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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: 7320

FusionGeneSummary for CLCN3_TDO2

check button Fusion gene summary
Fusion gene informationFusion gene name: CLCN3_TDO2
Fusion gene ID: 7320
HgeneTgene
Gene symbol

CLCN3

TDO2

Gene ID

1182

6999

Gene namechloride voltage-gated channel 3tryptophan 2,3-dioxygenase
SynonymsCLC3|ClC-3HYPTRP|TDO|TO|TPH2|TRPO
Cytomap

4q33

4q32.1

Type of geneprotein-codingprotein-coding
DescriptionH(+)/Cl(-) exchange transporter 3chloride channel 3chloride channel protein 3chloride channel, voltage-sensitive 3chloride transporter ClC-3tryptophan 2,3-dioxygenasetryptamin 2,3-dioxygenasetryptophan oxygenasetryptophan pyrrolasetryptophanase
Modification date2018052320180523
UniProtAcc

P51790

P48775

Ensembl transtripts involved in fusion geneENST00000513761, ENST00000347613, 
ENST00000360642, ENST00000504131, 
ENST00000506924, 
ENST00000506181, 
ENST00000536354, 
Fusion gene scores* DoF score8 X 7 X 4=2241 X 1 X 1=1
# samples 91
** MAII scorelog2(9/224*10)=-1.31550182572793
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(1/1*10)=3.32192809488736
Context

PubMed: CLCN3 [Title/Abstract] AND TDO2 [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
HgeneCLCN3

GO:1902476

chloride transmembrane transport

11274166

TgeneTDO2

GO:0019441

tryptophan catabolic process to kynurenine

27762317

TgeneTDO2

GO:0051289

protein homotetramerization

27762317|28285122


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
TCGARVBLCATCGA-PQ-A6FI-01ACLCN3chr4

170601358

+TDO2chr4

156838547

+
* 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-intronENST00000513761ENST00000506181CLCN3chr4

170601358

+TDO2chr4

156838547

+
5CDS-intronENST00000513761ENST00000536354CLCN3chr4

170601358

+TDO2chr4

156838547

+
5CDS-intronENST00000347613ENST00000506181CLCN3chr4

170601358

+TDO2chr4

156838547

+
5CDS-intronENST00000347613ENST00000536354CLCN3chr4

170601358

+TDO2chr4

156838547

+
5CDS-intronENST00000360642ENST00000506181CLCN3chr4

170601358

+TDO2chr4

156838547

+
5CDS-intronENST00000360642ENST00000536354CLCN3chr4

170601358

+TDO2chr4

156838547

+
5CDS-intronENST00000504131ENST00000506181CLCN3chr4

170601358

+TDO2chr4

156838547

+
5CDS-intronENST00000504131ENST00000536354CLCN3chr4

170601358

+TDO2chr4

156838547

+
intron-intronENST00000506924ENST00000506181CLCN3chr4

170601358

+TDO2chr4

156838547

+
intron-intronENST00000506924ENST00000536354CLCN3chr4

170601358

+TDO2chr4

156838547

+

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FusionProtFeatures for CLCN3_TDO2


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CLCN3

P51790

TDO2

P48775

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}. Heme-dependent dioxygenase that catalyzes the oxidativecleavage of the L-tryptophan (L-Trp) pyrrole ring and converts L-tryptophan to N-formyl-L-kynurenine. Catalyzes the oxidativecleavage of the indole moiety. {ECO:0000255|HAMAP-Rule:MF_03020,ECO:0000269|PubMed:25066423, ECO:0000269|PubMed:27762317,ECO:0000269|PubMed:28285122}.

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 CLCN3_TDO2


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 CLCN3_TDO2


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
CLCN3CLCN3, SLC9A3R1, PDZK1, GOPC, CFTR, LGALS3, LGALS8, LGALS9, LYPD3, HSPB1, TMEM9B, GGA1, TPCN2, TRIM25TDO2ASMTL, KDM1A, PRMT6, EIF4E, TDO2, MEOX2, NMNAT1, REL, SDCBP, PSMA1, DPM1, ZFYVE26, SDCBP2, MOB1A, NGB, MOB3C, LMNA


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 CLCN3_TDO2


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for CLCN3_TDO2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCLCN3C0017638Glioma1CTD_human
HgeneCLCN3C0038356Stomach Neoplasms1CTD_human
HgeneCLCN3C2931822Nasopharyngeal carcinoma1CTD_human
TgeneTDO2C0005586Bipolar Disorder5PSYGENET
TgeneTDO2C0041696Unipolar Depression5PSYGENET
TgeneTDO2C1269683Major Depressive Disorder5PSYGENET
TgeneTDO2C0004352Autistic Disorder1CTD_human
TgeneTDO2C0033975Psychotic Disorders1PSYGENET
TgeneTDO2C0036341Schizophrenia1PSYGENET
TgeneTDO2C0038187Starvation1CTD_human
TgeneTDO2C0220702SCHIZOPHRENIA 1 (disorder)1PSYGENET
TgeneTDO2C0349204Nonorganic psychosis1PSYGENET