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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:NAA10-CD44 (FusionGDB2 ID:56930)

Fusion Gene Summary for NAA10-CD44

check button Fusion gene summary
Fusion gene informationFusion gene name: NAA10-CD44
Fusion gene ID: 56930
HgeneTgene
Gene symbol

NAA10

CD44

Gene ID

8260

960

Gene nameN-alpha-acetyltransferase 10, NatA catalytic subunitCD44 molecule (Indian blood group)
SynonymsARD1|ARD1A|ARD1P|DXS707|MCOPS1|NATD|OGDNS|TE2|hARD1CDW44|CSPG8|ECMR-III|HCELL|HUTCH-I|IN|LHR|MC56|MDU2|MDU3|MIC4|Pgp1
Cytomap

Xq28

11p13

Type of geneprotein-codingprotein-coding
DescriptionN-alpha-acetyltransferase 10ARD1 homolog A, N-acetyltransferaseN-acetyltransferase ARD1, human homolog ofN-terminal acetyltransferase complex ARD1 subunit homolog Aarrest defective protein 1natA catalytic subunit Naa10CD44 antigenGP90 lymphocyte homing/adhesion receptorHermes antigenIndian blood group antigencell surface glycoprotein CD44chondroitin sulfate proteoglycan 8epicanextracellular matrix receptor IIIhematopoietic cell E- and L-selectin ligandheparan
Modification date2020032820200329
UniProtAcc

P41227

P16070

Ensembl transtripts involved in fusion geneENST00000370009, ENST00000370015, 
ENST00000393710, ENST00000393712, 
ENST00000464845, 		ENST00000263398, 
ENST00000428726, ENST00000433892, 
ENST00000278386, ENST00000352818, 
ENST00000360158, ENST00000415148, 
ENST00000433354, ENST00000434472, 
ENST00000437706, ENST00000449691, 
ENST00000526025, ENST00000526669, 
ENST00000528922, 
Fusion gene scores* DoF score5 X 5 X 4=10012 X 14 X 4=672
# samples 516
** MAII scorelog2(5/100*10)=-1
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(16/672*10)=-2.0703893278914
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: NAA10 [Title/Abstract] AND CD44 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointNAA10(153197866)-CD44(35251215), # 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
HgeneNAA10

GO:0006473

protein acetylation

27708256

HgeneNAA10

GO:0006474

N-terminal protein amino acid acetylation

15496142|19480662|25489052

HgeneNAA10

GO:2000719

negative regulation of maintenance of mitotic sister chromatid cohesion, centromeric

27422821

TgeneCD44

GO:0007155

cell adhesion

19703720

TgeneCD44

GO:0016477

cell migration

22726066

TgeneCD44

GO:0030214

hyaluronan catabolic process

17170110

TgeneCD44

GO:0033138

positive regulation of peptidyl-serine phosphorylation

17045821

TgeneCD44

GO:0042110

T cell activation

7528188

TgeneCD44

GO:0043518

negative regulation of DNA damage response, signal transduction by p53 class mediator

17045821

TgeneCD44

GO:0044344

cellular response to fibroblast growth factor stimulus

19577615

TgeneCD44

GO:0050731

positive regulation of peptidyl-tyrosine phosphorylation

17045821

TgeneCD44

GO:0070374

positive regulation of ERK1 and ERK2 cascade

17045821

TgeneCD44

GO:1902166

negative regulation of intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator

17045821


check buttonFusion gene breakpoints across NAA10 (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 CD44 (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
ChiTaRS5.0N/ABP270776NAA10chrX

153197866

-CD44chr11

35251215

+


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Fusion Gene ORF analysis for NAA10-CD44

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-3UTRENST00000370009ENST00000263398NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000370009ENST00000428726NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000370009ENST00000433892NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000370015ENST00000263398NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000370015ENST00000428726NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000370015ENST00000433892NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000393710ENST00000263398NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000393710ENST00000428726NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000393710ENST00000433892NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000393712ENST00000263398NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000393712ENST00000428726NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000393712ENST00000433892NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000464845ENST00000263398NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000464845ENST00000428726NAA10chrX

153197866

-CD44chr11

35251215

+
intron-3UTRENST00000464845ENST00000433892NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370009ENST00000278386NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370009ENST00000352818NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370009ENST00000360158NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370009ENST00000415148NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370009ENST00000433354NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370009ENST00000434472NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370009ENST00000437706NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370009ENST00000449691NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370009ENST00000526025NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370009ENST00000526669NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370009ENST00000528922NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370015ENST00000278386NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370015ENST00000352818NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370015ENST00000360158NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370015ENST00000415148NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370015ENST00000433354NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370015ENST00000434472NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370015ENST00000437706NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370015ENST00000449691NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370015ENST00000526025NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370015ENST00000526669NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000370015ENST00000528922NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393710ENST00000278386NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393710ENST00000352818NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393710ENST00000360158NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393710ENST00000415148NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393710ENST00000433354NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393710ENST00000434472NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393710ENST00000437706NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393710ENST00000449691NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393710ENST00000526025NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393710ENST00000526669NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393710ENST00000528922NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393712ENST00000278386NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393712ENST00000352818NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393712ENST00000360158NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393712ENST00000415148NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393712ENST00000433354NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393712ENST00000434472NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393712ENST00000437706NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393712ENST00000449691NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393712ENST00000526025NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393712ENST00000526669NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000393712ENST00000528922NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000464845ENST00000278386NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000464845ENST00000352818NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000464845ENST00000360158NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000464845ENST00000415148NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000464845ENST00000433354NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000464845ENST00000434472NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000464845ENST00000437706NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000464845ENST00000449691NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000464845ENST00000526025NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000464845ENST00000526669NAA10chrX

153197866

-CD44chr11

35251215

+
intron-intronENST00000464845ENST00000528922NAA10chrX

153197866

-CD44chr11

35251215

+

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 NAA10-CD44


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 NAA10-CD44


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/:153197866/:35251215)
- 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
NAA10

P41227

CD44

P16070

FUNCTION: Catalytic subunit of the N-terminal acetyltransferase A (NatA) complex which displays alpha (N-terminal) acetyltransferase activity (PubMed:15496142, PubMed:19826488, PubMed:19420222, PubMed:20145209, PubMed:27708256, PubMed:25489052, PubMed:29754825). Acetylates amino termini that are devoid of initiator methionine (PubMed:19420222). The alpha (N-terminal) acetyltransferase activity may be important for vascular, hematopoietic and neuronal growth and development. Without NAA15, displays epsilon (internal) acetyltransferase activity towards HIF1A, thereby promoting its degradation (PubMed:12464182). Represses MYLK kinase activity by acetylation, and thus represses tumor cell migration (PubMed:19826488). Acetylates, and stabilizes TSC2, thereby repressing mTOR activity and suppressing cancer development (PubMed:20145209). Acetylates HSPA1A and HSPA1B at 'Lys-77' which enhances its chaperone activity and leads to preferential binding to co-chaperone HOPX (PubMed:27708256). Acetylates HIST1H4A (PubMed:29754825). Acts as a negative regulator of sister chromatid cohesion during mitosis (PubMed:27422821). {ECO:0000269|PubMed:12464182, ECO:0000269|PubMed:15496142, ECO:0000269|PubMed:19420222, ECO:0000269|PubMed:19826488, ECO:0000269|PubMed:20145209, ECO:0000269|PubMed:25489052, ECO:0000269|PubMed:27422821, ECO:0000269|PubMed:27708256, ECO:0000269|PubMed:29754825}.FUNCTION: Cell-surface receptor that plays a role in cell-cell interactions, cell adhesion and migration, helping them to sense and respond to changes in the tissue microenvironment (PubMed:16541107, PubMed:19703720, PubMed:22726066). Participates thereby in a wide variety of cellular functions including the activation, recirculation and homing of T-lymphocytes, hematopoiesis, inflammation and response to bacterial infection (PubMed:7528188). Engages, through its ectodomain, extracellular matrix components such as hyaluronan/HA, collagen, growth factors, cytokines or proteases and serves as a platform for signal transduction by assembling, via its cytoplasmic domain, protein complexes containing receptor kinases and membrane proteases (PubMed:18757307, PubMed:23589287). Such effectors include PKN2, the RhoGTPases RAC1 and RHOA, Rho-kinases and phospholipase C that coordinate signaling pathways promoting calcium mobilization and actin-mediated cytoskeleton reorganization essential for cell migration and adhesion (PubMed:15123640). {ECO:0000269|PubMed:15123640, ECO:0000269|PubMed:16541107, ECO:0000269|PubMed:18757307, ECO:0000269|PubMed:19703720, ECO:0000269|PubMed:22726066, ECO:0000269|PubMed:23589287, ECO:0000269|PubMed:7528188}.

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 NAA10-CD44


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 NAA10-CD44


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 NAA10-CD44


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 NAA10-CD44


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