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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:VTI1A-GLUD1

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: VTI1A-GLUD1
	FusionPDB ID: 98588
	FusionGDB2.0 ID: 98588
		Hgene	Tgene
	Gene symbol	VTI1A	GLUD1
	Gene ID	143187	2746
	Gene name	vesicle transport through interaction with t-SNAREs 1A	glutamate dehydrogenase 1
	Synonyms	MMDS3\|MVti1\|VTI1RP2\|Vti1-rp2	GDH\|GDH1\|GLUD
	Cytomap	10q25.2	10q23.2
	Type of gene	protein-coding	protein-coding
	Description	vesicle transport through interaction with t-SNAREs homolog 1ASNARE Vti1a-beta proteinvesicle transport v-SNARE protein Vti1-like 2	glutamate dehydrogenase 1, mitochondrialepididymis secretory sperm binding proteinepididymis tissue sperm binding protein Li 18mPglutamate dehydrogenase (NAD(P)+)
	Modification date	20200313	20200329
	UniProtAcc	Q96AJ9	P00367
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000393077, ENST00000432306, ENST00000483122,	ENST00000465164, ENST00000277865, ENST00000537649, ENST00000544149,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	15 X 12 X 12=2160	10 X 7 X 8=560
	# samples	24	11
	** MAII score	log2(24/2160*10)=-3.16992500144231 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(11/560*10)=-2.34792330342031 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: VTI1A [Title/Abstract] AND GLUD1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	VTI1A(114298089)-GLUD1(88827914), # 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	VTI1A	GO:0042147	retrograde transport, endosome to Golgi	15215310\|18195106
Tgene	GLUD1	GO:0006537	glutamate biosynthetic process	11032875
Tgene	GLUD1	GO:0006538	glutamate catabolic process	6121377\|11032875

Fusion gene breakpoints across VTI1A (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 GLUD1 (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	OV	TCGA-09-2051	VTI1A	chr10	114298089	+	GLUD1	chr10	88827914	-

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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)
ENST00000432306	VTI1A	chr10	114298089	+	ENST00000277865	GLUD1	chr10	88827914	-	2839	543	86	1573	495
ENST00000432306	VTI1A	chr10	114298089	+	ENST00000537649	GLUD1	chr10	88827914	-	2835	543	86	1573	495
ENST00000432306	VTI1A	chr10	114298089	+	ENST00000544149	GLUD1	chr10	88827914	-	1724	543	86	1573	495
ENST00000393077	VTI1A	chr10	114298089	+	ENST00000277865	GLUD1	chr10	88827914	-	2839	543	86	1573	495
ENST00000393077	VTI1A	chr10	114298089	+	ENST00000537649	GLUD1	chr10	88827914	-	2835	543	86	1573	495
ENST00000393077	VTI1A	chr10	114298089	+	ENST00000544149	GLUD1	chr10	88827914	-	1724	543	86	1573	495

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
ENST00000432306	ENST00000277865	VTI1A	chr10	114298089	+	GLUD1	chr10	88827914	-	0.000418673	0.9995813
ENST00000432306	ENST00000537649	VTI1A	chr10	114298089	+	GLUD1	chr10	88827914	-	0.000417767	0.99958223
ENST00000432306	ENST00000544149	VTI1A	chr10	114298089	+	GLUD1	chr10	88827914	-	0.00077806	0.9992219
ENST00000393077	ENST00000277865	VTI1A	chr10	114298089	+	GLUD1	chr10	88827914	-	0.000418673	0.9995813
ENST00000393077	ENST00000537649	VTI1A	chr10	114298089	+	GLUD1	chr10	88827914	-	0.000417767	0.99958223
ENST00000393077	ENST00000544149	VTI1A	chr10	114298089	+	GLUD1	chr10	88827914	-	0.00077806	0.9992219

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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

>98588_98588_1_VTI1A-GLUD1_VTI1A_chr10_114298089_ENST00000393077_GLUD1_chr10_88827914_ENST00000277865_length(amino acids)=495AA_BP=152
MAWATRSGAAMSSDFEGYEQDFAVLTAEITSKIARVPRLPPDEKKQMVANVEKQLEEAKELLEQMDLEVREIPPQSRGMYSNRMRSYKQE
MGKLETDFKRSRIAYSDEVRNELLGDDGNSSENQRAHLLDNTERLERSSRRLEAGYQIAVETGPGIDVPAPDMSTGEREMSWIADTYAST
IGHYDINAHACVTGKPISQGGIHGRISATGRGVFHGIENFINEASYMSILGMTPGFGDKTFVVQGFGNVGLHSMRYLHRFGAKCIAVGES
DGSIWNPDGIDPKELEDFKLQHGSILGFPKAKPYEGSILEADCDILIPAASEKQLTKSNAPRVKAKIIAEGANGPTTPEADKIFLERNIM
VIPDLYLNAGGVTVSYFEWLKNLNHVSYGRLTFKYERDSNYHLLMSVQESLERKFGKHGGTIPIVPTAEFQDRISGASEKDIVHSGLAYT

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

>98588_98588_2_VTI1A-GLUD1_VTI1A_chr10_114298089_ENST00000393077_GLUD1_chr10_88827914_ENST00000537649_length(amino acids)=495AA_BP=152
MAWATRSGAAMSSDFEGYEQDFAVLTAEITSKIARVPRLPPDEKKQMVANVEKQLEEAKELLEQMDLEVREIPPQSRGMYSNRMRSYKQE
MGKLETDFKRSRIAYSDEVRNELLGDDGNSSENQRAHLLDNTERLERSSRRLEAGYQIAVETGPGIDVPAPDMSTGEREMSWIADTYAST
IGHYDINAHACVTGKPISQGGIHGRISATGRGVFHGIENFINEASYMSILGMTPGFGDKTFVVQGFGNVGLHSMRYLHRFGAKCIAVGES
DGSIWNPDGIDPKELEDFKLQHGSILGFPKAKPYEGSILEADCDILIPAASEKQLTKSNAPRVKAKIIAEGANGPTTPEADKIFLERNIM
VIPDLYLNAGGVTVSYFEWLKNLNHVSYGRLTFKYERDSNYHLLMSVQESLERKFGKHGGTIPIVPTAEFQDRISGASEKDIVHSGLAYT

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

>98588_98588_3_VTI1A-GLUD1_VTI1A_chr10_114298089_ENST00000393077_GLUD1_chr10_88827914_ENST00000544149_length(amino acids)=495AA_BP=152
MAWATRSGAAMSSDFEGYEQDFAVLTAEITSKIARVPRLPPDEKKQMVANVEKQLEEAKELLEQMDLEVREIPPQSRGMYSNRMRSYKQE
MGKLETDFKRSRIAYSDEVRNELLGDDGNSSENQRAHLLDNTERLERSSRRLEAGYQIAVETGPGIDVPAPDMSTGEREMSWIADTYAST
IGHYDINAHACVTGKPISQGGIHGRISATGRGVFHGIENFINEASYMSILGMTPGFGDKTFVVQGFGNVGLHSMRYLHRFGAKCIAVGES
DGSIWNPDGIDPKELEDFKLQHGSILGFPKAKPYEGSILEADCDILIPAASEKQLTKSNAPRVKAKIIAEGANGPTTPEADKIFLERNIM
VIPDLYLNAGGVTVSYFEWLKNLNHVSYGRLTFKYERDSNYHLLMSVQESLERKFGKHGGTIPIVPTAEFQDRISGASEKDIVHSGLAYT

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

>98588_98588_4_VTI1A-GLUD1_VTI1A_chr10_114298089_ENST00000432306_GLUD1_chr10_88827914_ENST00000277865_length(amino acids)=495AA_BP=152
MAWATRSGAAMSSDFEGYEQDFAVLTAEITSKIARVPRLPPDEKKQMVANVEKQLEEAKELLEQMDLEVREIPPQSRGMYSNRMRSYKQE
MGKLETDFKRSRIAYSDEVRNELLGDDGNSSENQRAHLLDNTERLERSSRRLEAGYQIAVETGPGIDVPAPDMSTGEREMSWIADTYAST
IGHYDINAHACVTGKPISQGGIHGRISATGRGVFHGIENFINEASYMSILGMTPGFGDKTFVVQGFGNVGLHSMRYLHRFGAKCIAVGES
DGSIWNPDGIDPKELEDFKLQHGSILGFPKAKPYEGSILEADCDILIPAASEKQLTKSNAPRVKAKIIAEGANGPTTPEADKIFLERNIM
VIPDLYLNAGGVTVSYFEWLKNLNHVSYGRLTFKYERDSNYHLLMSVQESLERKFGKHGGTIPIVPTAEFQDRISGASEKDIVHSGLAYT

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

>98588_98588_5_VTI1A-GLUD1_VTI1A_chr10_114298089_ENST00000432306_GLUD1_chr10_88827914_ENST00000537649_length(amino acids)=495AA_BP=152
MAWATRSGAAMSSDFEGYEQDFAVLTAEITSKIARVPRLPPDEKKQMVANVEKQLEEAKELLEQMDLEVREIPPQSRGMYSNRMRSYKQE
MGKLETDFKRSRIAYSDEVRNELLGDDGNSSENQRAHLLDNTERLERSSRRLEAGYQIAVETGPGIDVPAPDMSTGEREMSWIADTYAST
IGHYDINAHACVTGKPISQGGIHGRISATGRGVFHGIENFINEASYMSILGMTPGFGDKTFVVQGFGNVGLHSMRYLHRFGAKCIAVGES
DGSIWNPDGIDPKELEDFKLQHGSILGFPKAKPYEGSILEADCDILIPAASEKQLTKSNAPRVKAKIIAEGANGPTTPEADKIFLERNIM
VIPDLYLNAGGVTVSYFEWLKNLNHVSYGRLTFKYERDSNYHLLMSVQESLERKFGKHGGTIPIVPTAEFQDRISGASEKDIVHSGLAYT

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

>98588_98588_6_VTI1A-GLUD1_VTI1A_chr10_114298089_ENST00000432306_GLUD1_chr10_88827914_ENST00000544149_length(amino acids)=495AA_BP=152
MAWATRSGAAMSSDFEGYEQDFAVLTAEITSKIARVPRLPPDEKKQMVANVEKQLEEAKELLEQMDLEVREIPPQSRGMYSNRMRSYKQE
MGKLETDFKRSRIAYSDEVRNELLGDDGNSSENQRAHLLDNTERLERSSRRLEAGYQIAVETGPGIDVPAPDMSTGEREMSWIADTYAST
IGHYDINAHACVTGKPISQGGIHGRISATGRGVFHGIENFINEASYMSILGMTPGFGDKTFVVQGFGNVGLHSMRYLHRFGAKCIAVGES
DGSIWNPDGIDPKELEDFKLQHGSILGFPKAKPYEGSILEADCDILIPAASEKQLTKSNAPRVKAKIIAEGANGPTTPEADKIFLERNIM
VIPDLYLNAGGVTVSYFEWLKNLNHVSYGRLTFKYERDSNYHLLMSVQESLERKFGKHGGTIPIVPTAEFQDRISGASEKDIVHSGLAYT

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

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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/chr10:114298089/chr10:88827914)
- 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
VTI1A Q96AJ9	GLUD1 P00367
FUNCTION: V-SNARE that mediates vesicle transport pathways through interactions with t-SNAREs on the target membrane. These interactions are proposed to mediate aspects of the specificity of vesicle trafficking and to promote fusion of the lipid bilayers. Involved in vesicular transport from the late endosomes to the trans-Golgi network. Along with VAMP7, involved in an non-conventional RAB1-dependent traffic route to the cell surface used by KCNIP1 and KCND2. May be involved in increased cytokine secretion associated with cellular senescence. {ECO:0000269\|PubMed:18195106, ECO:0000269\|PubMed:19138172}.	FUNCTION: Mitochondrial glutamate dehydrogenase that catalyzes the conversion of L-glutamate into alpha-ketoglutarate. Plays a key role in glutamine anaplerosis by producing alpha-ketoglutarate, an important intermediate in the tricarboxylic acid cycle (PubMed:11032875, PubMed:16959573, PubMed:11254391, PubMed:16023112). Plays a role in insulin homeostasis (PubMed:9571255, PubMed:11297618). May be involved in learning and memory reactions by increasing the turnover of the excitatory neurotransmitter glutamate (By similarity). {ECO:0000250\|UniProtKB:P10860, ECO:0000269\|PubMed:11032875, ECO:0000269\|PubMed:11254391, ECO:0000269\|PubMed:11297618, ECO:0000269\|PubMed:16023112, ECO:0000269\|PubMed:16959573, ECO:0000269\|PubMed:9571255}.

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

Hgene

VTI1A

chr10:114298089

chr10:88827914

ENST00000393077

31_92

142.33333333333334

218.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

VTI1A

chr10:114298089

chr10:88827914

ENST00000432306

31_92

142.33333333333334

204.0

Coiled coil

Ontology_term=ECO:0000255

- 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

VTI1A

chr10:114298089

chr10:88827914

ENST00000393077

112_178

142.33333333333334

218.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

VTI1A

chr10:114298089

chr10:88827914

ENST00000432306

112_178

142.33333333333334

204.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

VTI1A

chr10:114298089

chr10:88827914

ENST00000393077

1_192

142.33333333333334

218.0

Topological domain

Cytoplasmic

Hgene

VTI1A

chr10:114298089

chr10:88827914

ENST00000393077

214_217

142.33333333333334

218.0

Topological domain

Extracellular

Hgene

VTI1A

chr10:114298089

chr10:88827914

ENST00000432306

1_192

142.33333333333334

204.0

Topological domain

Cytoplasmic

Hgene

VTI1A

chr10:114298089

chr10:88827914

ENST00000432306

214_217

142.33333333333334

204.0

Topological domain

Extracellular

Hgene

VTI1A

chr10:114298089

chr10:88827914

ENST00000393077

193_213

142.33333333333334

218.0

Transmembrane

Helical

Hgene

VTI1A

chr10:114298089

chr10:88827914

ENST00000432306

193_213

142.33333333333334

204.0

Transmembrane

Helical

Tgene

GLUD1

chr10:114298089

chr10:88827914

ENST00000277865

141_143

215.33333333333334

559.0

Nucleotide binding

NAD

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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
VTI1A	VAMP4, VAMP3, STX7, STX8, VAMP8, env, TMBIM6, STX6, STX12, CLEC12A, Snap29, HAUS1, HNRNPL, RNF4, BET1, APEX1, NAPA, VAMP5, ORF7b, ARF6, B3GAT1, LAMP2, LAMP3, LAMTOR1, MARCKS, RAB2A, RAB4A, RAB5A, RAB5C, RAB9A, EDEM1, TRPC4AP, TMEM74, ZDHHC12, SEC22B, SMPD1, TMEM9, NAPG, TMEM9B, GPRC5B, B4GALT5, TMEM171, ASPH, SLC39A4, VPS45, SNAP29, HLA-C, STX11, STX18,

Protein-protein interactors based on sequence similarity (STRING)

Gene	STRING network
VTI1A
GLUD1

- 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

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Related Drugs to VTI1A-GLUD1

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 VTI1A-GLUD1

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
Hgene	VTI1A	C0001418	Adenocarcinoma	1	CTD_human
Hgene	VTI1A	C0009402	Colorectal Carcinoma	1	CTD_human
Hgene	VTI1A	C0009404	Colorectal Neoplasms	1	CTD_human
Hgene	VTI1A	C0205641	Adenocarcinoma, Basal Cell	1	CTD_human
Hgene	VTI1A	C0205642	Adenocarcinoma, Oxyphilic	1	CTD_human
Hgene	VTI1A	C0205643	Carcinoma, Cribriform	1	CTD_human
Hgene	VTI1A	C0205644	Carcinoma, Granular Cell	1	CTD_human
Hgene	VTI1A	C0205645	Adenocarcinoma, Tubular	1	CTD_human