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	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:ARFIP1-NAA15 (FusionGDB2 ID:5898)

Fusion Gene Summary for ARFIP1-NAA15

Fusion gene summary

Fusion gene information	Fusion gene name: ARFIP1-NAA15
	Fusion gene ID: 5898
		Hgene	Tgene
	Gene symbol	ARFIP1	NAA15
	Gene ID	27236	80155
	Gene name	ADP ribosylation factor interacting protein 1	N-alpha-acetyltransferase 15, NatA auxiliary subunit
	Synonyms	HSU52521	Ga19\|MRD50\|NARG1\|NAT1P\|NATH\|TBDN\|TBDN100
	Cytomap	4q31.3	4q31.1
	Type of gene	protein-coding	protein-coding
	Description	arfaptin-1	N-alpha-acetyltransferase 15, NatA auxiliary subunitN-terminal acetyltransferaseNMDA receptor regulated 1NMDA receptor-regulated protein 1gastric cancer antigen Ga19protein tubedown-1transcriptional coactivator tubedown-100tubedown-1
	Modification date	20200313	20200313
	UniProtAcc	.	Q9BXJ9
	Ensembl transtripts involved in fusion gene	ENST00000353617, ENST00000356064, ENST00000405727, ENST00000429148, ENST00000451320, ENST00000511289,	ENST00000515576, ENST00000296543, ENST00000398947, ENST00000480277,
Fusion gene scores	* DoF score	11 X 7 X 7=539	14 X 11 X 8=1232
	# samples	11	15
	** MAII score	log2(11/539*10)=-2.29278174922785 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(15/1232*10)=-3.03796785019902 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context	PubMed: ARFIP1 [Title/Abstract] AND NAA15 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	ARFIP1(153701378)-NAA15(140314745), # 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	ARFIP1	GO:0006886	intracellular protein transport	12606037
Hgene	ARFIP1	GO:0050708	regulation of protein secretion	12606037
Tgene	NAA15	GO:0006474	N-terminal protein amino acid acetylation	15496142
Tgene	NAA15	GO:0045893	positive regulation of transcription, DNA-templated	12145306

Fusion gene breakpoints across ARFIP1 (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 NAA15 (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	STAD	TCGA-HU-A4GH-01A	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+

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Fusion Gene ORF analysis for ARFIP1-NAA15

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-5UTR	ENST00000353617	ENST00000515576	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
5UTR-5UTR	ENST00000356064	ENST00000515576	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
5UTR-intron	ENST00000353617	ENST00000296543	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
5UTR-intron	ENST00000353617	ENST00000398947	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
5UTR-intron	ENST00000353617	ENST00000480277	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
5UTR-intron	ENST00000356064	ENST00000296543	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
5UTR-intron	ENST00000356064	ENST00000398947	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
5UTR-intron	ENST00000356064	ENST00000480277	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-5UTR	ENST00000405727	ENST00000515576	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-5UTR	ENST00000429148	ENST00000515576	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-5UTR	ENST00000451320	ENST00000515576	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-5UTR	ENST00000511289	ENST00000515576	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000405727	ENST00000296543	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000405727	ENST00000398947	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000405727	ENST00000480277	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000429148	ENST00000296543	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000429148	ENST00000398947	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000429148	ENST00000480277	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000451320	ENST00000296543	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000451320	ENST00000398947	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000451320	ENST00000480277	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000511289	ENST00000296543	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000511289	ENST00000398947	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+
intron-intron	ENST00000511289	ENST00000480277	ARFIP1	chr4	153701378	+	NAA15	chr4	140314745	+

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

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Fusion Genomic Features for ARFIP1-NAA15

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)
ARFIP1	chr4	153701378	+	NAA15	chr4	140314744	+	0.011187906	0.9888121
ARFIP1	chr4	153701378	+	NAA15	chr4	140314744	+	0.011187906	0.9888121

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.

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Fusion Protein Features for ARFIP1-NAA15

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:153701378/:140314745)
- 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
.	NAA15 Q9BXJ9
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: Auxillary subunit of the N-terminal acetyltransferase A (NatA) complex which displays alpha (N-terminal) acetyltransferase activity. The NAT activity may be important for vascular, hematopoietic and neuronal growth and development. Required to control retinal neovascularization in adult ocular endothelial cells. In complex with XRCC6 and XRCC5 (Ku80), up-regulates transcription from the osteocalcin promoter. {ECO:0000269\|PubMed:11687548, ECO:0000269\|PubMed:12145306, ECO:0000269\|PubMed:15496142}.

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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Fusion Gene Sequence for ARFIP1-NAA15

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 ARFIP1-NAA15

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

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Related Drugs for ARFIP1-NAA15

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

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Related Diseases for ARFIP1-NAA15

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source