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	Fusion Gene Summary
	Fusion Gene Sample Information
	Fusion ORF Analysis
	Fusion Amino Acid Sequences
	Fusion Protein Functional Features
	Fusion Protein-Protein Interaction
	Related drugs with this fusion protein
	Related disease with this fusion protein

Fusion Protein:UNC5C-VTA1

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: UNC5C-VTA1
	FusionPDB ID: 96853
	FusionGDB2.0 ID: 96853
		Hgene	Tgene
	Gene symbol	UNC5C	VTA1
	Gene ID	8633	51534
	Gene name	unc-5 netrin receptor C	vesicle trafficking 1
	Synonyms	UNC5H3	C6orf55\|DRG-1\|DRG1\|HSPC228\|LIP5\|My012\|SBP1
	Cytomap	4q22.3	6q24.1-q24.2
	Type of gene	protein-coding	protein-coding
	Description	netrin receptor UNC5Cprotein unc-5 homolog 3protein unc-5 homolog Cunc-5 homolog 3unc-5 homolog Cunc5 (C.elegans homolog) c	vacuolar protein sorting-associated protein VTA1 homologLYST-interacting protein 5SKD1-binding protein 1Vps20-associated 1 homologdopamine-responsive gene 1 proteinhomolog of mouse SKD1-binding protein 1vesicle (multivesicular body) trafficking 1
	Modification date	20200313	20200313
	UniProtAcc	UNC5CL	.
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000453304, ENST00000504962, ENST00000506749,	ENST00000491881, ENST00000367621, ENST00000367630, ENST00000452973,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	7 X 7 X 3=147	10 X 12 X 6=720
	# samples	7	13
	** MAII score	log2(7/147*10)=-1.0703893278914 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(13/720*10)=-2.46948528330122 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: UNC5C [Title/Abstract] AND VTA1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	UNC5C(96256560)-VTA1(142519575), # samples:1
Anticipated loss of major functional domain due to fusion event.	UNC5C-VTA1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. UNC5C-VTA1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. UNC5C-VTA1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. UNC5C-VTA1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.

* 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	UNC5C	GO:1990791	dorsal root ganglion development	28483977

Fusion gene breakpoints across UNC5C (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 VTA1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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Fusion Gene Sample Information

Fusion gene information from FusionGDB2.0.

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	UCEC	TCGA-EY-A2OO	UNC5C	chr4	96256560	-	VTA1	chr6	142519575	+

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Fusion ORF Analysis

Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.

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)
ENST00000453304	UNC5C	chr4	96256560	-	ENST00000367630	VTA1	chr6	142519575	+	7145	695	22	1098	358
ENST00000453304	UNC5C	chr4	96256560	-	ENST00000367621	VTA1	chr6	142519575	+	1523	695	22	1098	358
ENST00000453304	UNC5C	chr4	96256560	-	ENST00000452973	VTA1	chr6	142519575	+	1626	695	22	1017	331
ENST00000506749	UNC5C	chr4	96256560	-	ENST00000367630	VTA1	chr6	142519575	+	7145	695	22	1098	358
ENST00000506749	UNC5C	chr4	96256560	-	ENST00000367621	VTA1	chr6	142519575	+	1523	695	22	1098	358
ENST00000506749	UNC5C	chr4	96256560	-	ENST00000452973	VTA1	chr6	142519575	+	1626	695	22	1017	331
ENST00000504962	UNC5C	chr4	96256560	-	ENST00000367630	VTA1	chr6	142519575	+	7139	689	16	1092	358
ENST00000504962	UNC5C	chr4	96256560	-	ENST00000367621	VTA1	chr6	142519575	+	1517	689	16	1092	358
ENST00000504962	UNC5C	chr4	96256560	-	ENST00000452973	VTA1	chr6	142519575	+	1620	689	16	1011	331

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
ENST00000453304	ENST00000367630	UNC5C	chr4	96256560	-	VTA1	chr6	142519575	+	0.001138668	0.9988613
ENST00000453304	ENST00000367621	UNC5C	chr4	96256560	-	VTA1	chr6	142519575	+	0.003486866	0.9965132
ENST00000453304	ENST00000452973	UNC5C	chr4	96256560	-	VTA1	chr6	142519575	+	0.00303184	0.9969682
ENST00000506749	ENST00000367630	UNC5C	chr4	96256560	-	VTA1	chr6	142519575	+	0.001138668	0.9988613
ENST00000506749	ENST00000367621	UNC5C	chr4	96256560	-	VTA1	chr6	142519575	+	0.003486866	0.9965132
ENST00000506749	ENST00000452973	UNC5C	chr4	96256560	-	VTA1	chr6	142519575	+	0.00303184	0.9969682
ENST00000504962	ENST00000367630	UNC5C	chr4	96256560	-	VTA1	chr6	142519575	+	0.001135772	0.9988643
ENST00000504962	ENST00000367621	UNC5C	chr4	96256560	-	VTA1	chr6	142519575	+	0.003488478	0.9965115
ENST00000504962	ENST00000452973	UNC5C	chr4	96256560	-	VTA1	chr6	142519575	+	0.003270034	0.99672997

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Fusion Amino Acid Sequences

For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.

>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>96853_96853_1_UNC5C-VTA1_UNC5C_chr4_96256560_ENST00000453304_VTA1_chr6_142519575_ENST00000367621_length(amino acids)=358AA_BP=224
MRLLLLLGGAAEVAALRLPGLPKWGQSSRSRETSVRRHWERGTFKLLLGVSSPPPFGPCLWRKWSVALGCRYFFGLLRGARIQLLPSGAF
SCLRVSLSPSPPPGTPLSTMRKGLRATAARCGLGLGYLLQMLVLPALALLSASGTGSAAQDDDFFHELPETFPSDPPEPLPHFLIEPEEA
YIVKNKPVNLYCKASPATQIYFKCNSEWVHQKDHIVDERVDETSDIEENEDAGAASLPTQPTQPSSSSTYDPSNMPSGNYTGIQIPPGAH

--------------------------------------------------------------

>96853_96853_2_UNC5C-VTA1_UNC5C_chr4_96256560_ENST00000453304_VTA1_chr6_142519575_ENST00000367630_length(amino acids)=358AA_BP=224
MRLLLLLGGAAEVAALRLPGLPKWGQSSRSRETSVRRHWERGTFKLLLGVSSPPPFGPCLWRKWSVALGCRYFFGLLRGARIQLLPSGAF
SCLRVSLSPSPPPGTPLSTMRKGLRATAARCGLGLGYLLQMLVLPALALLSASGTGSAAQDDDFFHELPETFPSDPPEPLPHFLIEPEEA
YIVKNKPVNLYCKASPATQIYFKCNSEWVHQKDHIVDERVDETSDIEENEDAGAASLPTQPTQPSSSSTYDPSNMPSGNYTGIQIPPGAH

--------------------------------------------------------------

>96853_96853_3_UNC5C-VTA1_UNC5C_chr4_96256560_ENST00000453304_VTA1_chr6_142519575_ENST00000452973_length(amino acids)=331AA_BP=224
MRLLLLLGGAAEVAALRLPGLPKWGQSSRSRETSVRRHWERGTFKLLLGVSSPPPFGPCLWRKWSVALGCRYFFGLLRGARIQLLPSGAF
SCLRVSLSPSPPPGTPLSTMRKGLRATAARCGLGLGYLLQMLVLPALALLSASGTGSAAQDDDFFHELPETFPSDPPEPLPHFLIEPEEA
YIVKNKPVNLYCKASPATQIYFKCNSEWVHQKDHIVDERVDETSDIEENEDAGAASLPTQPTQPSSSSTYDPSNMPSGNYTGIQIPPGAH

--------------------------------------------------------------

>96853_96853_4_UNC5C-VTA1_UNC5C_chr4_96256560_ENST00000504962_VTA1_chr6_142519575_ENST00000367621_length(amino acids)=358AA_BP=224
MRLLLLLGGAAEVAALRLPGLPKWGQSSRSRETSVRRHWERGTFKLLLGVSSPPPFGPCLWRKWSVALGCRYFFGLLRGARIQLLPSGAF
SCLRVSLSPSPPPGTPLSTMRKGLRATAARCGLGLGYLLQMLVLPALALLSASGTGSAAQDDDFFHELPETFPSDPPEPLPHFLIEPEEA
YIVKNKPVNLYCKASPATQIYFKCNSEWVHQKDHIVDERVDETSDIEENEDAGAASLPTQPTQPSSSSTYDPSNMPSGNYTGIQIPPGAH

--------------------------------------------------------------

>96853_96853_5_UNC5C-VTA1_UNC5C_chr4_96256560_ENST00000504962_VTA1_chr6_142519575_ENST00000367630_length(amino acids)=358AA_BP=224
MRLLLLLGGAAEVAALRLPGLPKWGQSSRSRETSVRRHWERGTFKLLLGVSSPPPFGPCLWRKWSVALGCRYFFGLLRGARIQLLPSGAF
SCLRVSLSPSPPPGTPLSTMRKGLRATAARCGLGLGYLLQMLVLPALALLSASGTGSAAQDDDFFHELPETFPSDPPEPLPHFLIEPEEA
YIVKNKPVNLYCKASPATQIYFKCNSEWVHQKDHIVDERVDETSDIEENEDAGAASLPTQPTQPSSSSTYDPSNMPSGNYTGIQIPPGAH

--------------------------------------------------------------

>96853_96853_6_UNC5C-VTA1_UNC5C_chr4_96256560_ENST00000504962_VTA1_chr6_142519575_ENST00000452973_length(amino acids)=331AA_BP=224
MRLLLLLGGAAEVAALRLPGLPKWGQSSRSRETSVRRHWERGTFKLLLGVSSPPPFGPCLWRKWSVALGCRYFFGLLRGARIQLLPSGAF
SCLRVSLSPSPPPGTPLSTMRKGLRATAARCGLGLGYLLQMLVLPALALLSASGTGSAAQDDDFFHELPETFPSDPPEPLPHFLIEPEEA
YIVKNKPVNLYCKASPATQIYFKCNSEWVHQKDHIVDERVDETSDIEENEDAGAASLPTQPTQPSSSSTYDPSNMPSGNYTGIQIPPGAH

--------------------------------------------------------------

>96853_96853_7_UNC5C-VTA1_UNC5C_chr4_96256560_ENST00000506749_VTA1_chr6_142519575_ENST00000367621_length(amino acids)=358AA_BP=224
MRLLLLLGGAAEVAALRLPGLPKWGQSSRSRETSVRRHWERGTFKLLLGVSSPPPFGPCLWRKWSVALGCRYFFGLLRGARIQLLPSGAF
SCLRVSLSPSPPPGTPLSTMRKGLRATAARCGLGLGYLLQMLVLPALALLSASGTGSAAQDDDFFHELPETFPSDPPEPLPHFLIEPEEA
YIVKNKPVNLYCKASPATQIYFKCNSEWVHQKDHIVDERVDETSDIEENEDAGAASLPTQPTQPSSSSTYDPSNMPSGNYTGIQIPPGAH

--------------------------------------------------------------

>96853_96853_8_UNC5C-VTA1_UNC5C_chr4_96256560_ENST00000506749_VTA1_chr6_142519575_ENST00000367630_length(amino acids)=358AA_BP=224
MRLLLLLGGAAEVAALRLPGLPKWGQSSRSRETSVRRHWERGTFKLLLGVSSPPPFGPCLWRKWSVALGCRYFFGLLRGARIQLLPSGAF
SCLRVSLSPSPPPGTPLSTMRKGLRATAARCGLGLGYLLQMLVLPALALLSASGTGSAAQDDDFFHELPETFPSDPPEPLPHFLIEPEEA
YIVKNKPVNLYCKASPATQIYFKCNSEWVHQKDHIVDERVDETSDIEENEDAGAASLPTQPTQPSSSSTYDPSNMPSGNYTGIQIPPGAH

--------------------------------------------------------------

>96853_96853_9_UNC5C-VTA1_UNC5C_chr4_96256560_ENST00000506749_VTA1_chr6_142519575_ENST00000452973_length(amino acids)=331AA_BP=224
MRLLLLLGGAAEVAALRLPGLPKWGQSSRSRETSVRRHWERGTFKLLLGVSSPPPFGPCLWRKWSVALGCRYFFGLLRGARIQLLPSGAF
SCLRVSLSPSPPPGTPLSTMRKGLRATAARCGLGLGYLLQMLVLPALALLSASGTGSAAQDDDFFHELPETFPSDPPEPLPHFLIEPEEA
YIVKNKPVNLYCKASPATQIYFKCNSEWVHQKDHIVDERVDETSDIEENEDAGAASLPTQPTQPSSSSTYDPSNMPSGNYTGIQIPPGAH

--------------------------------------------------------------

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Fusion Protein Functional Features

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr4:96256560/chr6:142519575)
- 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
UNC5C UNC5CL	.
518	FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

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.

- 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

- 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

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000453304

161_256

115.33333333333333

932.0

Domain

Note=Ig-like C2-type

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000453304

260_314

115.33333333333333

932.0

Domain

TSP type-1 1

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000453304

316_368

115.33333333333333

932.0

Domain

TSP type-1 2

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000453304

530_673

115.33333333333333

932.0

Domain

ZU5

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000453304

62_159

115.33333333333333

932.0

Domain

Note=Ig-like

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000453304

850_929

115.33333333333333

932.0

Domain

Note=Death

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000506749

161_256

115.33333333333333

598.0

Domain

Note=Ig-like C2-type

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000506749

260_314

115.33333333333333

598.0

Domain

TSP type-1 1

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000506749

316_368

115.33333333333333

598.0

Domain

TSP type-1 2

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000506749

530_673

115.33333333333333

598.0

Domain

ZU5

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000506749

62_159

115.33333333333333

598.0

Domain

Note=Ig-like

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000506749

850_929

115.33333333333333

598.0

Domain

Note=Death

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000453304

402_931

115.33333333333333

932.0

Region

Required for netrin-mediated axon repulsion of neuronal growth cones

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000506749

402_931

115.33333333333333

598.0

Region

Required for netrin-mediated axon repulsion of neuronal growth cones

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000453304

41_380

115.33333333333333

932.0

Topological domain

Extracellular

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000506749

41_380

115.33333333333333

598.0

Topological domain

Extracellular

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000453304

381_401

115.33333333333333

932.0

Transmembrane

Helical

Hgene

UNC5C

chr4:96256560

chr6:142519575

ENST00000506749

381_401

115.33333333333333

598.0

Transmembrane

Helical

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Fusion Protein-Protein Interaction

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 from validated records (BIOGRID-3.4.160)

Gene

PPI interactors

Protein-protein interactors based on sequence similarity (STRING)

Gene	STRING network
UNC5C
VTA1

- Retained interactions in fusion protein (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost interactions due to fusion (protein functional feature from UniProt).

Partner	Gene	Hbp	Tbp	ENST	Strand	BPexon	TotalExon	Protein feature loci	*BPloci	TotalLen	Interaction lost with
Hgene	UNC5C	chr4:96256560	chr6:142519575	ENST00000453304	-	2	16	694_712	115.33333333333333	932.0	DCC
Hgene	UNC5C	chr4:96256560	chr6:142519575	ENST00000506749	-	2	11	694_712	115.33333333333333	598.0	DCC
Tgene	VTA1	chr4:96256560	chr6:142519575	ENST00000367630		4	8	2_75	173.33333333333334	308.0	CHMP5
Tgene	VTA1	chr4:96256560	chr6:142519575	ENST00000367630		4	8	2_186	173.33333333333334	308.0	IST1

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Related Drugs to UNC5C-VTA1

Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)

Hgene

Tgene

Drug

Source

PMID

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Related Diseases to UNC5C-VTA1

Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)

Hgene

Tgene

Disease

Source

PMID

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source