FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact

Center for Computational Systems Medicine
leaf

FusionGeneSummary

leaf

FusionProtFeature

leaf

FusionGeneSequence

leaf

FusionGenePPI

leaf

RelatedDrugs

leaf

RelatedDiseases

Fusion gene ID: 24241

FusionGeneSummary for NFIC_VSTM4

check button Fusion gene summary
Fusion gene informationFusion gene name: NFIC_VSTM4
Fusion gene ID: 24241
HgeneTgene
Gene symbol

NFIC

VSTM4

Gene ID

4782

196740

Gene namenuclear factor I CV-set and transmembrane domain containing 4
SynonymsCTF|CTF5|NF-I|NFIC10orf72
Cytomap

19p13.3

10q11.23

Type of geneprotein-codingprotein-coding
Descriptionnuclear factor 1 C-typeCCAAT-box-binding transcription factorNF-I/CNF1-CTGGCA-binding proteinnuclear factor I/C (CCAAT-binding transcription factor)V-set and transmembrane domain-containing protein 4
Modification date2018052320180523
UniProtAcc

P08651

Q8IW00

Ensembl transtripts involved in fusion geneENST00000589123, ENST00000346156, 
ENST00000395111, ENST00000586919, 
ENST00000341919, ENST00000590282, 
ENST00000443272, ENST00000588839, 
ENST00000332853, ENST00000298454, 
Fusion gene scores* DoF score15 X 10 X 10=15004 X 3 X 3=36
# samples 204
** MAII scorelog2(20/1500*10)=-2.90689059560852
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: NFIC [Title/Abstract] AND VSTM4 [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
HgeneNFIC

GO:0000122

negative regulation of transcription by RNA polymerase II

19706729

HgeneNFIC

GO:0045944

positive regulation of transcription by RNA polymerase II

1524678|19706729


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
ChiTaRS3.1AI291551NFICchr19

3452553

-VSTM4chr10

50315817

+
* 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
Frame-shiftENST00000589123ENST00000332853NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000589123ENST00000298454NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000346156ENST00000332853NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000346156ENST00000298454NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000395111ENST00000332853NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000395111ENST00000298454NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000586919ENST00000332853NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000586919ENST00000298454NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000341919ENST00000332853NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000341919ENST00000298454NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000590282ENST00000332853NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000590282ENST00000298454NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000443272ENST00000332853NFICchr19

3452553

-VSTM4chr10

50315817

+
Frame-shiftENST00000443272ENST00000298454NFICchr19

3452553

-VSTM4chr10

50315817

+
intron-3CDSENST00000588839ENST00000332853NFICchr19

3452553

-VSTM4chr10

50315817

+
intron-3CDSENST00000588839ENST00000298454NFICchr19

3452553

-VSTM4chr10

50315817

+

Top

FusionProtFeatures for NFIC_VSTM4


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

P08651

VSTM4

Q8IW00

Peptide Lv enhances L-type voltage-gated calcium channel(L-VGCC) currents in retinal photoreceptors.{ECO:0000250|UniProtKB:T1NXB5}.

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


Top

FusionGeneSequence for NFIC_VSTM4


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).

Top

FusionGenePPI for NFIC_VSTM4


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


Top

RelatedDrugs for NFIC_VSTM4


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

Top

RelatedDiseases for NFIC_VSTM4


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneNFICC0033578Prostatic Neoplasms1CTD_human