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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: 19769

FusionGeneSummary for LINC00343_KNTC1

check button Fusion gene summary
Fusion gene informationFusion gene name: LINC00343_KNTC1
Fusion gene ID: 19769
HgeneTgene
Gene symbol

LINC00343

KNTC1

Gene ID

144920

9735

Gene namelong intergenic non-protein coding RNA 343kinetochore associated 1
SynonymsLINC00344|NCRNA00343|NCRNA00344ROD
Cytomap

13q33.2

12q24.31

Type of genencRNAprotein-coding
Descriptionlong intergenic non-protein coding RNA 344kinetochore-associated protein 1Rough Deal homolog, centromere/kinetochore protein
Modification date2018032920180522
UniProtAcc

P50748

Ensembl transtripts involved in fusion geneENST00000454555, ENST00000450485, 
ENST00000333479, ENST00000545065, 
ENST00000537348, ENST00000436959, 
ENST00000534995, 
Fusion gene scores* DoF score1 X 1 X 1=17 X 7 X 4=196
# samples 17
** MAII scorelog2(1/1*10)=3.32192809488736log2(7/196*10)=-1.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: LINC00343 [Title/Abstract] AND KNTC1 [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
TgeneKNTC1

GO:0007093

mitotic cell cycle checkpoint

11146660


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
ChiTaRS3.1BE671738LINC00343chr13

106383937

-KNTC1chr12

123103055

-
* 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-3CDSENST00000454555ENST00000450485LINC00343chr13

106383937

-KNTC1chr12

123103055

-
intron-3CDSENST00000454555ENST00000333479LINC00343chr13

106383937

-KNTC1chr12

123103055

-
intron-intronENST00000454555ENST00000545065LINC00343chr13

106383937

-KNTC1chr12

123103055

-
intron-3UTRENST00000454555ENST00000537348LINC00343chr13

106383937

-KNTC1chr12

123103055

-
intron-5UTRENST00000454555ENST00000436959LINC00343chr13

106383937

-KNTC1chr12

123103055

-
intron-intronENST00000454555ENST00000534995LINC00343chr13

106383937

-KNTC1chr12

123103055

-

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FusionProtFeatures for LINC00343_KNTC1


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
LINC00343

KNTC1

P50748

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}. Essential component of the mitotic checkpoint, whichprevents cells from prematurely exiting mitosis. Required for theassembly of the dynein-dynactin and MAD1-MAD2 complexes ontokinetochores (PubMed:11146660, PubMed:11590237, PubMed:15824131).Its function related to the spindle assembly machinery is proposedto depend on its association in the mitotic RZZ complex.{ECO:0000269|PubMed:11146660, ECO:0000269|PubMed:11590237,ECO:0000269|PubMed:15824131, ECO:0000305}.

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 LINC00343_KNTC1


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 LINC00343_KNTC1


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
LINC00343KNTC1VHL, ZW10, PIAS4, PPP6R1, VARS, BSG, TMEM171, CA14, LPAR6, RP2, SCN2B, NTRK1, NIPSNAP1, ACTR5, TMEM206, C12orf49, HTR2C, LAMP3, EPHA1, EDNRB, TMEM108, CHRM4, SIGLECL1, SLC15A1, IL13RA2


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 LINC00343_KNTC1


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 LINC00343_KNTC1


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