAediting_244259chr2_218635568_+ncRNA_intronic
CAediting_244260chr2_218635580_+ncRNA_intronic
CAediting_244261chr2_218635616_+ncRNA_intronic

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_244180chr2_218617505_+SINEAluAluSq2
CAediting_244181chr2_218617509_+SINEAluAluSq2
CAediting_244182chr2_218617516_+SINEAluAluSq2
CAediting_244183chr2_218620355_+SINEAluAluSz6
CAediting_244184chr2_218620359_+SINEAluAluSz6
CAediting_244185chr2_218620399_+SINEAluAluSz6
CAediting_244186chr2_218620806_+SINEAluAluJo
CAediting_244187chr2_218620843_+SINEAluAluJo
CAediting_244188chr2_218621194_+SINEAluAluSx3
CAediting_244189chr2_218621868_+SINEAluAluY
CAediting_244190chr2_218623705_+SINEAluAluSp
CAediting_244191chr2_218623739_+SINEAluAluSp
CAediting_244192chr2_218623786_+SINEAluAluSp
CAediting_244193chr2_218624067_+SINEMIRMIR
CAediting_244194chr2_218624078_+SINEMIRMIR
CAediting_244195chr2_218624572_+SINEAluAluSz6
CAediting_244196chr2_218624576_+SINEAluAluSz6
CAediting_244197chr2_218624661_+SINEAluAluSz6
CAediting_244198chr2_218624664_+SINEAluAluSz6
CAediting_244199chr2_218624677_+SINEAluAluSz6
CAediting_244200chr2_218624882_+SINEAluAluSx1
CAediting_244201chr2_218624901_+SINEAluAluSx1
CAediting_244202chr2_218624949_+SINEAluAluSx1
CAediting_244203chr2_218624965_+SINEAluAluSx1
CAediting_244204chr2_218624981_+SINEAluAluSx1
CAediting_244205chr2_218625024_+SINEAluAluSx1
CAediting_244206chr2_218625502_+SINEMIRMIRc
CAediting_244207chr2_218625705_+SINEAluAluSx1
CAediting_244208chr2_218625724_+SINEAluAluSx1
CAediting_244209chr2_218625738_+SINEAluAluSx1
CAediting_244210chr2_218625778_+SINEAluAluSx1
CAediting_244211chr2_218625846_+SINEAluAluSx1
CAediting_244212chr2_218625875_+SINEAluAluSx1
CAediting_244213chr2_218625885_+SINEAluAluSx1
CAediting_244214chr2_218625886_+SINEAluAluSx1
CAediting_244215chr2_218625891_+SINEAluAluSx1
CAediting_244216chr2_218625994_+SINEAluAluJr
CAediting_244217chr2_218629007_+SINEAluAluJb
CAediting_244218chr2_218629034_+SINEAluAluJb
CAediting_244219chr2_218629135_+SINEAluAluJb
CAediting_244220chr2_218629136_+SINEAluAluJb
CAediting_244221chr2_218629171_+SINEAluAluJb
CAediting_244222chr2_218631369_+SINEAluAluSq2
CAediting_244223chr2_218631373_+SINEAluAluSq2
CAediting_244224chr2_218634971_+SINEAluAluJr4
CAediting_244225chr2_218634978_+SINEAluAluJr4
CAediting_244226chr2_218634984_+SINEAluAluJr4
CAediting_244227chr2_218634985_+SINEAluAluJr4
CAediting_244228chr2_218635005_+SINEAluAluJr4
CAediting_244229chr2_218635006_+SINEAluAluJr4
CAediting_244230chr2_218635010_+SINEAluAluJr4
CAediting_244231chr2_218635083_+SINEAluAluJr4
CAediting_244232chr2_218635099_+SINEAluAluJr4
CAediting_244233chr2_218635101_+SINEAluAluJr4
CAediting_244234chr2_218635102_+SINEAluAluJr4
CAediting_244235chr2_218635103_+SINEAluAluJr4
CAediting_244236chr2_218635104_+SINEAluAluJr4
CAediting_244237chr2_218635105_+SINEAluAluJr4
CAediting_244238chr2_218635106_+SINEAluAluJr4
CAediting_244239chr2_218635111_+SINEAluAluJr4
CAediting_244240chr2_218635112_+SINEAluAluJr4
CAediting_244241chr2_218635113_+SINEAluAluJr4
CAediting_244242chr2_218635117_+SINEAluAluJr4
CAediting_244243chr2_218635169_+SINEAluAluJr4
CAediting_244244chr2_218635170_+SINEAluAluJr4
CAediting_244245chr2_218635177_+SINEAluAluJr4
CAediting_244246chr2_218635183_+SINEAluAluJr4
CAediting_244247chr2_218635188_+SINEAluAluJr4
CAediting_244248chr2_218635193_+SINEAluAluJr4
CAediting_244249chr2_218635217_+SINEAluAluJr4
CAediting_244250chr2_218635228_+SINEAluAluJr4
CAediting_244251chr2_218635364_+SINEAluAluSx1
CAediting_244252chr2_218635366_+SINEAluAluSx1
CAediting_244253chr2_218635413_+SINEAluAluSx1
CAediting_244254chr2_218635418_+SINEAluAluSx1
CAediting_244255chr2_218635419_+SINEAluAluSx1
CAediting_244256chr2_218635439_+SINEAluAluSx1
CAediting_244257chr2_218635451_+SINEAluAluSx1
CAediting_244258chr2_218635456_+SINEAluAluSx1
CAediting_244259chr2_218635568_+SINEAluAluSx1
CAediting_244260chr2_218635580_+SINEAluAluSx1
CAediting_244261chr2_218635616_+SINEAluAluSx1

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RNA A-to-I editing events in the alternative splicing sites for PLCD4

check button RNA A-to-I editing(s) in the alternative splicing sites.
AStypeCAeditomIDEditing positionAS positionAS directionExonic locationWildtype sequenceWildtype splicing strengthRNA edited sequenceRNA edited splicing strength

check button Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000115556.12.PLCD4.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000115556.12.PLCD4.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for PLCD4

check button Differential gene expressions between RNA A-to-I edited and non-edited tumor samples.
* The grey color means N/A.
boxplot

check button Correlation between RNA A-to-I editing and gene expression.
boxplot

check button - Differentially expressed gene between RNA A-to-I edited samples versus non-edited samples.
* Click on the image to enlarge it in a new window.
BRCA.CAediting_244247.ENSG00000115556.PLCD4.png
Soverview
PCPG.CAediting_244247.ENSG00000115556.PLCD4.png
Soverview

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Protein coding region RNA A-to-I editings for PLCD4

check button- Lollipop plot for RNA A-to-I editings across protein structure.
* Click on the image to enlarge it in a new window.


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The effects of the RNA editing to the miRNA binding sites for PLCD4

**If you are searching a miRNA gene with RNA editing events in its seed regions, please see the search pages of miRNA targets to discover the effects of this RNA editing event to miRNA regulations. For more information, please check the files in the Download page.

check button RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in lncRNA gained miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in lncRNA lost miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to lncRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs lost binding to lncRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
CAediting_688080chr9_63819626_+ENSG00000115556.12ENST00000417849hsa-miR-4477b2186369902186369978mer-1a218636976218636997160-11.13
CAediting_688080chr9_63819626_+ENSG00000115556.12ENST00000432688hsa-miR-4477b2186369902186369978mer-1a218636976218636997160-11.13
CAediting_688080chr9_63819626_+ENSG00000115556.12ENST00000457773hsa-miR-4477b2186369902186369978mer-1a218636976218636997160-11.13
CAediting_1229413chr17_67471544_+ENSG00000115556.12ENST00000444453hsa-miR-548aa2186214832186214897mer-1a218621469218621489147-10.96
CAediting_1229413chr17_67471544_+ENSG00000115556.12ENST00000446503hsa-miR-548aa2186214832186214897mer-1a218621469218621489147-10.96
CAediting_442554chr5_154685830_+ENSG00000115556.12ENST00000417849hsa-miR-13032186371682186371747mer-m8218637153218637175152-15.02
CAediting_1229415chr17_67471547_+ENSG00000115556.12ENST00000432688hsa-miR-548aa2186366082186366158mer-1a218636588218636615154-15.85
CAediting_442554chr5_154685830_+ENSG00000115556.12ENST00000432688hsa-miR-13032186371682186371747mer-m8218637153218637174152-14.22

check button RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
CAediting_468389chr6_31355314_-ENSG00000115556.12ENST00000417849hsa-miR-6891-5p2186371362186371438mer-1a218637125218637143147-19.47
CAediting_468389chr6_31355314_-ENSG00000115556.12ENST00000432688hsa-miR-6891-5p2186371362186371438mer-1a218637125218637143147-19.47
CAediting_468389chr6_31355314_-ENSG00000115556.12ENST00000457773hsa-miR-6891-5p2186371362186371438mer-1a218637125218637143147-19.47

check button Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for PLCD4

check button - RNA A-to-I editing in mRNA.
* Click on the image to enlarge it in a new window.
ENSTENST typeRNA structure without RNA A-to-I editing.RNA structure with RNA A-to-I editing.
ENST00000469493.4retained_intronSoverviewSoverview
ENST00000459791.4retained_intronSoverviewSoverview

check button RNA A-to-I editing in RNA structures for Minimum free energy (MFE).
CAeditom_IDENSTEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI
CAediting_244217ENST00000469493.4chr2_218629007_+-758.10-756.30-760.50
CAediting_244218ENST00000469493.4chr2_218629034_+-756.50-756.30-760.50
CAediting_244219ENST00000469493.4chr2_218629135_+-757.40-756.30-760.50
CAediting_244220ENST00000469493.4chr2_218629136_+-756.60-756.30-760.50
CAediting_244221ENST00000469493.4chr2_218629171_+-758.10-756.30-760.50
CAediting_244217ENST00000459791.4chr2_218629007_+-1459.20-1458.50-1465.10
CAediting_244218ENST00000459791.4chr2_218629034_+-1459.40-1458.50-1465.10
CAediting_244219ENST00000459791.4chr2_218629135_+-1461.40-1458.50-1465.10
CAediting_244220ENST00000459791.4chr2_218629136_+-1461.40-1458.50-1465.10
CAediting_244221ENST00000459791.4chr2_218629171_+-1460.00-1458.50-1465.10

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Relation with ADAR for PLCD4

check button Correlation between ADAR gene expression and RNA editing frequency
CancerCAeditomIDpositionADAR1 (p-val)ADAR1 (coeff.)ADAR2 (p-val)ADAR2 (coeff.)ADAR3 (p-val)ADAR3 (coeff.)

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Relation with cancer stages for PLCD4

check button Correlation between Cancer stages and RNA editing frequency
CancerStage_typeCAeditomIDpositionP-valCoeff.

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Relation with survival for PLCD4

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR

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RelatedDrugs for PLCD4

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.8 2021-01-03)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for PLCD4

check button Diseases associated with this gene.
(DisGeNet 7.0)
GeneDisease IDDisease name# pubmedsSource