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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: 41340

FusionGeneSummary for VAPA_SEC11A

check button Fusion gene summary
Fusion gene informationFusion gene name: VAPA_SEC11A
Fusion gene ID: 41340
HgeneTgene
Gene symbol

VAPA

SEC11A

Gene ID

9218

23478

Gene nameVAMP associated protein ASEC11 homolog A, signal peptidase complex subunit
SynonymsVAP-33|VAP-A|VAP33|hVAP-331810012E07Rik|SEC11L1|SPC18|SPCS4A|sid2895
Cytomap

18p11.22

15q25.2-q25.3

Type of geneprotein-codingprotein-coding
Descriptionvesicle-associated membrane protein-associated protein A33 kDa VAMP-associated proteinVAMP (vesicle-associated membrane protein)-associated protein A, 33kDaVAMP-Asignal peptidase complex catalytic subunit SEC11ASEC11-like protein 1SPase 18 kDa subunitendopeptidase SP18microsomal signal peptidase 18 kDa subunitsignal peptidase complex (18kD)signal peptidase complex 18
Modification date2018052220180523
UniProtAcc

Q9P0L0

P67812

Ensembl transtripts involved in fusion geneENST00000400000, ENST00000340541, 
ENST00000584796, 
ENST00000558134, 
ENST00000560266, ENST00000268220, 
ENST00000455959, 
Fusion gene scores* DoF score5 X 4 X 4=803 X 3 X 3=27
# samples 53
** MAII scorelog2(5/80*10)=-0.678071905112638
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(3/27*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: VAPA [Title/Abstract] AND SEC11A [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)

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

GO:0044791

positive regulation by host of viral release from host cell

19515777

HgeneVAPA

GO:0044828

negative regulation by host of viral genome replication

19515777

HgeneVAPA

GO:0044829

positive regulation by host of viral genome replication

19515777


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
ChiTaRS3.1BF094407VAPAchr18

9954428

+SEC11Achr15

85230966

-
* 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
3UTR-3CDSENST00000400000ENST00000558134VAPAchr18

9954428

+SEC11Achr15

85230966

-
3UTR-3CDSENST00000400000ENST00000560266VAPAchr18

9954428

+SEC11Achr15

85230966

-
3UTR-3CDSENST00000400000ENST00000268220VAPAchr18

9954428

+SEC11Achr15

85230966

-
3UTR-3CDSENST00000400000ENST00000455959VAPAchr18

9954428

+SEC11Achr15

85230966

-
intron-3CDSENST00000340541ENST00000558134VAPAchr18

9954428

+SEC11Achr15

85230966

-
intron-3CDSENST00000340541ENST00000560266VAPAchr18

9954428

+SEC11Achr15

85230966

-
intron-3CDSENST00000340541ENST00000268220VAPAchr18

9954428

+SEC11Achr15

85230966

-
intron-3CDSENST00000340541ENST00000455959VAPAchr18

9954428

+SEC11Achr15

85230966

-
intron-3CDSENST00000584796ENST00000558134VAPAchr18

9954428

+SEC11Achr15

85230966

-
intron-3CDSENST00000584796ENST00000560266VAPAchr18

9954428

+SEC11Achr15

85230966

-
intron-3CDSENST00000584796ENST00000268220VAPAchr18

9954428

+SEC11Achr15

85230966

-
intron-3CDSENST00000584796ENST00000455959VAPAchr18

9954428

+SEC11Achr15

85230966

-

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FusionProtFeatures for VAPA_SEC11A


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

Q9P0L0

SEC11A

P67812

Binds to OSBPL3, which mediates recruitment of VAPA toplasma membrane sites (PubMed:25447204). The ORP3-VAPA complexstimulates RRAS signaling which in turn attenuates integrin beta-1(ITGB1) activation at the cell surface (PubMed:25447204). WithOSBPL3, may regulate ER morphology (PubMed:16143324). May play arole in vesicle trafficking (PubMed:11511104, PubMed:19289470).{ECO:0000269|PubMed:11511104, ECO:0000269|PubMed:16143324,ECO:0000269|PubMed:19289470, ECO:0000269|PubMed:25447204}. Component of the microsomal signal peptidase complexwhich removes signal peptides from nascent proteins as they aretranslocated into the lumen of the endoplasmic reticulum.{ECO:0000250}.

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 VAPA_SEC11A


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.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for VAPA_SEC11A


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


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 VAPA_SEC11A


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 VAPA_SEC11A


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneVAPAC0005586Bipolar Disorder1PSYGENET