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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:BRWD1-APOL1 (FusionGDB2 ID:10338)

Fusion Gene Summary for BRWD1-APOL1

check button Fusion gene summary
Fusion gene informationFusion gene name: BRWD1-APOL1
Fusion gene ID: 10338
HgeneTgene
Gene symbol

BRWD1

APOL1

Gene ID

54014

8542

Gene namebromodomain and WD repeat domain containing 1apolipoprotein L1
SynonymsC21orf107|DCAF19|N143|WDR9|WRD9APO-L|APOL|APOL-I|FSGS4
Cytomap

21q22.2

22q12.3

Type of geneprotein-codingprotein-coding
Descriptionbromodomain and WD repeat-containing protein 1WD repeat protein WDR9-form2WD repeat-containing protein 9transcriptional unit N143apolipoprotein L1apolipoprotein L 1apolipoprotein L1-B3
Modification date2020031320200329
UniProtAcc

Q9NSI6

O14791

Ensembl transtripts involved in fusion geneENST00000333229, ENST00000341322, 
ENST00000342449, ENST00000380800, 
ENST00000470108, 		ENST00000319136, 
ENST00000347595, ENST00000397278, 
ENST00000397279, ENST00000422706, 
ENST00000426053, ENST00000440669, 
Fusion gene scores* DoF score28 X 28 X 10=78402 X 2 X 2=8
# samples 322
** MAII scorelog2(32/7840*10)=-4.61470984411521
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(2/8*10)=1.32192809488736
Context

PubMed: BRWD1 [Title/Abstract] AND APOL1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointBRWD1(40558365)-APOL1(36661686), # samples:2
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
TgeneAPOL1

GO:0045087

innate immune response

17192540

TgeneAPOL1

GO:0051838

cytolysis by host of symbiont cells

12621437|17192540

TgeneAPOL1

GO:1902476

chloride transmembrane transport

16020735


check buttonFusion gene breakpoints across BRWD1 (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 APOL1 (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
ChiTaRS5.0N/ABF821257BRWD1chr21

40558365

-APOL1chr22

36661686

+
ChiTaRS5.0N/ABF900659BRWD1chr21

40558365

-APOL1chr22

36661686

+


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Fusion Gene ORF analysis for BRWD1-APOL1

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
intron-3CDSENST00000333229ENST00000319136BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000333229ENST00000347595BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000333229ENST00000397278BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000333229ENST00000397279BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000333229ENST00000422706BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000333229ENST00000426053BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000341322ENST00000319136BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000341322ENST00000347595BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000341322ENST00000397278BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000341322ENST00000397279BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000341322ENST00000422706BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000341322ENST00000426053BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000342449ENST00000319136BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000342449ENST00000347595BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000342449ENST00000397278BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000342449ENST00000397279BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000342449ENST00000422706BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000342449ENST00000426053BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000380800ENST00000319136BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000380800ENST00000347595BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000380800ENST00000397278BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000380800ENST00000397279BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000380800ENST00000422706BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000380800ENST00000426053BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000470108ENST00000319136BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000470108ENST00000347595BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000470108ENST00000397278BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000470108ENST00000397279BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000470108ENST00000422706BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-3CDSENST00000470108ENST00000426053BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-intronENST00000333229ENST00000440669BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-intronENST00000341322ENST00000440669BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-intronENST00000342449ENST00000440669BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-intronENST00000380800ENST00000440669BRWD1chr21

40558365

-APOL1chr22

36661686

+
intron-intronENST00000470108ENST00000440669BRWD1chr21

40558365

-APOL1chr22

36661686

+

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 BRWD1-APOL1


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 BRWD1-APOL1


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/:40558365/:36661686)
- 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
BRWD1

Q9NSI6

APOL1

O14791

FUNCTION: May be a transcriptional activator. May be involved in chromatin remodeling (By similarity). Plays a role in the regulation of cell morphology and cytoskeletal organization. Required in the control of cell shape. {ECO:0000250, ECO:0000269|PubMed:21834987}.FUNCTION: May play a role in lipid exchange and transport throughout the body. May participate in reverse cholesterol transport from peripheral cells to the liver.

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 BRWD1-APOL1


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 BRWD1-APOL1


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 BRWD1-APOL1


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 BRWD1-APOL1


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