	FusionGeneSummary
	FusionProtFeature
	FusionGeneSequence
	FusionGenePPI
	RelatedDrugs
	RelatedDiseases

Fusion gene ID: 31602

FusionGeneSummary for RNF4_GATAD2A

Fusion gene summary

Fusion gene information	Fusion gene name: RNF4_GATAD2A
	Fusion gene ID: 31602
		Hgene	Tgene
	Gene symbol	RNF4	GATAD2A
	Gene ID	6047	54815
	Gene name	ring finger protein 4	GATA zinc finger domain containing 2A
	Synonyms	RES4-26\|SLX5\|SNURF	p66alpha
	Cytomap	4p16.3	19p13.11
	Type of gene	protein-coding	protein-coding
	Description	E3 ubiquitin-protein ligase RNF4E3 ubiquitin ligase RNF4RING-type E3 ubiquitin transferase RNF4small nuclear RING finger protein	transcriptional repressor p66-alphaGATA zinc finger domain-containing protein 2A
	Modification date	20180523	20180523
	UniProtAcc	P78317	Q86YP4
	Ensembl transtripts involved in fusion gene	ENST00000314289, ENST00000541204, ENST00000509258, ENST00000511843, ENST00000511859, ENST00000506706, ENST00000511600,	ENST00000252577, ENST00000360315, ENST00000537887, ENST00000404158, ENST00000358713, ENST00000429563, ENST00000473184,
Fusion gene scores	* DoF score	4 X 4 X 3=48	8 X 7 X 7=392
	# samples	4	9
	** MAII score	log2(4/48*10)=-0.263034405833794 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(9/392*10)=-2.12285674778553 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: RNF4 [Title/Abstract] AND GATAD2A [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)

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	RNF4	GO:0045944	positive regulation of transcription by RNA polymerase II	12885770
Hgene	RNF4	GO:0046685	response to arsenic-containing substance	20943951
Tgene	GATAD2A	GO:0045892	negative regulation of transcription, DNA-templated	12183469

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 type	Source	Cancer type	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
TCGA	LD	BLCA	TCGA-GC-A3RC-01A	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+

* LD: Li Ding group's fusion gene list
RV: Roel Verhaak group's fusion gene list
ChiTaRs fusion database

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
5CDS-intron	ENST00000314289	ENST00000252577	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000314289	ENST00000360315	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000314289	ENST00000537887	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-5UTR	ENST00000314289	ENST00000404158	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000314289	ENST00000358713	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000314289	ENST00000429563	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000314289	ENST00000473184	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000541204	ENST00000252577	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000541204	ENST00000360315	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000541204	ENST00000537887	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-5UTR	ENST00000541204	ENST00000404158	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000541204	ENST00000358713	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000541204	ENST00000429563	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000541204	ENST00000473184	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000509258	ENST00000252577	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000509258	ENST00000360315	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000509258	ENST00000537887	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-5UTR	ENST00000509258	ENST00000404158	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000509258	ENST00000358713	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000509258	ENST00000429563	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000509258	ENST00000473184	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000511843	ENST00000252577	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000511843	ENST00000360315	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000511843	ENST00000537887	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-5UTR	ENST00000511843	ENST00000404158	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000511843	ENST00000358713	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000511843	ENST00000429563	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
intron-intron	ENST00000511843	ENST00000473184	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
3UTR-intron	ENST00000511859	ENST00000252577	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
3UTR-intron	ENST00000511859	ENST00000360315	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
3UTR-intron	ENST00000511859	ENST00000537887	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
3UTR-5UTR	ENST00000511859	ENST00000404158	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
3UTR-intron	ENST00000511859	ENST00000358713	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
3UTR-intron	ENST00000511859	ENST00000429563	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
3UTR-intron	ENST00000511859	ENST00000473184	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000506706	ENST00000252577	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000506706	ENST00000360315	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000506706	ENST00000537887	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-5UTR	ENST00000506706	ENST00000404158	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000506706	ENST00000358713	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000506706	ENST00000429563	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000506706	ENST00000473184	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000511600	ENST00000252577	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000511600	ENST00000360315	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000511600	ENST00000537887	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-5UTR	ENST00000511600	ENST00000404158	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000511600	ENST00000358713	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000511600	ENST00000429563	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+
5CDS-intron	ENST00000511600	ENST00000473184	RNF4	chr4	2515524	+	GATAD2A	chr19	19546940	+

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FusionProtFeatures for RNF4_GATAD2A

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

Hgene	Tgene
RNF4 P78317	GATAD2A Q86YP4
E3 ubiquitin-protein ligase which binds polysumoylatedchains covalently attached to proteins and mediates 'Lys-6'-,'Lys-11'-, 'Lys-48'- and 'Lys-63'-linked polyubiquitination ofthose substrates and their subsequent targeting to the proteasomefor degradation. Regulates the degradation of several proteinsincluding PML and the transcriptional activator PEA3. Involved inchromosome alignment and spindle assembly, it regulates thekinetochore CENPH-CENPI-CENPK complex by targeting polysumoylatedCENPI to proteasomal degradation. Regulates the cellular responsesto hypoxia and heat shock through degradation of respectivelyEPAS1 and PARP1. Alternatively, it may also bind DNA/nucleosomesand have a more direct role in the regulation of transcription forinstance enhancing basal transcription and steroid receptor-mediated transcriptional activation. {ECO:0000269\|PubMed:12885770,ECO:0000269\|PubMed:18408734, ECO:0000269\|PubMed:19307308,ECO:0000269\|PubMed:20026589, ECO:0000269\|PubMed:20212317,ECO:0000269\|PubMed:20943951}.	Transcriptional repressor. Enhances MBD2-mediatedrepression. Efficient repression requires the presence of GATAD2B.{ECO:0000269\|PubMed:12183469, ECO:0000269\|PubMed:16415179}.

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

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FusionGeneSequence for RNF4_GATAD2A

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 RNF4_GATAD2A

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
RNF4	AR, PATZ1, TCF20, ESR1, PGR, TBP, SP1, UBE2D1, UBE2D2, UBE2D3, UBE2D4, UBE2L6, UBE2T, UBE2W, UEVLD, UBE2E1, UBE2E3, UBE2H, UBE2I, UBE2K, UBE2E2, IKBKG, RNF4, SUMO2, TRIM28, PML, SART1, UHRF1, MDC1, RPA1, SUMO1, TDG, APEX1, TRPS1, SKIL, NFE2L2, TRAIP, HNF4A, SRPK2, UBC, HIST2H3C, ATXN1, TARDBP, MECP2, NCOA1, TERF2, FANCA, UBE2N, MAP3K7, TAB2, TAB3, USP11, MYC, CTNNB1, TRIM25, MIS18BP1, UBE2A, UBE2B	GATAD2A	MBD2, MBD3, HDAC1, RBBP4, RBBP7, HIST2H2AC, HIST2H2BE, HIST1H3A, HIST1H4A, CHD4, SOX2, CHD7, ELAVL1, MTA2, HDAC2, CHD3, MTA3, KRT40, OBSL1, PSME3, ZNF219, PHF20L1, FAM219A, MBD3L1, ZBTB46, CHD5, GATAD2B, MTA1, RUVBL1, KRAS, HIST1H3E, KPNA1, TCF20, CDK2AP1, HMG20A, ZMYND8, ZNF687, NABP2, RBPJ, NFATC2, ZNF592, APPBP2, CPNE5, IKZF1, DLD, TRIM25, ZNF827

- 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

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RelatedDrugs for RNF4_GATAD2A

Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)

Partner

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

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RelatedDiseases for RNF4_GATAD2A

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source

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Fusion gene ID: 31602

FusionGeneSummary for RNF4_GATAD2A

FusionProtFeatures for RNF4_GATAD2A

FusionGeneSequence for RNF4_GATAD2A

FusionGenePPI for RNF4_GATAD2A

RelatedDrugs for RNF4_GATAD2A

RelatedDiseases for RNF4_GATAD2A