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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 27434

FusionGeneSummary for PLA2G2A_CLCN3

check button Fusion gene summary
Fusion gene informationFusion gene name: PLA2G2A_CLCN3
Fusion gene ID: 27434
HgeneTgene
Gene symbol

PLA2G2A

CLCN3

Gene ID

5320

1182

Gene namephospholipase A2 group IIAchloride voltage-gated channel 3
SynonymsMOM1|PLA2|PLA2B|PLA2L|PLA2S|PLAS1|sPLA2CLC3|ClC-3
Cytomap

1p36.13

4q33

Type of geneprotein-codingprotein-coding
Descriptionphospholipase A2, membrane associatedGIIC sPLA2NPS-PLA2group IIA phospholipase A2non-pancreatic secretory phospholipase A2phosphatidylcholine 2-acylhydrolase 2Aphospholipase A2, group IIA (platelets, synovial fluid)H(+)/Cl(-) exchange transporter 3chloride channel 3chloride channel protein 3chloride channel, voltage-sensitive 3chloride transporter ClC-3
Modification date2018051920180523
UniProtAcc

P14555

P51790

Ensembl transtripts involved in fusion geneENST00000400520, ENST00000496748, 
ENST00000375111, 
ENST00000513761, 
ENST00000347613, ENST00000360642, 
ENST00000504131, ENST00000506924, 
Fusion gene scores* DoF score6 X 2 X 1=1236 X 4 X 19=2736
# samples 639
** MAII scorelog2(6/12*10)=2.32192809488736
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(39/2736*10)=-2.81052220113629
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: PLA2G2A [Title/Abstract] AND CLCN3 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgenePLA2G2A

GO:0006644

phospholipid metabolic process

17069818

HgenePLA2G2A

GO:0046473

phosphatidic acid metabolic process

9032461

HgenePLA2G2A

GO:0070374

positive regulation of ERK1 and ERK2 cascade

22837859

TgeneCLCN3

GO:1902476

chloride transmembrane transport

11274166


check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGARVPRADTCGA-EJ-5527-01APLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

check button Open reading frame (ORF) analsis of fusion genes 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.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
5CDS-intronENST00000400520ENST00000513761PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000400520ENST00000347613PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000400520ENST00000360642PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000400520ENST00000504131PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000400520ENST00000506924PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000496748ENST00000513761PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000496748ENST00000347613PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000496748ENST00000360642PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000496748ENST00000504131PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000496748ENST00000506924PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000375111ENST00000513761PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000375111ENST00000347613PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000375111ENST00000360642PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000375111ENST00000504131PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+
5CDS-intronENST00000375111ENST00000506924PLA2G2Achr1

20301925

-CLCN3chr4

170623929

+

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FusionProtFeatures for PLA2G2A_CLCN3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
PLA2G2A

P14555

CLCN3

P51790

Catalyzes the calcium-dependent hydrolysis of the 2-acylgroups in 3-sn-phosphoglycerides (PubMed:2925633). Thought toparticipate in the regulation of phospholipid metabolism inbiomembranes including eicosanoid biosynthesis. Independent of itscatalytic activity, acts as a ligand for integrins(PubMed:18635536, PubMed:25398877). Binds to and activatesintegrins ITGAV:ITGB3, ITGA4:ITGB1 and ITGA5:ITGB1(PubMed:18635536, PubMed:25398877). Binds to a site (site 2) whichis distinct from the classical ligand-binding site (site 1) andinduces integrin conformational changes and enhanced ligandbinding to site 1 (PubMed:25398877). Induces cell proliferation inan integrin-dependent manner (PubMed:18635536).{ECO:0000269|PubMed:18635536, ECO:0000269|PubMed:25398877,ECO:0000269|PubMed:2925633}. Mediates the exchange of chloride ions against protons.Functions as antiporter and contributes to the acidification ofthe endosome and synaptic vesicle lumen, and may thereby affectvesicle trafficking and exocytosis. May play an important role inneuronal cell function through regulation of membrane excitabilityby protein kinase C. It could help neuronal cells to establishshort-term memory. {ECO:0000269|PubMed:11967229}.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page

.

* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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FusionGeneSequence for PLA2G2A_CLCN3


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for PLA2G2A_CLCN3


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page

.

check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors
PLA2G2APLA2G1B, DCN, CEP70, BAG6, PLA2G2A, VIM, UCHL5, UCHL3, USP8, USP7, USP5, USP47, USP4, USP28, USP20, USP2, USP15, UCHL1, SENP6, JOSD2, SENP8, KRAS, ALOX12, ITGAV, ITGB3, TGM2CLCN3CLCN3, SLC9A3R1, PDZK1, GOPC, CFTR, LGALS3, LGALS8, LGALS9, LYPD3, HSPB1, TMEM9B, GGA1, TPCN2, TRIM25


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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RelatedDrugs for PLA2G2A_CLCN3


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgenePLA2G2AP14555DB00328IndomethacinPhospholipase A2, membrane associatedsmall moleculeapproved|investigational
HgenePLA2G2AP14555DB02325Isopropyl AlcoholPhospholipase A2, membrane associatedsmall moleculeapproved|investigational
HgenePLA2G2AP14555DB04786SuraminPhospholipase A2, membrane associatedsmall moleculeapproved|investigational
HgenePLA2G2AP14555DB01381Ginkgo bilobaPhospholipase A2, membrane associatedsmall moleculeapproved|investigational|nutraceutical
HgenePLA2G2AP14555DB00586DiclofenacPhospholipase A2, membrane associatedsmall moleculeapproved|vet_approved

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RelatedDiseases for PLA2G2A_CLCN3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgenePLA2G2AC0005586Bipolar Disorder2PSYGENET
HgenePLA2G2AC0004153Atherosclerosis1CTD_human
HgenePLA2G2AC0011581Depressive disorder1PSYGENET
HgenePLA2G2AC0014175Endometriosis1CTD_human
HgenePLA2G2AC0035126Reperfusion Injury1CTD_human
HgenePLA2G2AC0151744Myocardial Ischemia1CTD_human
HgenePLA2G2AC0349218Recurrent depressive disorder, unspecified1PSYGENET
HgenePLA2G2AC1839839MAJOR AFFECTIVE DISORDER 21PSYGENET
TgeneCLCN3C0017638Glioma1CTD_human
TgeneCLCN3C0038356Stomach Neoplasms1CTD_human
TgeneCLCN3C2931822Nasopharyngeal carcinoma1CTD_human