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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 41362

FusionGeneSummary for VAT1_BCAS3

check button Fusion gene summary
Fusion gene informationFusion gene name: VAT1_BCAS3
Fusion gene ID: 41362
HgeneTgene
Gene symbol

VAT1

BCAS3

Gene ID

10493

54828

Gene namevesicle amine transport 1BCAS3, microtubule associated cell migration factor
SynonymsVATIGAOB1|MAAB
Cytomap

17q21.31

17q23.2

Type of geneprotein-codingprotein-coding
Descriptionsynaptic vesicle membrane protein VAT-1 homologmembrane protein of cholinergic synaptic vesiclesvesicle amine transport protein 1 homolog (T. californica)breast carcinoma-amplified sequence 3BCAS4/BCAS3 fusionRudhirabreast carcinoma amplified sequence 4/3 fusion proteinmetastasis associated antigen of breast cancerprotein Maab1
Modification date2018051920180523
UniProtAcc

Q99536

Q9H6U6

Ensembl transtripts involved in fusion geneENST00000355653, ENST00000587173, 
ENST00000420567, 
ENST00000589222, 
ENST00000407086, ENST00000390652, 
ENST00000408905, ENST00000588462, 
ENST00000585744, ENST00000588874, 
ENST00000585812, 
Fusion gene scores* DoF score8 X 6 X 2=9626 X 15 X 15=5850
# samples 941
** MAII scorelog2(9/96*10)=-0.0931094043914815
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(41/5850*10)=-3.83474080985268
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: VAT1 [Title/Abstract] AND BCAS3 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotationOncogene involved fusion gene, in-frame and retained their domain.
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
TgeneBCAS3

GO:0043085

positive regulation of catalytic activity

17505058

TgeneBCAS3

GO:0045944

positive regulation of transcription by RNA polymerase II

17505058

TgeneBCAS3

GO:0071391

cellular response to estrogen stimulus

17505058


check button 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 typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
TCGARVSKCMTCGA-ER-A19W-06AVAT1chr17

41166624

-BCAS3chr17

59465980

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

check button 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.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
In-frameENST00000355653ENST00000589222VAT1chr17

41166624

-BCAS3chr17

59465980

+
5CDS-intronENST00000355653ENST00000407086VAT1chr17

41166624

-BCAS3chr17

59465980

+
5CDS-intronENST00000355653ENST00000390652VAT1chr17

41166624

-BCAS3chr17

59465980

+
5CDS-intronENST00000355653ENST00000408905VAT1chr17

41166624

-BCAS3chr17

59465980

+
5CDS-intronENST00000355653ENST00000588462VAT1chr17

41166624

-BCAS3chr17

59465980

+
5CDS-intronENST00000355653ENST00000585744VAT1chr17

41166624

-BCAS3chr17

59465980

+
5CDS-intronENST00000355653ENST00000588874VAT1chr17

41166624

-BCAS3chr17

59465980

+
5CDS-intronENST00000355653ENST00000585812VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-3CDSENST00000587173ENST00000589222VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000587173ENST00000407086VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000587173ENST00000390652VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000587173ENST00000408905VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000587173ENST00000588462VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000587173ENST00000585744VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000587173ENST00000588874VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000587173ENST00000585812VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-3CDSENST00000420567ENST00000589222VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000420567ENST00000407086VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000420567ENST00000390652VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000420567ENST00000408905VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000420567ENST00000588462VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000420567ENST00000585744VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000420567ENST00000588874VAT1chr17

41166624

-BCAS3chr17

59465980

+
intron-intronENST00000420567ENST00000585812VAT1chr17

41166624

-BCAS3chr17

59465980

+

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FusionProtFeatures for VAT1_BCAS3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
VAT1

Q99536

BCAS3

Q9H6U6

Possesses ATPase activity (By similarity). Plays a partin calcium-regulated keratinocyte activation in epidermal repairmechanisms. Has no effect on cell proliferation. Negativelyregulates mitochondrial fusion in cooperation with mitofusinproteins (MFN1-2). {ECO:0000250, ECO:0000269|PubMed:12898150,ECO:0000269|PubMed:17105775, ECO:0000269|PubMed:19508442}.

check buttonRetention 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.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note


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FusionGeneSequence for VAT1_BCAS3


check button 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.
>In-frame_VAT1_ENST00000355653_chr17_41166624_-_BCAS3_ENST00000589222_chr17_59465980_+_42aa


* Fusion transcript sequences (only coding sequence (CDS) region).
>In-frame_VAT1_ENST00000355653_chr17_41166624_-_BCAS3_ENST00000589222_chr17_59465980_+_128nt
GGAAAAAAAAAGGAAAAAAAAAACAATGCCAACAGCCCAGCGTCCGTGAGCAACCCAACAGTAACAAAGCATGCGTTCGGGATGGAGGAA


* Fusion transcript sequences (Full-length transcript).
>In-frame_VAT1_ENST00000355653_chr17_41166624_-_BCAS3_ENST00000589222_chr17_59465980_+_3680nt
GCTGGATCCCGCAGCCGCGGCTCTTCCCGACGCGTTCCGCCTTCCCCAGCTGTGCACTCTCCATCCAGCTGTGCGCTCTCGTCGGGAGTC
CCAGCCATGTCCGACGAGAGAGAGGTAGCCGAGGCAGCGACCGGGGAAGACGCCTCTTCGCCGCCTCCGAAAACCGAGGCAGCGAGCGAC
CCCCAGCATCCCGCGGCCTCCGAAGGGGCCGCCGCCGCCGCCGCCTCGCCGCCACTGCTGCGCTGCCTAGTGCTCACCGGCTTTGGAGGC
TACGACAAGGTGAAGCTGCAGAGCCGGCCGGCAGCGCCCCCGGCCCCTGGGCCCGGCCAGCTGACGCTGCGTCTGCGGGCCTGCGGGCTC
AACTTCGCAGACCTCATGGCTAGGCAGGGGCTGTACGACCGTCTCCCGCCTCTGCCTGTCACTCCGGGCATGGAGGGCGCGGGTGTTGTG
ATCGCAGTGGGCGAGGGAGTCAGCGACCGCAAGGCAGGAGACCGGGTGATGGTGTTGAACCGGTCAGGGATGTGGCAGGAAGAGGTGACT
GTGCCCTCGGTCCAGACCTTCCTGATTCCTGAGGCCATGACCTTTGAGGAAGCTGCTGCCTTGCTCGTCAATTACATTACAGCCTACATG
GTCCTCTTTGACTTCGGCAACCTACAGCCTGGCCACAGCGTCTTGGTACACATGGCTGCAGGGGGTGTGGGTATGGCTGCCGTGCAGCTG
TGCCGTACAGTGGAGAATGTGACAGTGTTCGGAACGGCCTCGGCCAGCAAGCACGAGGCACTGAAGGAGAATGGGGTCACACATCCCATC
GACTATCACACGACTGACTACGTGGATGAGATCAAGAAGATTTCCCCTAAAGGAGTGGACATTGTCATGGACCCTCTGGGTGGGTCAGAT
ACTGCCAAGGGCTACAACCTCCTGAAACCCATGGGCAAAGTCGTCACCTATGGAATGGCCAACCTGCTGACGGGCCCCAAACGGAACCTG
ATGGCCCTGGCCCGGACATGGTGGAATCAGTTCAGCGTGACAGCTCTGCAGCTGCTGCAGGCCAACCGGGCTGTGTGTGGCTTCCACCTG
GGCTACCTGGATGGTGAGGTGGAGCTGGTCAGTGGTGTGGTGGCCCGCCTCCTGGCTCTGTACAACCAGGGCCACATCAAGCCCCACATT
GACTCAGTCTGGCCCTTCGAGAAGGTGGCTGATGCCATGAAACAGATGCAGGAGAAGAAGAATGTGGGCAAGGTCCTCCTGGTTCCAGGG
CCAGAGAAGGAGAACTAGGGCAAGTGGCTGTGAGACCCTAGAGACCAGCGAAGGGAGAAGTTGGGAAGCTACGTTCTGTTGGCCACCAGA
CTTGCATTTCAGCCTCTGTCATAATGCTCTGCCCTCCCTCCCCCGAAGGTCTCTGTGGTGATGACCGCTCTCCCCTGCCCCTCCCCGCTT
CCTGACCTCTGAAGAGGTTGGGAAGTGACCATTTGGATGTCTGGGCCCTGCCAAGGCGACAGGGAGGGTCAGAGGGAGGCCGGCTGCTTC
CTGCCCCCACCCTTTCCCCGGGCCTGCTGTGCTGCTTTTGTGCCAAGGTTAGCCAGTCCCCCCTGTTGTGTTCCATGTGCTTTCACCTCT
GCCTCATCTTTCCTCCCGTCCCTGCCCCGCCACCTCCCCAAAGAATTGAAACGTCAGCTCAGGATATGGGGCCAATCTCTGTGAGTCCAG
CATGTACCTGTCTCTCCCTAGTGTCCCTTCAGCCTGGGCTGACCAGTGCCCGCCTCTGGGCTTGACCAGTTCCCAATCTCGTCCTCTGTC
CCCAACTTCTTAAGCACAATTGGGCTTCTTCCATCTCCAGGTTTTCTGCCATTCTTAACCAAGGCTGCCTCTTCCAACAGGGCGGGAATC
AGACCTACTCCCCTAGGTCACAACTCTGGGAAGGATACAGAGCCCCCACCCTTCACTGAGTTCTCTGGATTTGTTCTCAGTGCCTTAGCA
ACGAAAACCTGTGCTTGTGTGTGTGTGGCGGCGGGGAGGGAGGATCCTGTTTCCCACCTCCTTCTCCTCCCCTGTACTCCCCAGTGCCTT
CCTTGTTCTGGTGGAGCTGGGGTTTCTCTCCTCCCCAGTCCCACAACACTGCCAAAAATCTGTGTATGTGCCATTGGGTGGGGCAGCCCC
AAGCCTCCTGGGGAGGCAGGGCAAAAACAGGTGCCCTCATCGTGGTCTGTGCCATGTCCCGTCTCTATGGTGGTTGAGGAGAAAGGCGGG
GAAGCTTCCTCAGCCTTGCAGATATGTGTGGCATTTACTAGCCAGAGCTCTGAAAGGCAGTGCTGTCTGTTTCTTGTACTGGGACCAAAG
TAAAAATCCAAGCACATTCCCCTTGCAGTTAGGGGAGGCCCTACTGCCTTCTCAAAGCAGAGAGGCAGCTTATCAAACTCAGCCCAAAAC
TCTGTTTACATGGGTGGGGAGATGGAGCAGGGAAGTACAGAGTGGGATGGTCAGGACCTGGGCCATTGCAACCAAAATGGGGACTTCCTG
GGTAGGGAGGTCACTCCCTCTACTCACTGAGCTAGGATTAGGGAGGGTTATTGCCCCAACCATTGCAATGGGAGGTGGAGGGACAGGCTC
AGCCTCCTCATTGTCTAAATGAGGCCTAAATGTGTGAAGTGCGATTTCTGCTTTTGTGTACCCCACCACCCCATTACCACAGCTGCCTTT
GTGTGTTTGTGTCAATAAAAAGCCAAACCCTGGGGGAAAAAAAAAGGAAAAAAAAAACAATGCCAACAGCCCAGCGTCCGTGAGCAACCC
AACAGTAACAAAGCATGCGTTCGGGATGGAGGAAGAACTTCAGCGAGAGGGAAGCATCGAGACTCTGAGTAACAGCTCAGGCTCCACCAG
CGGCAGCATACCAAGAAACTTTGATGGCTACCGATCTCCGCTGCCCACCAATGAGAGCCAGCCCCTCAGCCTCTTCCCGACTGGCTTCCC
GTAGGTACCAGCAACCTGCTTCTGACTGGCCAGCCCCCTCCCCTGCTGGAGGAGGGGAGAAGCCCCGCTCTGGTCCTACCCTTCAGTCTC
TGCTCTTCCTTCATCAACCACCTTCCCCAAGCTTAGTGACAGCAGCCGCCCATCCTACCTGGATGGAGAAGAGACCCTTCTCCAAGCACC
TCAGCGCACTTGCCCTCTGCCACACCTGTCGGTGGAGGCTGTGGCCAGGAGAGACTGTAGAAGCTCGGTCCCTGTGTATGTTTGCATATG
ACATCCTGCATTGGATCCGCTTTTGTATTTTTTAACCATACCCACGGTGGGGCGGGTGGGGGGAGCCTGGAACAGTGACCAGATCTGGGG
GCCTGAGTGGGGACAGAGTTGATCGTCCACCTGGCCATTTTGACCCTGAGTGGACAGTCACAGCCTCAGCTCATGTCTGGCTGTGACACA
CACTGCCCCCAGCTTCCCTTGGTCAGCCCCACTCCAGCACGGGGTGAACGGAGGCCCAGAGTACTAGGGAAGGAGGAAGGGAGGACATGC
CTCTTCTTCCTCCTTTCTTTCCCCATCTGTTCATGGGAAGAGTTTGTCTTTCTTATCTTTAAGCCCCTTTACCCTGGTCCTGTACTGATC


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FusionGenePPI for VAT1_BCAS3


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page

.

check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors
VAT1PHLPP2, H2AFX, CDK2, WDR12, NRAS, ZFYVE21, WDR74, ATP4A, PARK2, MVP, S100A13, TTC1, GARS, SETSIP, NCBP1, PFKP, PLIN3, TP53, NTRK1, TMEM216, EIF2S2, DLD, SOD1BCAS3CTBP1, CTBP2, CDC23, C16orf70, ZDHHC17, ESR1, PELP1, HIST1H3A, KAT2B, WIPI2, ATM, BAG4, CCND1, FBXW7, KRAS, PALB2, PHB, PTPN1, SMAD4, STK11, TGFB1, TSG101, XRCC3, OFD1, CEP128, FBF1, NPHP1, SCLT1, XPO1, CD14, HDAC1, IRF3, MAGEE1, IL17RA, DOCK5, VWA5A, RAB2B


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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RelatedDrugs for VAT1_BCAS3


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for VAT1_BCAS3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource