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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: 41475

FusionGeneSummary for VIM_VIM-AS1

check button Fusion gene summary
Fusion gene informationFusion gene name: VIM_VIM-AS1
Fusion gene ID: 41475
HgeneTgene
Gene symbol

VIM

VIM-AS1

Gene ID

7431

100507347

Gene namevimentinVIM antisense RNA 1
Synonyms--
Cytomap

10p13

10p13

Type of geneprotein-codingncRNA
Descriptionvimentin-
Modification date2018052720180421
UniProtAcc

P08670

Ensembl transtripts involved in fusion geneENST00000544301, ENST00000224237, 
ENST00000485947, 
ENST00000437232, 
ENST00000605833, 
Fusion gene scores* DoF score13 X 4 X 9=4687 X 6 X 1=42
# samples 157
** MAII scorelog2(15/468*10)=-1.64154602908752
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(7/42*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

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

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
ChiTaRS3.1BG928012VIMchr10

17275787

+VIM-AS1chr10

17271730

+
* 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
5CDS-intronENST00000544301ENST00000437232VIMchr10

17275787

+VIM-AS1chr10

17271730

+
5CDS-5UTRENST00000544301ENST00000605833VIMchr10

17275787

+VIM-AS1chr10

17271730

+
5CDS-intronENST00000224237ENST00000437232VIMchr10

17275787

+VIM-AS1chr10

17271730

+
5CDS-5UTRENST00000224237ENST00000605833VIMchr10

17275787

+VIM-AS1chr10

17271730

+
intron-intronENST00000485947ENST00000437232VIMchr10

17275787

+VIM-AS1chr10

17271730

+
intron-5UTRENST00000485947ENST00000605833VIMchr10

17275787

+VIM-AS1chr10

17271730

+

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FusionProtFeatures for VIM_VIM-AS1


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

P08670

VIM-AS1

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}.

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_VIM-AS1


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_VIM-AS1


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_VIM-AS1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgeneVIMP08670DB11638ArtenimolVimentinsmall moleculeapproved|investigational

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RelatedDiseases for VIM_VIM-AS1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneVIMC1458155Mammary Neoplasms3CTD_human
HgeneVIMC0023890Liver Cirrhosis2CTD_human
HgeneVIMC0029408Degenerative polyarthritis2CTD_human
HgeneVIMC0033578Prostatic Neoplasms2CTD_human
HgeneVIMC0007140Carcinosarcoma1CTD_human
HgeneVIMC0007621Neoplastic Cell Transformation1CTD_human
HgeneVIMC0023893Liver Cirrhosis, Experimental1CTD_human
HgeneVIMC0027627Neoplasm Metastasis1CTD_human
HgeneVIMC0027720Nephrosis1CTD_human
HgeneVIMC0031149Peritoneal Neoplasms1CTD_human
HgeneVIMC0035126Reperfusion Injury1CTD_human
HgeneVIMC0035309Retinal Diseases1CTD_human
HgeneVIMC0039101synovial sarcoma1CTD_human
HgeneVIMC0043094Weight Gain1CTD_human
HgeneVIMC0085084Motor Neuron Disease1CTD_human
HgeneVIMC0086543Cataract1CTD_human
HgeneVIMC0345967Malignant mesothelioma1CTD_human
HgeneVIMC0524851Neurodegenerative Disorders1CTD_human
HgeneVIMC0948089Acute Coronary Syndrome1CTD_human
HgeneVIMC1862939AMYOTROPHIC LATERAL SCLEROSIS 11CTD_human
HgeneVIMC3805411CATARACT 301UNIPROT
HgeneVIMC4277682Chemical and Drug Induced Liver Injury1CTD_human