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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:ARID4A-KIAA0586 (FusionGDB2 ID:6460)

Fusion Gene Summary for ARID4A-KIAA0586

check button Fusion gene summary
Fusion gene informationFusion gene name: ARID4A-KIAA0586
Fusion gene ID: 6460
HgeneTgene
Gene symbol

ARID4A

KIAA0586

Gene ID

5926

9786

Gene nameAT-rich interaction domain 4AKIAA0586
SynonymsRBBP-1|RBBP1|RBP-1|RBP1JBTS23|SRTD14|Talpid3
Cytomap

14q23.1

14q23.1

Type of geneprotein-codingprotein-coding
DescriptionAT-rich interactive domain-containing protein 4AARID domain-containing protein 4AAT rich interactive domain 4A (RBP1-like)retinoblastoma-binding protein 1protein TALPID3
Modification date2020032020200320
UniProtAcc

P29374

Q9BVV6

Ensembl transtripts involved in fusion geneENST00000348476, ENST00000355431, 
ENST00000395168, ENST00000431317, 
ENST00000553355, 		ENST00000538571, 
ENST00000261244, ENST00000354386, 
ENST00000423743, ENST00000556134, 
Fusion gene scores* DoF score8 X 8 X 5=3206 X 8 X 5=240
# samples 97
** MAII scorelog2(9/320*10)=-1.83007499855769
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(7/240*10)=-1.77760757866355
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ARID4A [Title/Abstract] AND KIAA0586 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointARID4A(58768408)-KIAA0586(59006789), # samples:2
ARID4A(58765418)-KIAA0586(59006789), # samples:2
KIAA0586(58927878)-ARID4A(58813128), # samples:1
KIAA0586(58927878)-ARID4A(58813129), # samples:1
Anticipated loss of major functional domain due to fusion event.ARID4A-KIAA0586 seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor due to the frame-shifted ORF.
ARID4A-KIAA0586 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
ARID4A-KIAA0586 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
* 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
HgeneARID4A

GO:0045892

negative regulation of transcription, DNA-templated

12724404


check buttonFusion gene breakpoints across ARID4A (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 KIAA0586 (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
ChimerDB4LUADTCGA-91-6836-01AARID4Achr14

58768408

+KIAA0586chr14

59006789

+
ChimerDB4OVTCGA-29-1703-01AARID4Achr14

58765418

+KIAA0586chr14

58979240

+
ChimerDB4OVTCGA-29-1703-01AARID4Achr14

58765418

+KIAA0586chr14

59006789

+
ChimerDB4OVTCGA-29-1703-01AARID4Achr14

58765418

+KIAA0586chr14

59014499

+


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Fusion Gene ORF analysis for ARID4A-KIAA0586

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-intronENST00000348476ENST00000538571ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
5CDS-intronENST00000355431ENST00000538571ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
5CDS-intronENST00000395168ENST00000538571ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
5CDS-intronENST00000431317ENST00000538571ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000348476ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000348476ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000348476ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3CDSENST00000348476ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000348476ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000348476ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3CDSENST00000348476ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000348476ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000348476ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3CDSENST00000348476ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000348476ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000348476ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3CDSENST00000355431ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000355431ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000355431ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3CDSENST00000355431ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000355431ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000355431ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3CDSENST00000355431ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000355431ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000355431ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3CDSENST00000355431ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000355431ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000355431ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3CDSENST00000395168ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000395168ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000395168ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3CDSENST00000395168ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000395168ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000395168ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3CDSENST00000395168ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000395168ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000395168ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3CDSENST00000395168ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3CDSENST00000395168ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-3CDSENST00000395168ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-3UTRENST00000348476ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3UTRENST00000355431ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-3UTRENST00000395168ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
5UTR-intronENST00000348476ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-intronENST00000348476ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-intronENST00000355431ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-intronENST00000355431ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
5UTR-intronENST00000395168ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
5UTR-intronENST00000395168ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
Frame-shiftENST00000348476ENST00000261244ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000348476ENST00000354386ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000348476ENST00000423743ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000348476ENST00000556134ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000355431ENST00000261244ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000355431ENST00000354386ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000355431ENST00000423743ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000355431ENST00000556134ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000395168ENST00000261244ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000395168ENST00000354386ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000395168ENST00000423743ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000395168ENST00000556134ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000431317ENST00000261244ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000431317ENST00000354386ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000431317ENST00000423743ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
Frame-shiftENST00000431317ENST00000556134ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
intron-3CDSENST00000431317ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
intron-3CDSENST00000431317ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
intron-3CDSENST00000431317ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
intron-3CDSENST00000431317ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
intron-3CDSENST00000431317ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
intron-3CDSENST00000431317ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
intron-3CDSENST00000431317ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
intron-3CDSENST00000431317ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
intron-3CDSENST00000431317ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
intron-3CDSENST00000431317ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
intron-3CDSENST00000431317ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
intron-3CDSENST00000431317ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
intron-3CDSENST00000553355ENST00000261244ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
intron-3CDSENST00000553355ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
intron-3CDSENST00000553355ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
intron-3CDSENST00000553355ENST00000261244ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
intron-3CDSENST00000553355ENST00000354386ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
intron-3CDSENST00000553355ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
intron-3CDSENST00000553355ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
intron-3CDSENST00000553355ENST00000354386ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
intron-3CDSENST00000553355ENST00000423743ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
intron-3CDSENST00000553355ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
intron-3CDSENST00000553355ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
intron-3CDSENST00000553355ENST00000423743ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
intron-3CDSENST00000553355ENST00000556134ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
intron-3CDSENST00000553355ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
intron-3CDSENST00000553355ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
intron-3CDSENST00000553355ENST00000556134ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
intron-3UTRENST00000431317ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
intron-3UTRENST00000553355ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

58979240

+
intron-intronENST00000431317ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
intron-intronENST00000431317ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

59014499

+
intron-intronENST00000553355ENST00000538571ARID4Achr14

58768408

+KIAA0586chr14

59006789

+
intron-intronENST00000553355ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

59006789

+
intron-intronENST00000553355ENST00000538571ARID4Achr14

58765418

+KIAA0586chr14

59014499

+

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 ARID4A-KIAA0586


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)
ARID4Achr1458765418+KIAA0586chr1458979239+0.817371550.18262848
ARID4Achr1458765418+KIAA0586chr1459014498+0.163155810.83684415
ARID4Achr1458765418+KIAA0586chr1459006788+0.0453600320.9546399
ARID4Achr1458768408+KIAA0586chr1459006788+9.87E-080.9999999
ARID4Achr1458765418+KIAA0586chr1458979239+0.817371550.18262848
ARID4Achr1458765418+KIAA0586chr1459014498+0.163155810.83684415
ARID4Achr1458765418+KIAA0586chr1459006788+0.0453600320.9546399
ARID4Achr1458768408+KIAA0586chr1459006788+9.87E-080.9999999

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.
genomic feature of top 1%

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Fusion Protein Features for ARID4A-KIAA0586


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/:58768408/:59006789)
- 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
ARID4A

P29374

KIAA0586

Q9BVV6

FUNCTION: DNA-binding protein which modulates activity of several transcription factors including RB1 (retinoblastoma-associated protein) and AR (androgen receptor) (By similarity). May function as part of an mSin3A repressor complex (PubMed:14581478). Has no intrinsic transcriptional activity (By similarity). Plays a role in the regulation of epigenetic modifications at the PWS/AS imprinting center near the SNRPN promoter, where it might function as part of a complex with RB1 and ARID4B (By similarity). Involved in spermatogenesis, together with ARID4B, where it acts as a transcriptional coactivator for AR and enhances expression of genes required for sperm maturation. Regulates expression of the tight junction protein CLDN3 in the testis, which is important for integrity of the blood-testis barrier (By similarity). Plays a role in myeloid homeostasis where it regulates the histone methylation state of bone marrow cells and expression of various genes involved in hematopoiesis. May function as a leukemia suppressor (By similarity). {ECO:0000250|UniProtKB:F8VPQ2, ECO:0000269|PubMed:14581478}.FUNCTION: Required for ciliogenesis and sonic hedgehog/SHH signaling. Required for the centrosomal recruitment of RAB8A and for the targeting of centriole satellite proteins to centrosomes such as of PCM1. May play a role in early ciliogenesis in the disappearance of centriolar satellites that preceeds ciliary vesicle formation (PubMed:24421332). Involved in regulation of cell intracellular organization. Involved in regulation of cell polarity (By similarity). Required for asymmetrical localization of CEP120 to daughter centrioles (By similarity). {ECO:0000250|UniProtKB:E9PV87, ECO:0000250|UniProtKB:Q1G7G9, ECO:0000269|PubMed:24421332}.

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 ARID4A-KIAA0586


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 ARID4A-KIAA0586


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 ARID4A-KIAA0586


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 ARID4A-KIAA0586


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