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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: LRRK2 (CAeditome ID:120892)

Gene summary for LRRK2

check button Gene summary
Gene informationGene symbol

LRRK2

Gene ID

120892

Gene nameleucine rich repeat kinase 2
SynonymsAURA17|DARDARIN|PARK8|RIPK7|ROCO2
Cytomap

12q12

Type of geneprotein-coding
Descriptionleucine-rich repeat serine/threonine-protein kinase 2augmented in rheumatoid arthritis 17
Modification date20210524
UniProtAcc

Q5S007

Context- 33784003(LRRK2 inhibition potentiates PARP inhibitor cytotoxicity through inhibiting homologous recombination-mediated DNA double strand break repair)

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID
LRRK2

GO:0034260

Leucine-rich repeat serine/threonine-protein kinase 2

22423108

LRRK2

GO:0003924

Leucine-rich repeat serine/threonine-protein kinase 2

21048939

LRRK2

GO:0004672

Leucine-rich repeat serine/threonine-protein kinase 2

16269541

LRRK2

GO:0004672

Leucine-rich repeat serine/threonine-protein kinase 2

16321986

LRRK2

GO:0004672

Leucine-rich repeat serine/threonine-protein kinase 2

17442267

LRRK2

GO:0004672

Leucine-rich repeat serine/threonine-protein kinase 2

21850687

LRRK2

GO:0004672

Leucine-rich repeat serine/threonine-protein kinase 2

25500533

LRRK2

GO:0004674

Leucine-rich repeat serine/threonine-protein kinase 2

17200152

LRRK2

GO:0004674

Leucine-rich repeat serine/threonine-protein kinase 2

19576176

LRRK2

GO:0004674

Leucine-rich repeat serine/threonine-protein kinase 2

21048939

LRRK2

GO:0004674

Leucine-rich repeat serine/threonine-protein kinase 2

21850687

LRRK2

GO:0004674

Leucine-rich repeat serine/threonine-protein kinase 2

22423108

LRRK2

GO:0004674

Leucine-rich repeat serine/threonine-protein kinase 2

23949442

LRRK2

GO:0004708

Leucine-rich repeat serine/threonine-protein kinase 2

19302196

LRRK2

GO:0005096

Leucine-rich repeat serine/threonine-protein kinase 2

17442267

LRRK2

GO:0005525

Leucine-rich repeat serine/threonine-protein kinase 2

16980962

LRRK2

GO:0005525

Leucine-rich repeat serine/threonine-protein kinase 2

17260967

LRRK2

GO:0005525

Leucine-rich repeat serine/threonine-protein kinase 2

17442267

LRRK2

GO:0015631

Leucine-rich repeat serine/threonine-protein kinase 2

21159966

LRRK2

GO:0016301

Leucine-rich repeat serine/threonine-protein kinase 2

17114044

LRRK2

GO:0034211

Leucine-rich repeat serine/threonine-protein kinase 2

17260967

LRRK2

GO:0036479

Leucine-rich repeat serine/threonine-protein kinase 2

21850687

LRRK2

GO:0000165

Leucine-rich repeat serine/threonine-protein kinase 2

17200152

LRRK2

GO:0000186

Leucine-rich repeat serine/threonine-protein kinase 2

19302196

LRRK2

GO:0001934

Leucine-rich repeat serine/threonine-protein kinase 2

22012985

LRRK2

GO:0006468

Leucine-rich repeat serine/threonine-protein kinase 2

25500533

LRRK2

GO:0010955

Leucine-rich repeat serine/threonine-protein kinase 2

21370995

LRRK2

GO:0018105

Leucine-rich repeat serine/threonine-protein kinase 2

19576176

LRRK2

GO:0018107

Leucine-rich repeat serine/threonine-protein kinase 2

21048939

LRRK2

GO:0031398

Leucine-rich repeat serine/threonine-protein kinase 2

16352719

LRRK2

GO:0031398

Leucine-rich repeat serine/threonine-protein kinase 2

20173330

LRRK2

GO:0032092

Leucine-rich repeat serine/threonine-protein kinase 2

21370995

LRRK2

GO:0043068

Leucine-rich repeat serine/threonine-protein kinase 2

17200152

LRRK2

GO:0046039

Leucine-rich repeat serine/threonine-protein kinase 2

21048939

LRRK2

GO:0046777

Leucine-rich repeat serine/threonine-protein kinase 2

16269541

LRRK2

GO:0046777

Leucine-rich repeat serine/threonine-protein kinase 2

16321986

LRRK2

GO:0046777

Leucine-rich repeat serine/threonine-protein kinase 2

17200152

LRRK2

GO:0046777

Leucine-rich repeat serine/threonine-protein kinase 2

17442267

LRRK2

GO:1902499

Leucine-rich repeat serine/threonine-protein kinase 2

16352719

LRRK2

GO:1903125

Leucine-rich repeat serine/threonine-protein kinase 2

21850687

LRRK2

GO:1903215

Leucine-rich repeat serine/threonine-protein kinase 2

21370995

LRRK2

GO:0005737

Leucine-rich repeat serine/threonine-protein kinase 2

16321986

LRRK2

GO:0005737

Leucine-rich repeat serine/threonine-protein kinase 2

16352719

LRRK2

GO:0005737

Leucine-rich repeat serine/threonine-protein kinase 2

19625296

LRRK2

GO:0005739

Leucine-rich repeat serine/threonine-protein kinase 2

21850687

LRRK2

GO:0005783

Leucine-rich repeat serine/threonine-protein kinase 2

19640926

LRRK2

GO:0005794

Leucine-rich repeat serine/threonine-protein kinase 2

23395371

LRRK2

GO:0005798

Leucine-rich repeat serine/threonine-protein kinase 2

24510904

LRRK2

GO:0005829

Leucine-rich repeat serine/threonine-protein kinase 2

21850687

LRRK2

GO:0005829

Leucine-rich repeat serine/threonine-protein kinase 2

22736029

LRRK2

GO:0005829

Leucine-rich repeat serine/threonine-protein kinase 2

22899650

LRRK2

GO:0005829

Leucine-rich repeat serine/threonine-protein kinase 2

24403142

LRRK2

GO:0005886

Leucine-rich repeat serine/threonine-protein kinase 2

22899650

LRRK2

GO:0005902

Leucine-rich repeat serine/threonine-protein kinase 2

19640926

LRRK2

GO:0030424

Leucine-rich repeat serine/threonine-protein kinase 2

17120249

LRRK2

GO:0030425

Leucine-rich repeat serine/threonine-protein kinase 2

17120249

LRRK2

GO:0030426

Leucine-rich repeat serine/threonine-protein kinase 2

19625296

LRRK2

GO:0031966

Leucine-rich repeat serine/threonine-protein kinase 2

22736029

LRRK2

GO:0032473

Leucine-rich repeat serine/threonine-protein kinase 2

16269541

LRRK2

GO:0032839

Leucine-rich repeat serine/threonine-protein kinase 2

21696411

LRRK2

GO:0043005

Leucine-rich repeat serine/threonine-protein kinase 2

19625296

LRRK2

GO:0043005

Leucine-rich repeat serine/threonine-protein kinase 2

21048939

LRRK2

GO:0043025

Leucine-rich repeat serine/threonine-protein kinase 2

21048939

LRRK2

GO:0043025

Leucine-rich repeat serine/threonine-protein kinase 2

21696411

LRRK2

GO:0043204

Leucine-rich repeat serine/threonine-protein kinase 2

17120249

LRRK2

GO:0043231

Leucine-rich repeat serine/threonine-protein kinase 2

0000052

LRRK2

GO:0044753

Leucine-rich repeat serine/threonine-protein kinase 2

19640926

LRRK2

GO:0044754

Leucine-rich repeat serine/threonine-protein kinase 2

19640926

LRRK2

GO:0070971

Leucine-rich repeat serine/threonine-protein kinase 2

25201882

LRRK2

GO:0097487

Leucine-rich repeat serine/threonine-protein kinase 2

19640926

LRRK2

GO:0099400

Leucine-rich repeat serine/threonine-protein kinase 2

19640926

LRRK2

GO:1990909

Leucine-rich repeat serine/threonine-protein kinase 2

22899650


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RNA A-to-I events for LRRK2

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: ENSG00000188906.12

check button RNA A-to-I editing events in Cancer.
CAediting_880380(40231319, +), CAediting_880381(40231438, +), CAediting_880382(40231444, +), CAediting_880383(40231448, +), CAediting_880384(40231455, +), CAediting_880385(40231474, +), CAediting_880386(40231478, +), CAediting_880387(40231479, +), CAediting_880388(40231511, +), CAediting_880389(40231516, +), CAediting_880390(40231529, +), CAediting_880391(40234559, +), CAediting_880392(40235194, +), CAediting_880393(40235210, +), CAediting_880394(40235214, +), CAediting_880395(40235237, +), CAediting_880396(40235242, +), CAediting_880397(40235279, +), CAediting_880398(40235288, +), CAediting_880399(40235322, +), CAediting_880400(40235325, +), CAediting_880401(40235341, +), CAediting_880402(40235351, +), CAediting_880403(40235360, +), CAediting_880404(40235361, +), CAediting_880405(40235365, +), CAediting_880406(40235401, +), CAediting_880407(40253463, +), CAediting_880408(40264349, +), CAediting_880409(40271051, +), CAediting_880410(40326488, +),

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RNA editing positional annotations for LRRK2 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_880380chr12_40231319_+ncRNA_intronic
CAediting_880381chr12_40231438_+ncRNA_intronic
CAediting_880382chr12_40231444_+ncRNA_intronic
CAediting_880383chr12_40231448_+ncRNA_intronic
CAediting_880384chr12_40231455_+ncRNA_intronic
CAediting_880385chr12_40231474_+ncRNA_intronic
CAediting_880386chr12_40231478_+ncRNA_intronic
CAediting_880387chr12_40231479_+ncRNA_intronic
CAediting_880388chr12_40231511_+ncRNA_intronic
CAediting_880389chr12_40231516_+ncRNA_intronic
CAediting_880390chr12_40231529_+ncRNA_intronic
CAediting_880391chr12_40234559_+intronic
CAediting_880392chr12_40235194_+intronic
CAediting_880393chr12_40235210_+intronic
CAediting_880394chr12_40235214_+intronic
CAediting_880395chr12_40235237_+intronic
CAediting_880396chr12_40235242_+intronic
CAediting_880397chr12_40235279_+intronic
CAediting_880398chr12_40235288_+intronic
CAediting_880399chr12_40235322_+intronic
CAediting_880400chr12_40235325_+intronic
CAediting_880401chr12_40235341_+intronic
CAediting_880402chr12_40235351_+intronic
CAediting_880403chr12_40235360_+intronic
CAediting_880404chr12_40235361_+intronic
CAediting_880405chr12_40235365_+intronic
CAediting_880406chr12_40235401_+intronic
CAediting_880407chr12_40253463_+intronic
CAediting_880408chr12_40264349_+intronic
CAediting_880409chr12_40271051_+intronic
CAediting_880410chr12_40326488_+ncRNA_intronic

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_880380chr12_40231319_+SINEAluAluJo
CAediting_880381chr12_40231438_+SINEAluAluJo
CAediting_880382chr12_40231444_+SINEAluAluJo
CAediting_880383chr12_40231448_+SINEAluAluJo
CAediting_880384chr12_40231455_+SINEAluAluJo
CAediting_880385chr12_40231474_+SINEAluAluJo
CAediting_880386chr12_40231478_+SINEAluAluJo
CAediting_880387chr12_40231479_+SINEAluAluJo
CAediting_880388chr12_40231511_+SINEAluAluJo
CAediting_880389chr12_40231516_+SINEAluAluJo
CAediting_880390chr12_40231529_+SINEAluAluJo
CAediting_880391chr12_40234559_+SINEAluAluSc
CAediting_880392chr12_40235194_+SINEAluAluJr4
CAediting_880393chr12_40235210_+SINEAluAluJr4
CAediting_880394chr12_40235214_+SINEAluAluJr4
CAediting_880395chr12_40235237_+SINEAluAluJr4
CAediting_880396chr12_40235242_+SINEAluAluJr4
CAediting_880397chr12_40235279_+SINEAluAluJr4
CAediting_880398chr12_40235288_+SINEAluAluJr4
CAediting_880399chr12_40235322_+SINEAluAluJr4
CAediting_880400chr12_40235325_+SINEAluAluJr4
CAediting_880401chr12_40235341_+SINEAluAluJr4
CAediting_880402chr12_40235351_+SINEAluAluJr4
CAediting_880403chr12_40235360_+SINEAluAluJr4
CAediting_880404chr12_40235361_+SINEAluAluJr4
CAediting_880405chr12_40235365_+SINEAluAluJr4
CAediting_880406chr12_40235401_+SINEAluAluJr4
CAediting_880407chr12_40253463_+SINEAluAluJo
CAediting_880408chr12_40264349_+SINEAluAluSg
CAediting_880409chr12_40271051_+SINEAluAluJo
CAediting_880410chr12_40326488_+SINEAluAluY

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RNA A-to-I editing events in the alternative splicing sites for LRRK2

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 ENSG00000188906.12.LRRK2.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000188906.12.LRRK2.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for LRRK2

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

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

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.

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Protein coding region RNA A-to-I editings for LRRK2

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 LRRK2

**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_+ENSG00000188906.12ENST00000343742hsa-miR-4477b40304831403048388mer-1a4030481740304838157-15.54
CAediting_846604chr11_93733708_-ENSG00000188906.12ENST00000430804hsa-miR-1304-3p40309146403091527mer-m84030913240309153150-14.3
CAediting_688080chr9_63819626_+ENSG00000188906.12ENST00000430804hsa-miR-4477b40348481403484877mer-m84034846740348488147-9.21
CAediting_688081chr9_63819627_+ENSG00000188906.12ENST00000430804hsa-miR-4477b40368642403686498mer-1a4036862940368649146-10.72
CAediting_1399425chr20_1392958_-ENSG00000188906.12ENST00000343742hsa-miR-6869-5p40304484403044918mer-1a4030447040304491140-14.84
CAediting_1306323chr19_13836462_-ENSG00000188906.12ENST00000430804hsa-miR-27a-3p40301035403010406mer4030102240301041141-19.34
CAediting_1229415chr17_67471547_+ENSG00000188906.12ENST00000430804hsa-miR-548aa40315276403152827mer-m84031526040315283152-13.49
CAediting_1229413chr17_67471544_+ENSG00000188906.12ENST00000430804hsa-miR-548aa40322371403223777mer-m84032235440322378145-11.33
CAediting_228905chr2_188297554_+ENSG00000188906.12ENST00000430804hsa-miR-561-3p40322414403224207mer-m84032240340322421147-18.53
CAediting_396018chr5_1062918_-ENSG00000188906.12ENST00000430804hsa-miR-463540348482403484898mer-1a4034846940348489140-13.5
CAediting_228905chr2_188297554_+ENSG00000188906.12ENST00000430804hsa-miR-561-3p40363516403635227mer-m84036350240363523140-13.73
CAediting_228905chr2_188297554_+ENSG00000188906.12ENST00000430804hsa-miR-561-3p40368432403684387mer-m84036841840368439145-9.36
CAediting_228905chr2_188297554_+ENSG00000188906.12ENST00000430804hsa-miR-561-3p40368450403684567mer-m84036843640368457140-8.05

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_228905chr2_188297554_+ENSG00000188906.12ENST00000430804hsa-miR-561-3p40369037403690448mer-1a4036902240369044147-5.05

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 LRRK2

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 LRRK2

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 LRRK2

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

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Relation with survival for LRRK2

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR

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RelatedDrugs for LRRK2

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.8 2021-01-03)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
LRRK2Q5S007DB12010FostamatinibLeucine-rich repeat serine/threonine-protein kinase 2 SmallMoleculeDrugapproved|investigational

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RelatedDiseases for LRRK2

check button Diseases associated with this gene.
(DisGeNet 7.0)
GeneDisease IDDisease name# pubmedsSource
LRRK2C1846862PARKINSON DISEASE 8 (disorder)44CTD_human;GENOMICS_ENGLAND;UNIPROT
LRRK2C0030567Parkinson Disease11CTD_human
LRRK2C0242422Parkinsonian Disorders3CTD_human
LRRK2C0242423Ramsay Hunt Paralysis Syndrome3CTD_human
LRRK2C0752097Autosomal Dominant Juvenile Parkinson Disease3CTD_human
LRRK2C0752098Autosomal Dominant Parkinsonism3CTD_human
LRRK2C0752100Autosomal Recessive Parkinsonism3CTD_human
LRRK2C0752101Parkinsonism, Experimental3CTD_human
LRRK2C0752104Familial Juvenile Parkinsonism3CTD_human
LRRK2C0752105Parkinsonism, Juvenile3CTD_human
LRRK2C1868675PARKINSON DISEASE 2, AUTOSOMAL RECESSIVE JUVENILE3CTD_human
LRRK2C0007134Renal Cell Carcinoma1CTD_human
LRRK2C0014175Endometriosis1CTD_human
LRRK2C0027746Nerve Degeneration1CTD_human
LRRK2C0269102Endometrioma1CTD_human
LRRK2C0279702Conventional (Clear Cell) Renal Cell Carcinoma1CTD_human
LRRK2C1266042Chromophobe Renal Cell Carcinoma1CTD_human
LRRK2C1266043Sarcomatoid Renal Cell Carcinoma1CTD_human
LRRK2C1266044Collecting Duct Carcinoma of the Kidney1CTD_human
LRRK2C1306837Papillary Renal Cell Carcinoma1CTD_human