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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: PFDN5 (CAeditome ID:5204)

Gene summary for PFDN5

check button Gene summary
Gene informationGene symbol

PFDN5

Gene ID

5204

Gene nameprefoldin subunit 5
SynonymsMM-1|MM1|PFD5
Cytomap

12q13.13

Type of geneprotein-coding
Descriptionprefoldin subunit 5c-myc binding proteinmyc modulator-1
Modification date20210518
UniProtAcc

Q99471

Context

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID
PFDN5

GO:0001540

Prefoldin subunit 5

23614719

PFDN5

GO:0051082

Prefoldin subunit 5

30955883

PFDN5

GO:0006457

Prefoldin subunit 5

30955883

PFDN5

GO:1905907

Prefoldin subunit 5

23614719

PFDN5

GO:0005829

Prefoldin subunit 5

0000052

PFDN5

GO:0045111

Prefoldin subunit 5

0000052

PFDN5

GO:0016272

Prefoldin subunit 5

23614719

PFDN5

GO:0016272

Prefoldin subunit 5

30955883


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RNA A-to-I events for PFDN5

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: ENSG00000123349.12
boxplot

check button RNA A-to-I editing events in Cancer.
CAediting_892883(53296435, +), CAediting_892884(53296464, +), CAediting_892885(53296471, +), CAediting_892886(53296489, +), CAediting_892887(53296508, +), CAediting_892888(53296509, +), CAediting_892889(53296511, +), CAediting_892890(53296550, +), CAediting_892891(53296554, +), CAediting_892892(53296561, +), CAediting_892893(53296583, +), CAediting_892894(53296589, +), CAediting_892895(53296592, +), CAediting_892896(53296610, +), CAediting_892897(53296612, +), CAediting_892898(53296619, +), CAediting_892899(53296676, +), CAediting_892900(53296696, +), CAediting_892901(53296700, +), CAediting_892902(53297119, +), CAediting_892903(53297147, +), CAediting_892904(53297151, +), CAediting_892905(53297157, +), CAediting_892906(53297174, +), CAediting_892907(53297179, +), CAediting_892908(53297195, +), CAediting_892909(53297204, +), CAediting_892910(53297219, +), CAediting_892911(53297226, +), CAediting_892912(53297267, +), CAediting_892913(53297275, +), CAediting_892914(53297276, +), CAediting_892915(53297277, +), CAediting_892916(53297278, +), CAediting_892917(53297279, +), CAediting_892918(53297282, +), CAediting_892919(53297286, +), CAediting_892920(53297298, +), CAediting_892921(53297300, +), CAediting_892922(53297308, +), CAediting_892923(53297309, +), CAediting_892924(53297314, +), CAediting_892925(53297318, +), CAediting_892926(53297331, +), CAediting_892927(53297341, +), CAediting_892928(53297349, +), CAediting_892929(53297355, +), CAediting_892930(53297357, +), CAediting_892931(53297361, +), CAediting_892932(53297394, +), CAediting_892933(53297400, +), CAediting_892934(53297411, +), CAediting_892935(53297413, +),

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RNA editing positional annotations for PFDN5 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_892883chr12_53296435_+exonic
CAediting_892884chr12_53296464_+exonic
CAediting_892885chr12_53296471_+exonic
CAediting_892886chr12_53296489_+ncRNA_exonic
CAediting_892887chr12_53296508_+ncRNA_exonic
CAediting_892888chr12_53296509_+ncRNA_exonic
CAediting_892889chr12_53296511_+ncRNA_exonic
CAediting_892890chr12_53296550_+ncRNA_exonic
CAediting_892891chr12_53296554_+ncRNA_exonic
CAediting_892892chr12_53296561_+ncRNA_exonic
CAediting_892893chr12_53296583_+ncRNA_exonic
CAediting_892894chr12_53296589_+ncRNA_exonic
CAediting_892895chr12_53296592_+ncRNA_exonic
CAediting_892896chr12_53296610_+ncRNA_exonic
CAediting_892897chr12_53296612_+ncRNA_exonic
CAediting_892898chr12_53296619_+ncRNA_exonic
CAediting_892899chr12_53296676_+ncRNA_exonic
CAediting_892900chr12_53296696_+ncRNA_exonic
CAediting_892901chr12_53296700_+ncRNA_exonic
CAediting_892902chr12_53297119_+ncRNA_exonic
CAediting_892903chr12_53297147_+ncRNA_exonic
CAediting_892904chr12_53297151_+ncRNA_exonic
CAediting_892905chr12_53297157_+ncRNA_exonic
CAediting_892906chr12_53297174_+ncRNA_exonic
CAediting_892907chr12_53297179_+ncRNA_exonic
CAediting_892908chr12_53297195_+ncRNA_exonic
CAediting_892909chr12_53297204_+ncRNA_exonic
CAediting_892910chr12_53297219_+ncRNA_exonic
CAediting_892911chr12_53297226_+ncRNA_exonic
CAediting_892912chr12_53297267_+ncRNA_exonic
CAediting_892913chr12_53297275_+ncRNA_exonic
CAediting_892914chr12_53297276_+ncRNA_exonic
CAediting_892915chr12_53297277_+ncRNA_exonic
CAediting_892916chr12_53297278_+ncRNA_exonic
CAediting_892917chr12_53297279_+ncRNA_exonic
CAediting_892918chr12_53297282_+ncRNA_exonic
CAediting_892919chr12_53297286_+ncRNA_exonic
CAediting_892920chr12_53297298_+ncRNA_exonic
CAediting_892921chr12_53297300_+ncRNA_exonic
CAediting_892922chr12_53297308_+ncRNA_exonic
CAediting_892923chr12_53297309_+ncRNA_exonic
CAediting_892924chr12_53297314_+ncRNA_exonic
CAediting_892925chr12_53297318_+ncRNA_exonic
CAediting_892926chr12_53297331_+ncRNA_exonic
CAediting_892927chr12_53297341_+ncRNA_exonic
CAediting_892928chr12_53297349_+ncRNA_exonic
CAediting_892929chr12_53297355_+ncRNA_exonic
CAediting_892930chr12_53297357_+ncRNA_exonic
CAediting_892931chr12_53297361_+ncRNA_exonic
CAediting_892932chr12_53297394_+ncRNA_exonic
CAediting_892933chr12_53297400_+ncRNA_exonic
CAediting_892934chr12_53297411_+ncRNA_exonic
CAediting_892935chr12_53297413_+ncRNA_exonic

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_892883chr12_53296435_+SINEAluAluSx4
CAediting_892884chr12_53296464_+SINEAluAluSx4
CAediting_892885chr12_53296471_+SINEAluAluSx4
CAediting_892886chr12_53296489_+SINEAluAluSx4
CAediting_892887chr12_53296508_+SINEAluAluSx4
CAediting_892888chr12_53296509_+SINEAluAluSx4
CAediting_892889chr12_53296511_+SINEAluAluSx4
CAediting_892890chr12_53296550_+SINEAluAluSx4
CAediting_892891chr12_53296554_+SINEAluAluSx4
CAediting_892892chr12_53296561_+SINEAluAluSx4
CAediting_892893chr12_53296583_+SINEAluAluSx4
CAediting_892894chr12_53296589_+SINEAluAluSx4
CAediting_892895chr12_53296592_+SINEAluAluSx4
CAediting_892896chr12_53296610_+SINEAluAluSx4
CAediting_892897chr12_53296612_+SINEAluAluSx4
CAediting_892898chr12_53296619_+SINEAluAluSx4
CAediting_892899chr12_53296676_+SINEAluAluSx4
CAediting_892900chr12_53296696_+SINEAluAluSx4
CAediting_892901chr12_53296700_+SINEAluAluSx4
CAediting_892904chr12_53297151_+SINEAluAluSx
CAediting_892905chr12_53297157_+SINEAluAluSx
CAediting_892906chr12_53297174_+SINEAluAluSx
CAediting_892907chr12_53297179_+SINEAluAluSx
CAediting_892908chr12_53297195_+SINEAluAluSx
CAediting_892909chr12_53297204_+SINEAluAluSx
CAediting_892910chr12_53297219_+SINEAluAluSx
CAediting_892911chr12_53297226_+SINEAluAluSx
CAediting_892912chr12_53297267_+SINEAluAluSx
CAediting_892913chr12_53297275_+SINEAluAluSx
CAediting_892914chr12_53297276_+SINEAluAluSx
CAediting_892915chr12_53297277_+SINEAluAluSx
CAediting_892916chr12_53297278_+SINEAluAluSx
CAediting_892917chr12_53297279_+SINEAluAluSx
CAediting_892918chr12_53297282_+SINEAluAluSx
CAediting_892919chr12_53297286_+SINEAluAluSx
CAediting_892920chr12_53297298_+SINEAluAluSx
CAediting_892921chr12_53297300_+SINEAluAluSx
CAediting_892922chr12_53297308_+SINEAluAluSx
CAediting_892923chr12_53297309_+SINEAluAluSx
CAediting_892924chr12_53297314_+SINEAluAluSx
CAediting_892925chr12_53297318_+SINEAluAluSx
CAediting_892926chr12_53297331_+SINEAluAluSx
CAediting_892927chr12_53297341_+SINEAluAluSx
CAediting_892928chr12_53297349_+SINEAluAluSx
CAediting_892929chr12_53297355_+SINEAluAluSx
CAediting_892930chr12_53297357_+SINEAluAluSx
CAediting_892931chr12_53297361_+SINEAluAluSx
CAediting_892932chr12_53297394_+SINEAluAluSx
CAediting_892933chr12_53297400_+SINEAluAluSx
CAediting_892934chr12_53297411_+SINEAluAluSx
CAediting_892935chr12_53297413_+SINEAluAluSx

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RNA A-to-I editing events in the alternative splicing sites for PFDN5

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
ESCAediting_892883chr12_53296435_+53296433:532964553SS0+18iGAATTTCGCTCTGTCGCCCAGGC-10.08GAGTTTCGCTCTGTCGCCCAGGC-9.94
IRCAediting_892883chr12_53296435_+53296433:532964553SS0+18iGAATTTCGCTCTGTCGCCCAGGC-10.08GAGTTTCGCTCTGTCGCCCAGGC-9.94
MEX_2CAediting_892883chr12_53296435_+53296433:532964553SS0+18iGAATTTCGCTCTGTCGCCCAGGC-10.08GAGTTTCGCTCTGTCGCCCAGGC-9.94
ESCAediting_892885chr12_53296471_+53296465:532964735SS0+4iATGGTGAGA7.23ATGGTGGGA2.88
IRCAediting_892885chr12_53296471_+53296465:532964735SS0+4iATGGTGAGA7.23ATGGTGGGA2.88
MEX_2CAediting_892885chr12_53296471_+53296465:532964735SS0+4iATGGTGAGA7.23ATGGTGGGA2.88
ESCAediting_892890chr12_53296550_+53296549:532965575SS2+0iTAGGTACGC7.84TGGGTACGC6.74
IRCAediting_892890chr12_53296550_+53296549:532965575SS2+0iTAGGTACGC7.84TGGGTACGC6.74
MEX_2CAediting_892890chr12_53296550_+53296549:532965575SS2+0iTAGGTACGC7.84TGGGTACGC6.74
ESCAediting_892891chr12_53296554_+53296549:532965575SS0+3iTAGGTACGC7.84TAGGTGCGC6.17
IRCAediting_892891chr12_53296554_+53296549:532965575SS0+3iTAGGTACGC7.84TAGGTGCGC6.17
MEX_2CAediting_892891chr12_53296554_+53296549:532965575SS0+3iTAGGTACGC7.84TAGGTGCGC6.17
ESCAediting_892893chr12_53296583_+53296578:532965865SS0+3iTTTGTATTA-11.6TTTGTGTTA-19.51
IRCAediting_892893chr12_53296583_+53296578:532965865SS0+3iTTTGTATTA-11.6TTTGTGTTA-19.51
MEX_2CAediting_892893chr12_53296583_+53296578:532965865SS0+3iTTTGTATTA-11.6TTTGTGTTA-19.51
IRCAediting_892929chr12_53297355_+53297351:532973733SS0+16iCCCGAGAGGCAGAGGTTGCAGTG-40.84CCCGGGAGGCAGAGGTTGCAGTG-39.37
IRCAediting_892930chr12_53297357_+53297351:532973733SS0+14iCCCGAGAGGCAGAGGTTGCAGTG-40.84CCCGAGGGGCAGAGGTTGCAGTG-38.19
IRCAediting_892931chr12_53297361_+53297351:532973733SS0+10iCCCGAGAGGCAGAGGTTGCAGTG-40.84CCCGAGAGGCGGAGGTTGCAGTG-35.34

check button Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000123349.12.PFDN5.
boxplot

check button Correlation between RNA A-to-I editing and PSI for ENSG00000123349.12.PFDN5.
boxplot

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for PFDN5

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.
LAML.CAediting_892895.ENSG00000123349.PFDN5.png
Soverview

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Protein coding region RNA A-to-I editings for PFDN5

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 PFDN5

**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
CAediting_892888chr12_53296509_+ENSG00000123349.12ENST00000550880hsa-miR-1211353296502532965087mer-m85329648553296509150.00-19.51
CAediting_892888chr12_53296509_+ENSG00000123349.12ENST00000550880hsa-miR-453953296502532965087mer-m85329649053296509157.00-22.79
CAediting_892886chr12_53296489_+ENSG00000123349.12ENST00000550880hsa-miR-485-5p53296486532964927mer-m85329647353296493149.00-16.78
CAediting_892886chr12_53296489_+ENSG00000123349.12ENST00000550880hsa-miR-60453296485532964906mer5329647253296491144.00-23.97
CAediting_892886chr12_53296489_+ENSG00000123349.12ENST00000550880hsa-miR-6884-5p53296486532964927mer-m85329647153296493154.00-17.69
CAediting_892889chr12_53296511_+ENSG00000123349.12ENST00000550880hsa-miR-188-5p53296507532965137mer-m85329649453296514159.00-23.99
CAediting_892889chr12_53296511_+ENSG00000123349.12ENST00000550880hsa-miR-478053296505532965128mer-1a5329649153296512149.00-17.21
CAediting_892889chr12_53296511_+ENSG00000123349.12ENST00000550880hsa-miR-62353296506532965127mer-m85329649053296513144.00-22.80
CAediting_892889chr12_53296511_+ENSG00000123349.12ENST00000550880hsa-miR-6866-3p53296507532965137mer-m85329649353296514149.00-11.62

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
CAediting_892889chr12_53296511_+ENSG00000123349.12ENST00000550880hsa-miR-216b-5p53296508532965147mer-m85329649453296515140-10.16
CAediting_892886chr12_53296489_+ENSG00000123349.12ENST00000550880hsa-miR-377-5p53296486532964927mer-m85329647253296493155-15.23
CAediting_892886chr12_53296489_+ENSG00000123349.12ENST00000550880hsa-miR-608653296486532964927mer-m85329647353296493153-21.13

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_1368054chr19_46709310_-ENSG00000123349.12ENST00000550880hsa-miR-320e53298116532981227mer-m85329810653298123149-17.88
CAediting_1368054chr19_46709310_-ENSG00000123349.12ENST00000243040hsa-miR-320e53298116532981227mer-m85329810653298123149-17.88

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

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 PFDN5

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.

check button RNA A-to-I editing in RNA structures for Minimum free energy (MFE).
CAeditom_IDENSTEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI

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Relation with ADAR for PFDN5

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.)
BLCACAediting_892883chr12_53296435_+5.43786587896012e-050.226070418241393....
BRCACAediting_892883chr12_53296435_+4.68523247832758e-060.149888677712628....
CESCCAediting_892883chr12_53296435_+0.003821103291631080.176131410005594....
LUADCAediting_892883chr12_53296435_+0.0001053859564853380.188755740349294....
COADCAediting_892883chr12_53296435_+....0.01842268090163350.149583038326123
LUSCCAediting_892883chr12_53296435_+1.77700714066373e-050.203246263565954....
GBMCAediting_892883chr12_53296435_+0.0005695800594184010.271968000365621....
PRADCAediting_892883chr12_53296435_+0.001129718343487440.148800615650969....
HNSCCAediting_892883chr12_53296435_+0.01192077937193630.1397639433709910.01586627742310380.134119083433077..
STADCAediting_892883chr12_53296435_+0.0008066912774643940.189034211406517....
THCACAediting_892883chr12_53296435_+0.0008246043166826650.148954529182894....
UCECCAediting_892883chr12_53296435_+5.50022460256846e-050.228813655710099....
ACCCAediting_892883chr12_53296435_+0.01978059259709170.302723333880557....
OVCAediting_892883chr12_53296435_+0.0001480339519705460.197325746328010.001670151063910770.163978834743752..
SKCMCAediting_892883chr12_53296435_+0.02805264624414530.114985460304935....
MESOCAediting_892883chr12_53296435_+0.002543927085943520.33922877492887..0.04384134529455040.23036798236649
READCAediting_892883chr12_53296435_+0.001516862914037060.334978520767749....
BRCACAediting_892895chr12_53296592_+0.009764121857772820.269576370636817....
GBMCAediting_892897chr12_53296612_+....0.04541500911676410.278710118317565
OVCAediting_892897chr12_53296612_+0.01420202040634320.285914278941063....

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Relation with cancer stages for PFDN5

check button Correlation between Cancer stages and RNA editing frequency
CancerStage_typeCAeditomIDpositionP-valCoeff.
BRCApathologic_stageCAediting_892883chr12_53296435_+0.00197347589295741-0.102554892534315
KIRCpathologic_stageCAediting_892883chr12_53296435_+0.0003212199542320540.158991044027249
KIRCpathologic_stageCAediting_892895chr12_53296592_+0.002829266154212640.344625793518621
LIHCpathologic_stageCAediting_892883chr12_53296435_+0.022569605965832-0.184912759555034

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Relation with survival for PFDN5

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR
BLCACAediting_892883chr12_53296435_+0.04673760885971630.04628413.09632
LUADCAediting_892895chr12_53296592_+0.001078837879200930.03296613.2232

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RelatedDrugs for PFDN5

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 PFDN5

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