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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: 41460

FusionGeneSummary for VIM-AS1_SERINC3

check button Fusion gene summary
Fusion gene informationFusion gene name: VIM-AS1_SERINC3
Fusion gene ID: 41460
HgeneTgene
Gene symbol

VIM-AS1

SERINC3

Gene ID

100507347

10955

Gene nameVIM antisense RNA 1serine incorporator 3
Synonyms-AIGP1|DIFF33|SBBI99|TDE|TDE1|TMS-1
Cytomap

10p13

20q13.12

Type of genencRNAprotein-coding
Description-serine incorporator 3tumor differentially expressed protein 1
Modification date2018042120180523
UniProtAcc

Q13530

Ensembl transtripts involved in fusion geneENST00000437232, ENST00000605833, 
ENST00000255175, ENST00000342374, 
ENST00000541235, ENST00000468234, 
Fusion gene scores* DoF score2 X 2 X 1=48 X 8 X 3=192
# samples 28
** MAII scorelog2(2/4*10)=2.32192809488736log2(8/192*10)=-1.26303440583379
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: VIM-AS1 [Title/Abstract] AND SERINC3 [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
TgeneSERINC3

GO:0009597

detection of virus

26416733|26416734

TgeneSERINC3

GO:0045087

innate immune response

26416733|26416734

TgeneSERINC3

GO:0051607

defense response to virus

26416733|26416734


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
ChiTaRS3.1BF569677VIM-AS1chr10

17271344

+SERINC3chr20

43127088

-
* 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
intron-intronENST00000437232ENST00000255175VIM-AS1chr10

17271344

+SERINC3chr20

43127088

-
intron-3UTRENST00000437232ENST00000342374VIM-AS1chr10

17271344

+SERINC3chr20

43127088

-
intron-intronENST00000437232ENST00000541235VIM-AS1chr10

17271344

+SERINC3chr20

43127088

-
intron-intronENST00000437232ENST00000468234VIM-AS1chr10

17271344

+SERINC3chr20

43127088

-
5UTR-intronENST00000605833ENST00000255175VIM-AS1chr10

17271344

+SERINC3chr20

43127088

-
5UTR-3UTRENST00000605833ENST00000342374VIM-AS1chr10

17271344

+SERINC3chr20

43127088

-
5UTR-intronENST00000605833ENST00000541235VIM-AS1chr10

17271344

+SERINC3chr20

43127088

-
5UTR-intronENST00000605833ENST00000468234VIM-AS1chr10

17271344

+SERINC3chr20

43127088

-

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FusionProtFeatures for VIM-AS1_SERINC3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
VIM-AS1

SERINC3

Q13530

Lectin that binds to various sugars: galactose > mannose= fucose > N-acetylglucosamine > N-acetylgalactosamine(PubMed:10224141). Acts as a chemoattractant, probably involved inthe regulation of cell migration (PubMed:28301481).{ECO:0000269|PubMed:10224141, ECO:0000269|PubMed:28301481}. Restriction factor required to restrict infectivity oflentiviruses, such as HIV-1: acts by inhibiting an early step ofviral infection. Impairs the penetration of the viral particleinto the cytoplasm (PubMed:26416733, PubMed:26416734).{ECO:0000269|PubMed:26416733, ECO:0000269|PubMed:26416734}.

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 VIM-AS1_SERINC3


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 VIM-AS1_SERINC3


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 VIM-AS1_SERINC3


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 VIM-AS1_SERINC3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneSERINC3C0033578Prostatic Neoplasms1CTD_human