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Center for Computational Systems Medicine
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Gene Summary

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Translation studies in PubMed

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Exon Skipping Events

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Expression

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Expression Regulation

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Associated Genes

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Protein 3D Structure

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Protein-Protein Interaction

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Mutations

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Prognostic Analysis

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Gender Association

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Age Association

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Related Drugs

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Related Diseases

Translation Factor: PADI6 (NCBI Gene ID:353238)


Gene Summary

check button Gene Summary
Gene InformationGene Name: PADI6
Gene ID: 353238
Gene Symbol

PADI6

Gene ID

353238

Gene Namepeptidyl arginine deiminase 6
SynonymsPREMBL2|hPADVI
Cytomap

1p36.13

Type of Geneprotein-coding
Descriptionprotein-arginine deiminase type-6peptidyl arginine deiminase, type VIpeptidyl arginine deiminase-like proteinpeptidylarginine deiminase type 6
Modification date20200313
UniProtAcc

Q6TGC4


check button Child GO biological process term(s) under GO:0006412
GO IDGO term
GO:0006417Regulation of translation
GO:0043143Regulation of translation by machinery localization
GO:0006412Translation


check button Gene ontology of translaction factor with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID


check button Inferred gene age of translation factor.
GeneInferred gene age group among (0 - 67.6], (67.6 - 355.7], (355.7 - 733], (733 - 1119.25], >1119.25
PADI6(67.6 - 355.7]


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Translation Studies in PubMed

check button We searched PubMed using 'PADI6[title] AND translation [title] AND human.'
GeneTitlePMID
PADI6..


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Exon Skipping Events

check buttonSkipped exons in TCGA and GTEx based on Ensembl gene isoform structure.
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
For more annotations, please visit our ExonSkipDB.
all structure

check button Open reading frame (ORF) analsis of exon skipping events based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ENSTExon skip start (DNA)Exon Skip end (DNA)ORF

check button Exon skipping position in the amino acid sequence.
ENSTExon skip start (DNA)Exon Skip end (DNA)Len(transcript seq)Exon skip start (mRNA)Exon Skip end (mRNA)Len(amino acid seq)Exon skip start (AA)Exon Skip end (AA)

check button Potentially (partially) lost protein functional features of UniProt.
UniProtAccExon skip start (AA)Exon Skip end (AA)Function feature start (AA)Function feature end (AA)Functional feature typeFunctional feature desc.


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Expression


check buttonGene expression level across TCGA pancancer
all structure

check buttonGene expression level across GTEx pantissue
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check buttonExpression level of gene isoforms across TCGA pancancer
all structure

check buttonExpression level of gene isoforms across GTEx pantissue
all structure

check buttonCancer(tissue) type-specific expression level of Translation factor using z-score distriution
all structure

check buttonDifferential expression between tumor and matched normal (in the cancer types with more than 10 matched samples)
all structure
Cancer typeTranslation factorFCadj.pval
BRCAPADI6-3.784990781813570.000129376845570936


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Expression Regulation


check buttonTranslation factor expression regulation through miRNA binding
Cancer typeGenemiRNATargetScan binding score (Context++ score percentile)CoefficientPvalue


check buttonTranslation factor expression regulation through methylation in the promoter of Translation factor
all structure
Cancer typeGenemethyl group bmethyl group aDEG pvalavg methyl in bavg methyl in aavg exp in bavg exp in a
UCECPADI6320.02285585385056260.7113421810699590.5093261517615180.2229523990982090.0962773313476607

check buttonTranslation factor expression regulation through methylation in the gene body of Translation factor (positive regulation)
all structure
Cancer typeGenemethyl group bmethyl group aDEG pvalavg methyl in bavg methyl in aavg exp in bavg exp in a
KIRCPADI6320.04548544525821520.7947909218662170.520323076923077-0.351577063924531-0.666916212971092
SKCMPADI6320.04666083560205220.7306618263473050.4886780357142860.0672202909445605-0.10338857560843

check buttonTranslation factor expression regulation through copy number variation of Translation factor
all structure
Cancer typeGeneCoefficientPvalue
LGGPADI60.2315073220.001055881
LIHCPADI60.0526758350.043040225

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Associated Genes


check button Strongly correlated genes belong to cellular important gene groups with PADI6 (coefficient>0.8, pval<0.05, node color based on FC between tumor and matched normal). Significantly associated important genes in the individual cancer types. * Cell metabolism gene: cell metabolism genes from REACTOME (black edge), IUPHAR: drug target genes from IUPHAR (blue edge), Kinase: human kinase genes (brown edge), CGC: cancer gene census genes (orange edge), TSG: tumor suppresor genes (purple edge), Epifactor: epigenetic factors (light blue edge), TF: transcription factors (green)
all structure
Cancer typeGene groupTranslation factorCorrelated geneCoefficientPvalue
CHOLCGCPADI6TLX30.82435263.43E-12
CHOLTFPADI6TLX30.82435263.43E-12


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Protein structure


check button Protein 3D structure
Visit iCn3D.


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Protein-Protein Interaction


check button Protein-protein interaction networks
* Overlap between up-regulated DEGs (log2FC<-1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))
all structure

check buttonOverlap between down-regulated DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))
all structure
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* Edge colors based on TCGA cancer types.

check button* Overlap between DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network per cancer (center: Translation factor, node: DEGs, node color: log2FC, edges: weighted by -log2(adj.P))
all structure
Cancer typeTranslation factorInteracting protein coding geneFCadj.pval
THCAPADI6ZAR1-6.31159426254640.000643096429992795
BRCAPADI6ZAR1L-1.435526628879740.00130864564001974
LUSCPADI6ZAR1L-2.580318095547720.00182371710054537
COADPADI6NPM2-1.358993385988680.00197160243988037
ESCAPADI6NPM2-6.414488013259060.0048828125
LIHCPADI6ZAR1L-2.828317429158070.00584076338898049
LUSCPADI6ZAR1-4.765965828233080.00753148348807362
KICHPADI6ZAR1L1.404713666733960.0208625823327655
BLCAPADI6OOEP1.069301036036740.0309840500984566
LUSCPADI6OOEP-2.298952059870710.0345094573036436
KIRCPADI6FIGLA-1.739792057406820.0382688764522297
HNSCPADI6ZAR1L-1.359695909567520.0454587523438197
BRCAPADI6NPM22.336827080306261.21368585808608e-16
HNSCPADI6TLE61.518284593547165.90311856285554e-07
PRADPADI6TLE62.752192836830457.28604434373912e-06
BRCAPADI6FIGLA-3.720919699785188.33731190539693e-14


check button Protein-protein interactors with this translation factor (BIOGRID-3.4.160)
PPI interactors with PADI6
SUV39H1, KLHL2, ZNF526, USP4, UHRF1, CAMKK1, KLHL28, EBF2, BRMS1, PER1, MN1, APPBP2, DHPS,


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Mutations


check button Clinically associated variants from ClinVar.
GeneChrPositionRefSeqVarSeqRefSeeqVarTypePathogenicDiseaseVarInfo
PADI6chr117699720GAsingle_nucleotide_variantUncertain_significancenot_providedSO:0001583|missense_variantSO:0001583|missense_variant
PADI6chr117707625GCsingle_nucleotide_variantUncertain_significancePremature_ovarian_failureSO:0001583|missense_variantSO:0001583|missense_variant
PADI6chr117708541TAsingle_nucleotide_variantPathogenicPreimplantation_embryonic_lethality_2SO:0001583|missense_variantSO:0001583|missense_variant
PADI6chr117718616CTsingle_nucleotide_variantPathogenicPreimplantation_embryonic_lethality_2SO:0001587|nonsenseSO:0001587|nonsense
PADI6chr117720537CTsingle_nucleotide_variantPathogenicPreimplantation_embryonic_lethality_2SO:0001587|nonsenseSO:0001587|nonsense
PADI6chr117722159GAsingle_nucleotide_variantPathogenicPreimplantation_embryonic_lethality_2SO:0001583|missense_variantSO:0001583|missense_variant
PADI6chr117722363GAsingle_nucleotide_variantBenignnot_providedSO:0001627|intron_variantSO:0001627|intron_variant
PADI6chr117723587GAsingle_nucleotide_variantUncertain_significancenot_providedSO:0001583|missense_variantSO:0001583|missense_variant
PADI6chr117727855CAGCMicrosatellitePathogenicPreimplantation_embryonic_lethality_2SO:0001589|frameshift_variantSO:0001589|frameshift_variant


check button nsSNVs with sample frequency (size of circle) from TCGA 33 cancers.
all structure


check button SNVs and Indels
GeneCancer typeChromosomeStartEndRefSeeqMutSeqMutation typeAAchange# samples
PADI6BLCAchr11772172217721723GA-RNA43
PADI6BLCAchr11772347617723477-CARNA16
PADI6BLCAchr11772068717720687G-RNA11
PADI6ESCAchr11769937917699380-ACRNA6
PADI6LIHCchr11771839217718393-CTTRNA5
PADI6KIRCchr11772528517725286AC-RNA4
PADI6ESCAchr11770668917706690-TRNA3
PADI6BRCAchr11771494617714946GASilentp.G2503
PADI6CESCchr11769872517698725CTRNA3
PADI6BLCAchr11769968217699682CARNA3
PADI6BLCAchr11772783217727832CGRNA2
PADI6STADchr11772085017720850AGMissense_Mutationp.M413V2
PADI6CHOLchr11772515517725162CCCCCCCA-RNA2
PADI6PAADchr11772215417722154CTRNA2
PADI6BLCAchr11770855917708559GCRNA2
PADI6STADchr11772155617721556GCMissense_Mutationp.E483Q2
PADI6KIRCchr11772791017727910CTRNA2
PADI6THYMchr11771867617718676GTSilentp.V343V2
PADI6ESCAchr11770757317707573GARNA2
PADI6STADchr11772156117721561CAMissense_Mutationp.F484L2
PADI6ESCAchr11770763517707635ACRNA2
PADI6LIHCchr11770195617701956C-RNA2
PADI6LIHCchr11772087817720878C-RNA2
PADI6LIHCchr11771498817714988C-RNA2
PADI6SKCMchr11772159417721594GARNA2
PADI6LUADchr11770846917708469GASilentp.T187T2
PADI6SARCchr11770759517707595CARNA2
PADI6BRCAchr11770198617701986CGMissense_Mutationp.T120S2
PADI6HNSCchr11772777117727771GARNA2
PADI6BLCAchr11769875517698755GCRNA2
PADI6CESCchr11770760117707601TCRNA2
PADI6THCAchr11772053217720532CTRNA2
PADI6BLCAchr11772781717727817CARNA2
PADI6THCAchr11772053217720532CTMissense_Mutationp.T379I1
PADI6ESCAchr11772081617720816GTRNANULL1
PADI6LIHCchr11772154617721546C-RNA1
PADI6SKCMchr11772160117721601ACMissense_Mutationp.K498Q1
PADI6SKCMchr11769879417698794CTRNA1
PADI6ESCAchr11772081617720816GTMissense_Mutationp.M401I1
PADI6LUADchr11772151217721512CARNA1
PADI6SKCMchr11772784517727845TGMissense_Mutationp.C666G1
PADI6KIRCchr11772791017727910CTSilentp.F687F1
PADI6SKCMchr11772532717725327CTRNA1
PADI6THYMchr11771867617718676GTRNA1
PADI6ESCAchr11772086417720864GTRNANULL1
PADI6LIHCchr11771947717719478-ARNA1
PADI6LIHCchr11772534817725348G-RNA1
PADI6SKCMchr11770644817706448GAMissense_Mutationp.G134E1
PADI6SKCMchr11772086317720863GARNA1
PADI6LUADchr11770755017707550GCRNA1
PADI6SKCMchr11772532717725327CTMissense_Mutationp.P612L1
PADI6COADchr11770754117707542-ASplice_Site.1
PADI6PAADchr11772170217721703-CRNA1
PADI6SKCMchr11771499817714998GARNA1
PADI6LIHCchr11771964517719645A-RNA1
PADI6LIHCchr11772169417721695TG-RNA1
PADI6SKCMchr11769960817699608CTSilentp.I58I1
PADI6SKCMchr11772361617723616GARNA1
PADI6ESCAchr11770172217701723-ARNA1
PADI6LUADchr11772169617721696T-RNA1
PADI6SKCMchr11771536317715363TGMissense_Mutationp.V317G1
PADI6COADchr11772084817720848GAMissense_Mutationp.S412N1
PADI6PCPGchr11771867217718672G-Frame_Shift_Delp.Q342fs1
PADI6ESCAchr11769873917698739GTRNA1
PADI6LIHCchr11771872817718728C-RNA1
PADI6LUADchr11770850417708504CARNA1
PADI6SKCMchr11772086317720863GAMissense_Mutationp.G417E1
PADI6THYMchr11772515117725151C-RNA1
PADI6SKCMchr11772089917720899GARNA1
PADI6LUADchr11771492217714922CGMissense_Mutationp.H242Q1
PADI6SKCMchr11770647617706476GASilentp.Q143Q1
PADI6STADchr11772159817721598A-Frame_Shift_Delp.G496fs1
PADI6COADchr11772779617727796CTSilentp.C649C1
PADI6KIRPchr11772146817721468TCSilentp.S453S1
PADI6PRADchr11772770517727705GARNA1
PADI6LUADchr11771492217714922CGRNA1
PADI6SKCMchr11770194317701943CTMissense_Mutationp.P106S1
PADI6SKCMchr11771536317715363TGRNA1
PADI6UCECchr11772153417721534GANonsense_Mutationp.W475*1
PADI6SKCMchr11770647617706476GARNA1
PADI6GBMchr11769970117699701GASilentp.S89S1
PADI6LUADchr11770849817708498ATMissense_Mutationp.Q197L1
PADI6SKCMchr11771497217714972TCMissense_Mutationp.V259A1
PADI6STADchr11772147817721478CTRNA1
PADI6DLBCchr11772784717727847TCSilentp.C666C1
PADI6LGGchr11769876717698767GARNA1
PADI6PRADchr11770195717701957CTRNA1
PADI6ESCAchr11772086417720864GTRNA1
PADI6LUADchr11772362617723626GCRNA1
PADI6SKCMchr11770855117708551GAMissense_Mutationp.E215K1
PADI6SKCMchr11772363117723631CTRNA1
PADI6UCECchr11772529017725290CTMissense_Mutationp.P600S1
PADI6BLCAchr11769968217699682CAMissense_Mutationp.A83D1
PADI6GBMchr11772145817721458GAMissense_Mutationp.R450Q1
PADI6SKCMchr11769884017698840TGRNA1
PADI6STADchr11772790517727905GAMissense_Mutationp.A686T1
PADI6DLBCchr11770195717701957CTSilentp.A110A1
PADI6LGGchr11772169617721698TTT-RNA1
PADI6LIHCchr11772076717720767C-RNA1
PADI6SKCMchr11769960817699608CTRNA1
PADI6UCSchr11772796917727969GARNA1
PADI6ESCAchr11772081617720816GTRNA1
PADI6LUADchr11772357817723578AGRNA1
PADI6SKCMchr11772159417721594GASilentp.E495E1
PADI6SKCMchr11772360517723605GARNA1
PADI6GBMchr11770855917708559GASilentp.S217S1
PADI6LUADchr11772151217721512CAMissense_Mutationp.P468Q1
PADI6SKCMchr11769883417698834GARNA1
PADI6STADchr11770762717707627AGMissense_Mutationp.D174G1
PADI6ESCAchr11769873917698739GTRNANULL1
PADI6LIHCchr11771504317715043TCRNA1
PADI6LIHCchr11772078917720789C-RNA1
PADI6SARCchr11771531417715314CARNA1
PADI6SKCMchr11772208317722083CTRNA1
PADI6ESCAchr11771532617715326TCRNA1
PADI6LUADchr11770849817708498ATRNA1
PADI6SKCMchr11769883417698834GAMissense_Mutationp.E32K1
PADI6SKCMchr11770194317701943CTRNA1
PADI6LUADchr11770755017707550GCMissense_Mutationp.W148C1
PADI6SKCMchr11772356717723567GARNA1
PADI6STADchr11772159817721598A-Frame_Shift_Delp.K497fs1
PADI6ESCAchr11770757317707573GARNANULL1
PADI6LIHCchr11772782717727827TCRNA1
PADI6LIHCchr11772080217720802G-RNA1
PADI6SARCchr11772080917720809GTRNA1
PADI6SKCMchr11772208417722084CTRNA1
PADI6ESCAchr11771532617715326TCMissense_Mutationp.C305R1
PADI6LUADchr11772532217725322GARNA1
PADI6SKCMchr11772057817720578GASilentp.L394L1
PADI6SKCMchr11770855117708551GARNA1
PADI6HNSCchr11772777117727771GAMissense_Mutationp.C641Y1
PADI6LUSCchr11769970317699703CAMissense_Mutationp.P90H1
PADI6SKCMchr11772160117721601ACRNA1
PADI6TGCTchr11770667617706676G-RNA1
PADI6ESCAchr11770763517707635ACRNANULL1
PADI6LIHCchr11772787217727872TCRNA1
PADI6LIHCchr11772774517727745T-RNA1
PADI6SARCchr11772168417721684G-RNA1
PADI6SKCMchr11771497217714972TCRNA1
PADI6ESCAchr11770763517707635ACMissense_Mutationp.T177P1
PADI6LUADchr11770850317708503CARNA1
PADI6SKCMchr11772776317727763GASilentp.K638K1
PADI6SKCMchr11770644817706448GARNA1
PADI6KIRCchr11772528517725286AC-Frame_Shift_Delp.598_598del1
PADI6LUSCchr11770850117708501GTMissense_Mutationp.G198V1
PADI6SKCMchr11772776317727763GARNA1
PADI6ESCAchr11771532617715326TCRNANULL1
PADI6LIHCchr11771530017715300AGRNA1
PADI6LIHCchr11771860817718608G-RNA1
PADI6SARCchr11770759517707595CARNANULL1
PADI6SKCMchr11772784517727845TGRNA1
PADI6ESCAchr11770757317707573GAMissense_Mutationp.G156D1
PADI6LUADchr11770846917708469GARNA1
PADI6SKCMchr11771494317714943CTSilentp.L249L1
PADI6SKCMchr11770644117706441CGRNA1
PADI6CHOLchr11772515117725154CCCC-RNA1
PADI6KIRCchr11772153217721532TAMissense_Mutationp.W475R1
PADI6PAADchr11772215417722154CTMissense_Mutationp.S538F1
PADI6SKCMchr11772151617721516GARNA1

check buttonCopy number variation (CNV) of PADI6
* Click on the image to open the original image in a new window.
all structure

check buttonFusion gene breakpoints (product of the structural variants (SVs)) across PADI6
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


check button Fusion genes with this translation factor from FusionGDB2.0.
FusionGDB2 IDDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
6188ESCATCGA-L5-A88VARHGEF10Lchr117930086+PADI6chr117714875+
6188ESCATCGA-L5-A88VARHGEF10Lchr117930086+PADI6chr117714876+
6188ESCATCGA-L5-A88VARHGEF10Lchr117930086+PADI6chr117714879+


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Prognostic Analysis


check button Kaplan-Meier plots with logrank tests of overall survival (OS)
all structure
Cancer typeTranslation factorCoefficentHazard ratioWald test pvalLikelihool ratio pvalLogrank test pval# samples


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Translation factor and Gender


check button Differential gene expression between female and male. (Wilcoxon test, pval<0.05)
all structure
Cancer typeTranslation factorpvaladj.p
GBMPADI60.004969869637880.14
TGCTPADI60.01389385564976620.38

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Translation factor and Age


check button Differential gene expression between young and old age groups (Wilcoxon test, pval<0.05)
all structure
Cancer typeTranslation factorpvaladj.p
THYMPADI60.04199473634452881

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Related Drugs


check button Drugs targeting genes involved in this translation factor.
(DrugBank Version 5.1.8 2021-05-08)
UniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
Q6TGC4DB00155CitrullineProduct ofSmall moleculeInvestigational|Nutraceutical
Q6TGC4DB00155CitrullineProduct of

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Related Diseases


check button Diseases associated with this translation factor.
(DisGeNet 4.0)
Disease IDDisease Name# PubMedsDisease source
C4310659PREIMPLANTATION EMBRYONIC LETHALITY 21CTD_human;UNIPROT