Home

Download

Statistics

Examples

Help

Contact

	Fusion Gene Summary
	Fusion Gene ORF analysis
	Fusion Genomic Features
	Fusion Protein Features
	Fusion Gene Sequence
	Fusion Gene PPI analysis
	Related Drugs
	Related Diseases

Fusion gene:RCC1-DDX39B (FusionGDB2 ID:73173)

Fusion Gene Summary for RCC1-DDX39B

Fusion gene summary

Fusion gene information	Fusion gene name: RCC1-DDX39B
	Fusion gene ID: 73173
		Hgene	Tgene
	Gene symbol	RCC1	DDX39B
	Gene ID	1104	7919
	Gene name	regulator of chromosome condensation 1	DExD-box helicase 39B
	Synonyms	CHC1\|RCC1-I\|SNHG3-RCC1	BAT1\|D6S81E\|UAP56
	Cytomap	1p35.3	6p21.33
	Type of gene	protein-coding	protein-coding
	Description	regulator of chromosome condensationSNHG3-RCC1 readthroughcell cycle regulatory proteinguanine nucleotide-releasing protein	spliceosome RNA helicase DDX39B56 kDa U2AF65-associated proteinATP-dependent RNA helicase p47DEAD (Asp-Glu-Ala-Asp) box polypeptide 39BDEAD-box helicase 39BHLA-B-associated transcript 1 proteinnuclear RNA helicase (DEAD family)spliceosome RNA helic
	Modification date	20200313	20200313
	UniProtAcc	RCCD1	Q13838
	Ensembl transtripts involved in fusion gene	ENST00000373833, ENST00000398958, ENST00000373831, ENST00000373832, ENST00000429051,	ENST00000376177, ENST00000396172, ENST00000417556, ENST00000458640, ENST00000383508, ENST00000400293, ENST00000400295, ENST00000400296, ENST00000412106, ENST00000412330, ENST00000413678, ENST00000414440, ENST00000415382, ENST00000415689, ENST00000416863, ENST00000430703, ENST00000430784, ENST00000431360, ENST00000438578, ENST00000441425, ENST00000445218, ENST00000446341, ENST00000448296, ENST00000449074, ENST00000450987, ENST00000453105, ENST00000453138, ENST00000453488, ENST00000456476, ENST00000456666, ENST00000462421, ENST00000463430, ENST00000468089, ENST00000470514, ENST00000483957, ENST00000489325, ENST00000495391, ENST00000546633, ENST00000546637, ENST00000547039, ENST00000547489, ENST00000548331, ENST00000548340, ENST00000548614, ENST00000549374, ENST00000550217, ENST00000550435, ENST00000551031, ENST00000552288, ENST00000552820,
Fusion gene scores	* DoF score	139 X 16 X 21=46704	10 X 4 X 6=240
	# samples	136	11
	** MAII score	log2(136/46704*10)=-5.10186755936457 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(11/240*10)=-1.12553088208386 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: RCC1 [Title/Abstract] AND DDX39B [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	RCC1(28834672)-DDX39B(31503262), # 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)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Hgene	RCC1	GO:0007052	mitotic spindle organization	15014043
Hgene	RCC1	GO:0007088	regulation of mitotic nuclear division	15014043
Tgene	DDX39B	GO:0000245	spliceosomal complex assembly	18593880
Tgene	DDX39B	GO:0006406	mRNA export from nucleus	17190602
Tgene	DDX39B	GO:0008380	RNA splicing	18593880
Tgene	DDX39B	GO:0010501	RNA secondary structure unwinding	18593880
Tgene	DDX39B	GO:0046784	viral mRNA export from host cell nucleus	18974867

Fusion gene breakpoints across RCC1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion gene breakpoints across DDX39B (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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.

Source	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChimerDB4	OV	TCGA-24-0968	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-

Top

Fusion Gene ORF analysis for RCC1-DDX39B

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.

ORF	Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
5UTR-3CDS	ENST00000373833	ENST00000376177	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-3CDS	ENST00000373833	ENST00000396172	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-3CDS	ENST00000373833	ENST00000417556	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-3CDS	ENST00000373833	ENST00000458640	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-3CDS	ENST00000398958	ENST00000376177	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-3CDS	ENST00000398958	ENST00000396172	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-3CDS	ENST00000398958	ENST00000417556	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-3CDS	ENST00000398958	ENST00000458640	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000383508	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000400293	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000400295	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000400296	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000412106	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000412330	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000413678	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000414440	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000415382	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000415689	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000416863	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000430703	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000430784	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000431360	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000438578	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000441425	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000445218	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000446341	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000448296	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000449074	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000450987	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000453105	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000453138	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000453488	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000456476	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000456666	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000462421	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000463430	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000468089	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000470514	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000483957	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000489325	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000495391	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000546633	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000546637	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000547039	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000547489	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000548331	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000548340	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000548614	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000549374	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000550217	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000550435	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000551031	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000552288	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000373833	ENST00000552820	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000383508	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000400293	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000400295	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000400296	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000412106	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000412330	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000413678	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000414440	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000415382	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000415689	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000416863	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000430703	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000430784	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000431360	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000438578	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000441425	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000445218	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000446341	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000448296	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000449074	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000450987	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000453105	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000453138	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000453488	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000456476	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000456666	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000462421	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000463430	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000468089	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000470514	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000483957	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000489325	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000495391	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000546633	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000546637	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000547039	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000547489	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000548331	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000548340	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000548614	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000549374	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000550217	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000550435	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000551031	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000552288	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
5UTR-intron	ENST00000398958	ENST00000552820	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000373831	ENST00000376177	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000373831	ENST00000396172	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000373831	ENST00000417556	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000373831	ENST00000458640	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000373832	ENST00000376177	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000373832	ENST00000396172	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000373832	ENST00000417556	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000373832	ENST00000458640	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000429051	ENST00000376177	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000429051	ENST00000396172	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000429051	ENST00000417556	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-3CDS	ENST00000429051	ENST00000458640	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000383508	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000400293	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000400295	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000400296	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000412106	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000412330	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000413678	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000414440	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000415382	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000415689	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000416863	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000430703	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000430784	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000431360	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000438578	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000441425	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000445218	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000446341	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000448296	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000449074	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000450987	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000453105	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000453138	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000453488	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000456476	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000456666	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000462421	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000463430	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000468089	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000470514	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000483957	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000489325	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000495391	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000546633	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000546637	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000547039	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000547489	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000548331	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000548340	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000548614	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000549374	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000550217	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000550435	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000551031	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000552288	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373831	ENST00000552820	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000383508	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000400293	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000400295	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000400296	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000412106	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000412330	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000413678	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000414440	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000415382	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000415689	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000416863	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000430703	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000430784	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000431360	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000438578	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000441425	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000445218	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000446341	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000448296	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000449074	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000450987	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000453105	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000453138	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000453488	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000456476	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000456666	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000462421	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000463430	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000468089	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000470514	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000483957	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000489325	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000495391	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000546633	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000546637	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000547039	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000547489	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000548331	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000548340	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000548614	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000549374	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000550217	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000550435	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000551031	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000552288	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000373832	ENST00000552820	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000383508	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000400293	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000400295	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000400296	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000412106	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000412330	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000413678	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000414440	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000415382	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000415689	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000416863	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000430703	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000430784	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000431360	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000438578	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000441425	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000445218	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000446341	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000448296	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000449074	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000450987	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000453105	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000453138	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000453488	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000456476	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000456666	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000462421	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000463430	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000468089	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000470514	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000483957	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000489325	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000495391	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000546633	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000546637	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000547039	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000547489	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000548331	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000548340	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000548614	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000549374	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000550217	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000550435	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000551031	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000552288	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-
intron-intron	ENST00000429051	ENST00000552820	RCC1	chr1	28834672	+	DDX39B	chr6	31503262	-

ORFfinder result based on the fusion transcript sequence of in-frame fusion genes.

Henst

Tenst

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

Seq length
(transcript)

BP loci
(transcript)

Predicted start
(transcript)

Predicted stop
(transcript)

Seq length
(amino acids)

DeepORF 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.

Henst

Tenst

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

No-coding score

Coding score

Top

Fusion Genomic Features for RCC1-DDX39B

FusionAI 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.

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

1-p

p (fusion gene breakpoint)

Distribution 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.

Distribution 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.

Top

Fusion Protein Features for RCC1-DDX39B

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:28834672/:31503262)
- 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.

Main function of each fusion partner protein. (from UniProt)

Hgene	Tgene
RCC1 RCCD1	DDX39B Q13838
376	FUNCTION: Involved in nuclear export of spliced and unspliced mRNA. Assembling component of the TREX complex which is thought to couple mRNA transcription, processing and nuclear export, and specifically associates with spliced mRNA and not with unspliced pre-mRNA. TREX is recruited to spliced mRNAs by a transcription-independent mechanism, binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export to the cytoplasm via the TAP/NFX1 pathway. May undergo several rounds of ATP hydrolysis during assembly of TREX to drive subsequent loading of components such as ALYREF/THOC and CHTOP onto mRNA. Also associates with pre-mRNA independent of ALYREF/THOC4 and the THO complex. Involved in the nuclear export of intronless mRNA; the ATP-bound form is proposed to recruit export adapter ALYREF/THOC4 to intronless mRNA; its ATPase activity is cooperatively stimulated by RNA and ALYREF/THOC4 and ATP hydrolysis is thought to trigger the dissociation from RNA to allow the association of ALYREF/THOC4 and the NXF1-NXT1 heterodimer. Involved in transcription elongation and genome stability. {ECO:0000269\|PubMed:11675789, ECO:0000269\|PubMed:15585580, ECO:0000269\|PubMed:15833825, ECO:0000269\|PubMed:15998806, ECO:0000269\|PubMed:17190602, ECO:0000269\|PubMed:17562711, ECO:0000269\|PubMed:17984224, ECO:0000269\|PubMed:20844015, ECO:0000269\|PubMed:22144908, ECO:0000269\|PubMed:23222130, ECO:0000269\|PubMed:23299939, ECO:0000269\|PubMed:9242493}.; FUNCTION: Splice factor that is required for the first ATP-dependent step in spliceosome assembly and for the interaction of U2 snRNP with the branchpoint. Has both RNA-stimulated ATP binding/hydrolysis activity and ATP-dependent RNA unwinding activity. Even with the stimulation of RNA, the ATPase activity is weak. Can only hydrolyze ATP but not other NTPs. The RNA stimulation of ATPase activity does not have a strong preference for the sequence and length of the RNA. However, ssRNA stimulates the ATPase activity much more strongly than dsRNA. Can unwind 5' or 3' overhangs or blunt end RNA duplexes in vitro. The ATPase and helicase activities are not influenced by U2AF2; the effect of ALYREF/THOC4 is reported conflictingly with [PubMed:23299939] reporting a stimulatory effect. {ECO:0000269\|PubMed:23299939, ECO:0000269\|PubMed:9242493}.; FUNCTION: (Microbial infection) The TREX complex is essential for the export of Kaposi's sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production. {ECO:0000269\|PubMed:18974867}.

Retention 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.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

- In-frame and not-retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Top

Fusion Gene Sequence for RCC1-DDX39B

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.

Top

Fusion Gene PPI Analysis for RCC1-DDX39B

Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in
ChiPPI page.

Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)

Hgene

Hgene's interactors

Tgene

Tgene's interactors

- Retained PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

- Retained PPIs, but lost function due to frame-shift fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

Top

Related Drugs for RCC1-DDX39B

Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)

Partner

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

Top

Related Diseases for RCC1-DDX39B

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source