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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:CLUAP1-NAA60 (FusionGDB2 ID:17422)

Fusion Gene Summary for CLUAP1-NAA60

check button Fusion gene summary
Fusion gene informationFusion gene name: CLUAP1-NAA60
Fusion gene ID: 17422
HgeneTgene
Gene symbol

CLUAP1

NAA60

Gene ID

23059

79903

Gene nameclusterin associated protein 1N-alpha-acetyltransferase 60, NatF catalytic subunit
SynonymsCFAP22|FAP22|IFT38HAT4|NAT15|NatF|hNaa60
Cytomap

16p13.3

16p13.3

Type of geneprotein-codingprotein-coding
Descriptionclusterin-associated protein 1cilia and flagella associated protein 22flagellar associated protein 22, qilin-like protein, homologN-alpha-acetyltransferase 60N-acetyltransferase 15 (GCN5-related, putative)N-alpha-acetyltransferase Fepididymis secretory sperm binding proteinhistone acetyltransferase type B protein 4
Modification date2020031320200313
UniProtAcc

Q96AJ1

Q9H7X0

Ensembl transtripts involved in fusion geneENST00000341633, ENST00000571025, 
ENST00000576634, ENST00000417763, 
ENST00000445795, ENST00000572600, 
ENST00000360862, ENST00000414063, 
ENST00000421765, ENST00000573580, 
ENST00000608993, ENST00000610180, 
ENST00000407558, ENST00000424546, 
ENST00000570551, ENST00000570819, 
ENST00000572584, ENST00000572942, 
ENST00000575076, ENST00000576906, 
ENST00000576916, ENST00000577013, 
ENST00000608722, 
Fusion gene scores* DoF score4 X 4 X 2=324 X 3 X 4=48
# samples 44
** MAII scorelog2(4/32*10)=0.321928094887362
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CLUAP1 [Title/Abstract] AND NAA60 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCLUAP1(3551089)-NAA60(3529471), # samples:4
NAA60(3508181)-CLUAP1(3562382), # 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
TgeneNAA60

GO:0006334

nucleosome assembly

21981917

TgeneNAA60

GO:0006474

N-terminal protein amino acid acetylation

25732826|27320834|27550639

TgeneNAA60

GO:0017196

N-terminal peptidyl-methionine acetylation

21750686

TgeneNAA60

GO:0043967

histone H4 acetylation

21981917


check buttonFusion gene breakpoints across CLUAP1 (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 NAA60 (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
ChimerDB4PRADTCGA-J4-A6G1-01ACLUAP1chr16

3551089

-NAA60chr16

3529471

+
ChimerDB4PRADTCGA-J4-A6G1-01ACLUAP1chr16

3551089

+NAA60chr16

3529471

+
ChimerDB4PRADTCGA-J4-A6G1CLUAP1chr16

3551089

+NAA60chr16

3529471

+


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Fusion Gene ORF analysis for CLUAP1-NAA60

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-5UTRENST00000341633ENST00000360862CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000341633ENST00000414063CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000341633ENST00000421765CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000341633ENST00000573580CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000341633ENST00000608993CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000341633ENST00000610180CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000571025ENST00000360862CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000571025ENST00000414063CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000571025ENST00000421765CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000571025ENST00000573580CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000571025ENST00000608993CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000571025ENST00000610180CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000576634ENST00000360862CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000576634ENST00000414063CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000576634ENST00000421765CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000576634ENST00000573580CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000576634ENST00000608993CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-5UTRENST00000576634ENST00000610180CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000341633ENST00000407558CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000341633ENST00000424546CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000341633ENST00000570551CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000341633ENST00000570819CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000341633ENST00000572584CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000341633ENST00000572942CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000341633ENST00000575076CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000341633ENST00000576906CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000341633ENST00000576916CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000341633ENST00000577013CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000341633ENST00000608722CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000571025ENST00000407558CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000571025ENST00000424546CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000571025ENST00000570551CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000571025ENST00000570819CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000571025ENST00000572584CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000571025ENST00000572942CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000571025ENST00000575076CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000571025ENST00000576906CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000571025ENST00000576916CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000571025ENST00000577013CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000571025ENST00000608722CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000576634ENST00000407558CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000576634ENST00000424546CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000576634ENST00000570551CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000576634ENST00000570819CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000576634ENST00000572584CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000576634ENST00000572942CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000576634ENST00000575076CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000576634ENST00000576906CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000576634ENST00000576916CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000576634ENST00000577013CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5CDS-intronENST00000576634ENST00000608722CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-5UTRENST00000417763ENST00000360862CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-5UTRENST00000417763ENST00000414063CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-5UTRENST00000417763ENST00000421765CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-5UTRENST00000417763ENST00000573580CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-5UTRENST00000417763ENST00000608993CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-5UTRENST00000417763ENST00000610180CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-intronENST00000417763ENST00000407558CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-intronENST00000417763ENST00000424546CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-intronENST00000417763ENST00000570551CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-intronENST00000417763ENST00000570819CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-intronENST00000417763ENST00000572584CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-intronENST00000417763ENST00000572942CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-intronENST00000417763ENST00000575076CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-intronENST00000417763ENST00000576906CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-intronENST00000417763ENST00000576916CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-intronENST00000417763ENST00000577013CLUAP1chr16

3551089

+NAA60chr16

3529471

+
5UTR-intronENST00000417763ENST00000608722CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000445795ENST00000360862CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000445795ENST00000414063CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000445795ENST00000421765CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000445795ENST00000573580CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000445795ENST00000608993CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000445795ENST00000610180CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000572600ENST00000360862CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000572600ENST00000414063CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000572600ENST00000421765CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000572600ENST00000573580CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000572600ENST00000608993CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-5UTRENST00000572600ENST00000610180CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000445795ENST00000407558CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000445795ENST00000424546CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000445795ENST00000570551CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000445795ENST00000570819CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000445795ENST00000572584CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000445795ENST00000572942CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000445795ENST00000575076CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000445795ENST00000576906CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000445795ENST00000576916CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000445795ENST00000577013CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000445795ENST00000608722CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000572600ENST00000407558CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000572600ENST00000424546CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000572600ENST00000570551CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000572600ENST00000570819CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000572600ENST00000572584CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000572600ENST00000572942CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000572600ENST00000575076CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000572600ENST00000576906CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000572600ENST00000576916CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000572600ENST00000577013CLUAP1chr16

3551089

+NAA60chr16

3529471

+
intron-intronENST00000572600ENST00000608722CLUAP1chr16

3551089

+NAA60chr16

3529471

+

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 CLUAP1-NAA60


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)
CLUAP1chr163551089+NAA60chr163529470+2.71E-060.99999726
CLUAP1chr163551089+NAA60chr163529470+2.71E-060.99999726
CLUAP1chr163551089+NAA60chr163529470+2.71E-060.99999726
CLUAP1chr163551089+NAA60chr163529470+2.71E-060.99999726

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.
genomic feature of top 1%

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Fusion Protein Features for CLUAP1-NAA60


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/:3551089/:3529471)
- 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
CLUAP1

Q96AJ1

NAA60

Q9H7X0

FUNCTION: Required for cilia biogenesis. Appears to function within the multiple intraflagellar transport complex B (IFT-B). Key regulator of hedgehog signaling. {ECO:0000250|UniProtKB:Q8R3P7}.FUNCTION: N-alpha-acetyltransferase that specifically mediates the acetylation of N-terminal residues of the transmembrane proteins, with a strong preference for N-termini facing the cytosol (PubMed:25732826). Displays N-terminal acetyltransferase activity towards a range of N-terminal sequences including those starting with Met-Lys, Met-Val, Met-Ala and Met-Met (PubMed:21750686, PubMed:25732826, PubMed:27550639, PubMed:27320834). Required for normal chromosomal segregation during anaphase (PubMed:21750686). May also show histone acetyltransferase activity; such results are however unclear in vivo and would require additional experimental evidences (PubMed:21981917). {ECO:0000269|PubMed:21750686, ECO:0000269|PubMed:25732826, ECO:0000269|PubMed:27320834, ECO:0000269|PubMed:27550639, ECO:0000305|PubMed:21981917}.

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 CLUAP1-NAA60


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 CLUAP1-NAA60


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 CLUAP1-NAA60


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 CLUAP1-NAA60


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