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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: 23784

FusionGeneSummary for NDRG1_CLCN3

check button Fusion gene summary
Fusion gene informationFusion gene name: NDRG1_CLCN3
Fusion gene ID: 23784
HgeneTgene
Gene symbol

NDRG1

CLCN3

Gene ID

10397

1182

Gene nameN-myc downstream regulated 1chloride voltage-gated channel 3
SynonymsCAP43|CMT4D|DRG-1|DRG1|GC4|HMSNL|NDR1|NMSL|PROXY1|RIT42|RTP|TARG1|TDD5CLC3|ClC-3
Cytomap

8q24.22

4q33

Type of geneprotein-codingprotein-coding
Descriptionprotein NDRG1N-myc downstream-regulated gene 1 proteindifferentiation-related gene 1 proteinnickel-specific induction protein Cap43protein regulated by oxygen-1reducing agents and tunicamycin-responsive proteinH(+)/Cl(-) exchange transporter 3chloride channel 3chloride channel protein 3chloride channel, voltage-sensitive 3chloride transporter ClC-3
Modification date2018052320180523
UniProtAcc

Q92597

P51790

Ensembl transtripts involved in fusion geneENST00000323851, ENST00000354944, 
ENST00000521414, ENST00000537882, 
ENST00000414097, ENST00000518176, 
ENST00000522476, ENST00000518066, 
ENST00000513761, ENST00000347613, 
ENST00000360642, ENST00000504131, 
ENST00000506924, 
Fusion gene scores* DoF score17 X 14 X 7=166636 X 4 X 19=2736
# samples 2239
** MAII scorelog2(22/1666*10)=-2.92081297184089
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
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: NDRG1 [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
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-HC-7736-01ANDRG1chr8

134249419

-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-intronENST00000323851ENST00000513761NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000323851ENST00000347613NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000323851ENST00000360642NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000323851ENST00000504131NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000323851ENST00000506924NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000354944ENST00000513761NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000354944ENST00000347613NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000354944ENST00000360642NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000354944ENST00000504131NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000354944ENST00000506924NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000521414ENST00000513761NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000521414ENST00000347613NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000521414ENST00000360642NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000521414ENST00000504131NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000521414ENST00000506924NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000537882ENST00000513761NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000537882ENST00000347613NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000537882ENST00000360642NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000537882ENST00000504131NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000537882ENST00000506924NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000414097ENST00000513761NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000414097ENST00000347613NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000414097ENST00000360642NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000414097ENST00000504131NDRG1chr8

134249419

-CLCN3chr4

170623929

+
5CDS-intronENST00000414097ENST00000506924NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000518176ENST00000513761NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000518176ENST00000347613NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000518176ENST00000360642NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000518176ENST00000504131NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000518176ENST00000506924NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000522476ENST00000513761NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000522476ENST00000347613NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000522476ENST00000360642NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000522476ENST00000504131NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000522476ENST00000506924NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000518066ENST00000513761NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000518066ENST00000347613NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000518066ENST00000360642NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000518066ENST00000504131NDRG1chr8

134249419

-CLCN3chr4

170623929

+
intron-intronENST00000518066ENST00000506924NDRG1chr8

134249419

-CLCN3chr4

170623929

+

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FusionProtFeatures for NDRG1_CLCN3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
NDRG1

Q92597

CLCN3

P51790

Stress-responsive protein involved in hormone responses,cell growth, and differentiation. Acts as a tumor suppressor inmany cell types. Necessary but not sufficient for p53/TP53-mediated caspase activation and apoptosis. Has a role in celltrafficking, notably of the Schwann cell, and is necessary for themaintenance and development of the peripheral nerve myelin sheath.Required for vesicular recycling of CDH1 and TF. May also functionin lipid trafficking. Protects cells from spindle disruptiondamage. Functions in p53/TP53-dependent mitotic spindlecheckpoint. Regulates microtubule dynamics and maintains euploidy.{ECO:0000269|PubMed:15247272, ECO:0000269|PubMed:15377670,ECO:0000269|PubMed:17786215, ECO:0000269|PubMed:9766676}. 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 NDRG1_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 NDRG1_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
NDRG1ARL4D, PHYHIP, S100B, HSP90AA1, HSPA5, VCP, CANX, PSMC3, PSMC2, PSMD2, XRCC6, RUVBL2, ILF3, SEC23A, COPB2, CLTC, AP2M1, AP1M2, MME, CTNNB1, ACTG1, KIF5B, PPP2R2A, TLE3, HSD17B4, CNDP2, DARS, DLST, ACSL3, FASN, MAOA, LDHA, PKM, RPN2, TARS, SHMT2, SLC25A6, ATP1A1, EEF2, EEF1G, EIF2S3, EIF3E, PABPC1, RPS3, RPS6, RPL24, RPL3, RPS16, RPS8, RPS20, RPS9, RPL4, RPS26, NCL, HNRNPF, HNRNPU, HNRNPH1, DDX1, DDX5, UPF1, EWSR1, CDH1, ANXA5, CLNS1A, IGBP1, SPAG9, MLH1, ACOT7, DDX39B, GSR, DPP3, EIF4H, FTO, KYNU, MVD, NAMPT, PEPD, PGD, BCL2L11, HSPA4, CUL2, TAF9, SGK1, SUZ12, EED, NDRG2, DHX15, G6PD, GART, HIP1R, CCDC22, CLIC4, NAA50, RTCB, SH2D4A, THUMPD1, TIMM13, TSG101, USP14, XPO1, NIF3L1, NTMT1, TARDBP, UFM1, TMEM17, ERBB3, FXYD1, PDE4DIP, S1PR2, FAM60A, CDK15, TRIM25CLCN3CLCN3, 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 NDRG1_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

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RelatedDiseases for NDRG1_CLCN3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneNDRG1C0027627Neoplasm Metastasis2CTD_human
HgeneNDRG1C0004114Astrocytoma1CTD_human
HgeneNDRG1C0007131Non-Small Cell Lung Carcinoma1CTD_human
HgeneNDRG1C0007134Renal Cell Carcinoma1CTD_human
HgeneNDRG1C0017636Glioblastoma1CTD_human
HgeneNDRG1C0022665Kidney Neoplasm1CTD_human
HgeneNDRG1C0023893Liver Cirrhosis, Experimental1CTD_human
HgeneNDRG1C0023903Liver neoplasms1CTD_human
HgeneNDRG1C0025202melanoma1CTD_human
HgeneNDRG1C0026640Mouth Neoplasms1CTD_human
HgeneNDRG1C0029295Oropharyngeal Neoplasms1CTD_human
HgeneNDRG1C0033578Prostatic Neoplasms1CTD_human
HgeneNDRG1C0149925Small cell carcinoma of lung1CTD_human
HgeneNDRG1C0206658Smooth Muscle Tumor1CTD_human
HgeneNDRG1C0206734Hemangioblastoma1CTD_human
HgeneNDRG1C0887833Carcinoma, Pancreatic Ductal1CTD_human
HgeneNDRG1C1168401Squamous cell carcinoma of the head and neck1CTD_human
HgeneNDRG1C1458155Mammary Neoplasms1CTD_human
TgeneCLCN3C0017638Glioma1CTD_human
TgeneCLCN3C0038356Stomach Neoplasms1CTD_human
TgeneCLCN3C2931822Nasopharyngeal carcinoma1CTD_human