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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:WHSC1L1-DLC1 (FusionGDB2 ID:99201)

Fusion Gene Summary for WHSC1L1-DLC1

check button Fusion gene summary
Fusion gene informationFusion gene name: WHSC1L1-DLC1
Fusion gene ID: 99201
HgeneTgene
Gene symbol

WHSC1L1

DLC1

Gene ID

54904

10395

Gene namenuclear receptor binding SET domain protein 3DLC1 Rho GTPase activating protein
SynonymsKMT3F|KMT3G|WHISTLE|WHSC1L1|pp14328ARHGAP7|HP|STARD12|p122-RhoGAP
Cytomap

8p11.23

8p22

Type of geneprotein-codingprotein-coding
Descriptionhistone-lysine N-methyltransferase NSD3WHSC1-like 1 isoform 9 with methyltransferase activity to lysineWolf-Hirschhorn syndrome candidate 1-like 1nuclear SET domain-containing protein 3protein whistlerho GTPase-activating protein 7Rho-GTPase-activating protein 7START domain-containing protein 12StAR-related lipid transfer (START) domain containing 12deleted in liver cancer 1 proteindeleted in liver cancer 1 variant 2deleted in liver cancer varia
Modification date2020031320200313
UniProtAcc.

Q96QB1

Ensembl transtripts involved in fusion geneENST00000316985, ENST00000317025, 
ENST00000433384, ENST00000527502, 
ENST00000525081, 		ENST00000276297, 
ENST00000316609, ENST00000358919, 
ENST00000510318, ENST00000511869, 
ENST00000512044, ENST00000520226, 
Fusion gene scores* DoF score31 X 27 X 13=1088117 X 14 X 5=1190
# samples 4619
** MAII scorelog2(46/10881*10)=-4.56403347974706
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(19/1190*10)=-2.64689024986436
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: WHSC1L1 [Title/Abstract] AND DLC1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointWHSC1L1(38239316)-DLC1(13259128), # samples:1
WHSC1L1(38239317)-DLC1(13259128), # samples:1
Anticipated loss of major functional domain due to fusion event.
* 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
HgeneWHSC1L1

GO:0016571

histone methylation

16682010

TgeneDLC1

GO:0006915

apoptotic process

17292327

TgeneDLC1

GO:0006919

activation of cysteine-type endopeptidase activity involved in apoptotic process

17888903

TgeneDLC1

GO:0008285

negative regulation of cell proliferation

12545165|17932950

TgeneDLC1

GO:0030336

negative regulation of cell migration

17932950|19158340

TgeneDLC1

GO:0035307

positive regulation of protein dephosphorylation

17292327

TgeneDLC1

GO:0051497

negative regulation of stress fiber assembly

17932950

TgeneDLC1

GO:0051895

negative regulation of focal adhesion assembly

19158340

TgeneDLC1

GO:1900119

positive regulation of execution phase of apoptosis

17888903


check buttonFusion gene breakpoints across WHSC1L1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across DLC1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4STADTCGA-BR-8289-01AWHSC1L1chr8

38239317

-DLC1chr8

13259128

-
ChimerDB4STADTCGA-BR-8289WHSC1L1chr8

38239316

-DLC1chr8

13259128

-


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Fusion Gene ORF analysis for WHSC1L1-DLC1

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
5UTR-3CDSENST00000316985ENST00000276297WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-3CDSENST00000316985ENST00000276297WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-3CDSENST00000317025ENST00000276297WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-3CDSENST00000317025ENST00000276297WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-3CDSENST00000433384ENST00000276297WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-3CDSENST00000433384ENST00000276297WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-3CDSENST00000527502ENST00000276297WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-3CDSENST00000527502ENST00000276297WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000316609WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000316609WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000358919WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000358919WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000510318WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000510318WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000511869WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000511869WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000512044WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000512044WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000520226WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000316985ENST00000520226WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000316609WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000316609WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000358919WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000358919WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000510318WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000510318WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000511869WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000511869WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000512044WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000512044WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000520226WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000317025ENST00000520226WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000316609WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000316609WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000358919WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000358919WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000510318WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000510318WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000511869WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000511869WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000512044WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000512044WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000520226WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000433384ENST00000520226WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000316609WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000316609WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000358919WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000358919WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000510318WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000510318WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000511869WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000511869WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000512044WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000512044WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000520226WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
5UTR-intronENST00000527502ENST00000520226WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
intron-3CDSENST00000525081ENST00000276297WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
intron-3CDSENST00000525081ENST00000276297WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000316609WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000316609WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000358919WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000358919WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000510318WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000510318WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000511869WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000511869WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000512044WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000512044WHSC1L1chr8

38239316

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000520226WHSC1L1chr8

38239317

-DLC1chr8

13259128

-
intron-intronENST00000525081ENST00000520226WHSC1L1chr8

38239316

-DLC1chr8

13259128

-

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

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Fusion Genomic Features for WHSC1L1-DLC1


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for WHSC1L1-DLC1


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:38239316/:13259128)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
.DLC1

Q96QB1

FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Functions as a GTPase-activating protein for the small GTPases RHOA, RHOB, RHOC and CDC42, terminating their downstream signaling. This induces morphological changes and detachment through cytoskeletal reorganization, playing a critical role in biological processes such as cell migration and proliferation. Also functions in vivo as an activator of the phospholipase PLCD1. Active DLC1 increases cell migration velocity but reduces directionality. {ECO:0000269|PubMed:18786931, ECO:0000269|PubMed:19170769, ECO:0000269|PubMed:19710422}.

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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Fusion Gene Sequence for WHSC1L1-DLC1


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for WHSC1L1-DLC1


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


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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Related Drugs for WHSC1L1-DLC1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for WHSC1L1-DLC1


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