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Center for Computational Systems Medicine
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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:KTN1-NADSYN1 (FusionGDB2 ID:43750)

Fusion Gene Summary for KTN1-NADSYN1

check button Fusion gene summary
Fusion gene informationFusion gene name: KTN1-NADSYN1
Fusion gene ID: 43750
HgeneTgene
Gene symbol

KTN1

NADSYN1

Gene ID

3895

55191

Gene namekinectin 1NAD synthetase 1
SynonymsCG1|KNT|MU-RMS-40.19-
Cytomap

14q22.3

11q13.4

Type of geneprotein-codingprotein-coding
DescriptionkinectinCG-1 antigenkinesin receptorglutamine-dependent NAD(+) synthetaseNAD(+) synthaseNAD(+) synthetaseglutamine-dependent NAD synthetase
Modification date2020031320200313
UniProtAcc

Q86UP2

Q6IA69

Ensembl transtripts involved in fusion geneENST00000395308, ENST00000395309, 
ENST00000395311, ENST00000395314, 
ENST00000413890, ENST00000416613, 
ENST00000438792, ENST00000554507, 
ENST00000555573, 		ENST00000319023, 
ENST00000526039, ENST00000530055, 
ENST00000539574, 
Fusion gene scores* DoF score17 X 19 X 8=258415 X 16 X 7=1680
# samples 2018
** MAII scorelog2(20/2584*10)=-3.6915341649192
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(18/1680*10)=-3.22239242133645
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: KTN1 [Title/Abstract] AND NADSYN1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointKTN1(56114806)-NADSYN1(71180186), # samples:1
Anticipated loss of major functional domain due to fusion event.
* 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 buttonFusion gene breakpoints across KTN1 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check buttonFusion gene breakpoints across NADSYN1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

check button Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0)
* 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.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4BRCATCGA-A2-A0D4-01AKTN1chr14

56114806

+NADSYN1chr11

71180186

+


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Fusion Gene ORF analysis for KTN1-NADSYN1

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-intronENST00000395308ENST00000319023KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395308ENST00000526039KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395308ENST00000530055KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395308ENST00000539574KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395309ENST00000319023KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395309ENST00000526039KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395309ENST00000530055KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395309ENST00000539574KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395311ENST00000319023KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395311ENST00000526039KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395311ENST00000530055KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395311ENST00000539574KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395314ENST00000319023KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395314ENST00000526039KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395314ENST00000530055KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000395314ENST00000539574KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000413890ENST00000319023KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000413890ENST00000526039KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000413890ENST00000530055KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000413890ENST00000539574KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000416613ENST00000319023KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000416613ENST00000526039KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000416613ENST00000530055KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000416613ENST00000539574KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000438792ENST00000319023KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000438792ENST00000526039KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000438792ENST00000530055KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000438792ENST00000539574KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000554507ENST00000319023KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000554507ENST00000526039KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000554507ENST00000530055KTN1chr14

56114806

+NADSYN1chr11

71180186

+
5CDS-intronENST00000554507ENST00000539574KTN1chr14

56114806

+NADSYN1chr11

71180186

+
intron-intronENST00000555573ENST00000319023KTN1chr14

56114806

+NADSYN1chr11

71180186

+
intron-intronENST00000555573ENST00000526039KTN1chr14

56114806

+NADSYN1chr11

71180186

+
intron-intronENST00000555573ENST00000530055KTN1chr14

56114806

+NADSYN1chr11

71180186

+
intron-intronENST00000555573ENST00000539574KTN1chr14

56114806

+NADSYN1chr11

71180186

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score

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Fusion Genomic Features for KTN1-NADSYN1


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.

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Fusion Protein Features for KTN1-NADSYN1


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:56114806/:71180186)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
KTN1

Q86UP2

NADSYN1

Q6IA69

FUNCTION: Receptor for kinesin thus involved in kinesin-driven vesicle motility. Accumulates in integrin-based adhesion complexes (IAC) upon integrin aggregation by fibronectin.FUNCTION: Catalyzes the final step of the nicotinamide adenine dinucleotide (NAD) de novo synthesis pathway, the ATP-dependent amidation of deamido-NAD using L-glutamine as a nitrogen source. {ECO:0000269|PubMed:12547821, ECO:0000269|PubMed:31883644}.

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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Fusion Gene Sequence for KTN1-NADSYN1


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.

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Fusion Gene PPI Analysis for KTN1-NADSYN1


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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Related Drugs for KTN1-NADSYN1


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for KTN1-NADSYN1


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