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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: 24059

FusionGeneSummary for NET1_USP6NL

check button Fusion gene summary
Fusion gene informationFusion gene name: NET1_USP6NL
Fusion gene ID: 24059
HgeneTgene
Gene symbol

NET1

USP6NL

Gene ID

55119

9712

Gene namepre-mRNA processing factor 38BUSP6 N-terminal like
SynonymsNET1RNTRE|TRE2NL|USP6NL-IT1
Cytomap

1p13.3

10p14

Type of geneprotein-codingprotein-coding
Descriptionpre-mRNA-splicing factor 38BPRP38 pre-mRNA processing factor 38 domain containing Bsarcoma antigen NY-SAR-27USP6 N-terminal-like proteinrelated to the N-terminus of tre
Modification date2018052220180523
UniProtAcc

Q7Z628

Q92738

Ensembl transtripts involved in fusion geneENST00000355029, ENST00000542715, 
ENST00000380359, ENST00000484741, 
ENST00000609104, ENST00000277575, 
ENST00000379237, ENST00000443016, 
ENST00000609853, 
Fusion gene scores* DoF score5 X 3 X 5=752 X 1 X 2=4
# samples 52
** MAII scorelog2(5/75*10)=-0.584962500721156
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(2/4*10)=2.32192809488736
Context

PubMed: NET1 [Title/Abstract] AND USP6NL [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
TgeneUSP6NL

GO:0043547

positive regulation of GTPase activity

17562788


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
TCGALDBLCATCGA-XF-A8HD-01ANET1chr10

5471192

+USP6NLchr10

11569566

-
* 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
Frame-shiftENST00000355029ENST00000609104NET1chr10

5471192

+USP6NLchr10

11569566

-
Frame-shiftENST00000355029ENST00000277575NET1chr10

5471192

+USP6NLchr10

11569566

-
Frame-shiftENST00000355029ENST00000379237NET1chr10

5471192

+USP6NLchr10

11569566

-
5CDS-intronENST00000355029ENST00000443016NET1chr10

5471192

+USP6NLchr10

11569566

-
5CDS-intronENST00000355029ENST00000609853NET1chr10

5471192

+USP6NLchr10

11569566

-
5UTR-3CDSENST00000542715ENST00000609104NET1chr10

5471192

+USP6NLchr10

11569566

-
5UTR-3CDSENST00000542715ENST00000277575NET1chr10

5471192

+USP6NLchr10

11569566

-
5UTR-3CDSENST00000542715ENST00000379237NET1chr10

5471192

+USP6NLchr10

11569566

-
5UTR-intronENST00000542715ENST00000443016NET1chr10

5471192

+USP6NLchr10

11569566

-
5UTR-intronENST00000542715ENST00000609853NET1chr10

5471192

+USP6NLchr10

11569566

-
intron-3CDSENST00000380359ENST00000609104NET1chr10

5471192

+USP6NLchr10

11569566

-
intron-3CDSENST00000380359ENST00000277575NET1chr10

5471192

+USP6NLchr10

11569566

-
intron-3CDSENST00000380359ENST00000379237NET1chr10

5471192

+USP6NLchr10

11569566

-
intron-intronENST00000380359ENST00000443016NET1chr10

5471192

+USP6NLchr10

11569566

-
intron-intronENST00000380359ENST00000609853NET1chr10

5471192

+USP6NLchr10

11569566

-
intron-3CDSENST00000484741ENST00000609104NET1chr10

5471192

+USP6NLchr10

11569566

-
intron-3CDSENST00000484741ENST00000277575NET1chr10

5471192

+USP6NLchr10

11569566

-
intron-3CDSENST00000484741ENST00000379237NET1chr10

5471192

+USP6NLchr10

11569566

-
intron-intronENST00000484741ENST00000443016NET1chr10

5471192

+USP6NLchr10

11569566

-
intron-intronENST00000484741ENST00000609853NET1chr10

5471192

+USP6NLchr10

11569566

-

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FusionProtFeatures for NET1_USP6NL


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
NET1

Q7Z628

USP6NL

Q92738

Acts as guanine nucleotide exchange factor (GEF) forRhoA GTPase. May be involved in activation of the SAPK/JNK pathwayStimulates genotoxic stress-induced RHOB activity in breast cancercells leading to their cell death. {ECO:0000269|PubMed:21373644}. Acts as a GTPase-activating protein for RAB5A and RAB43.Involved in receptor trafficking. In complex with EPS8 inhibitsinternalization of EGFR. Involved in retrograde transport from theendocytic pathway to the Golgi apparatus. Involved in thetransport of Shiga toxin from early and recycling endosomes to thetrans-Golgi network. Required for structural integrity of theGolgi complex. {ECO:0000269|PubMed:11099046,ECO:0000269|PubMed:17562788, ECO:0000269|PubMed:17684057}.

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 NET1_USP6NL


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 NET1_USP6NL


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
NET1RHOA, MAGI1, USP11, PRKAB2, DLG1, ELAVL1, WDR83, IL4R, WDYHV1, DCAF7USP6NLACTN4, GRB2, APP, WWOX, SHMT2, NXF1, TMEM17, CCNA2, COMT, ANAPC15, UBE2S, CDH1


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 NET1_USP6NL


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 NET1_USP6NL


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneUSP6NLC0025202melanoma1CTD_human