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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:MYO9A-HEXA (FusionGDB2 ID:56774)

Fusion Gene Summary for MYO9A-HEXA

check button Fusion gene summary
Fusion gene informationFusion gene name: MYO9A-HEXA
Fusion gene ID: 56774
HgeneTgene
Gene symbol

MYO9A

HEXA

Gene ID

4649

3073

Gene namemyosin IXAhexosaminidase subunit alpha
SynonymsCMS24TSD
Cytomap

15q23

15q23

Type of geneprotein-codingprotein-coding
Descriptionunconventional myosin-IXamyosin-IXaunconventional myosin-9abeta-hexosaminidase subunit alphaN-acetyl-beta-glucosaminidase subunit alphabeta-N-acetylhexosaminidase subunit alphahexosaminidase A (alpha polypeptide)hexosaminidase subunit A
Modification date2020031320200315
UniProtAcc

B2RTY4

P06865

Ensembl transtripts involved in fusion geneENST00000356056, ENST00000424560, 
ENST00000444904, ENST00000564571, 
ENST00000566885, ENST00000563542, 
ENST00000268097, ENST00000566304, 
ENST00000429918, ENST00000457859, 
ENST00000567159, ENST00000567213, 
Fusion gene scores* DoF score15 X 14 X 8=16803 X 5 X 3=45
# samples 215
** MAII scorelog2(21/1680*10)=-3
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(5/45*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: MYO9A [Title/Abstract] AND HEXA [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointHEXA(72668061)-MYO9A(72208833), # samples:2
MYO9A(72410021)-HEXA(72648958), # samples:2
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
TgeneHEXA

GO:0006024

glycosaminoglycan biosynthetic process

25645918


check buttonFusion gene breakpoints across MYO9A (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 HEXA (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-LL-A5YP-01AMYO9Achr15

72410021

-HEXAchr15

72648958

-
ChimerDB4LUSCTCGA-66-2756MYO9Achr15

72410021

-HEXAchr15

72643575

-


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Fusion Gene ORF analysis for MYO9A-HEXA

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
5UTR-3CDSENST00000356056ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-3CDSENST00000356056ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-3CDSENST00000356056ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-3CDSENST00000356056ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-3CDSENST00000424560ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-3CDSENST00000424560ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-3CDSENST00000424560ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-3CDSENST00000424560ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-3CDSENST00000444904ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-3CDSENST00000444904ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-3CDSENST00000444904ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-3CDSENST00000444904ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-3CDSENST00000564571ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-3CDSENST00000564571ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-3CDSENST00000564571ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-3CDSENST00000564571ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-3CDSENST00000566885ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-3CDSENST00000566885ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-3CDSENST00000566885ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-3CDSENST00000566885ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000356056ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000356056ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000356056ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000356056ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000356056ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000356056ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000424560ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000424560ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000424560ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000424560ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000424560ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000424560ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000444904ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000444904ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000444904ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000444904ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000444904ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000444904ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000564571ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000564571ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000564571ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000564571ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000564571ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000564571ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000566885ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000566885ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000566885ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000566885ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-5UTRENST00000566885ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-5UTRENST00000566885ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-intronENST00000356056ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-intronENST00000356056ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-intronENST00000424560ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-intronENST00000424560ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-intronENST00000444904ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-intronENST00000444904ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-intronENST00000564571ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-intronENST00000564571ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72643575

-
5UTR-intronENST00000566885ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72648958

-
5UTR-intronENST00000566885ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72643575

-
intron-3CDSENST00000563542ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72648958

-
intron-3CDSENST00000563542ENST00000268097MYO9Achr15

72410021

-HEXAchr15

72643575

-
intron-3CDSENST00000563542ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72648958

-
intron-3CDSENST00000563542ENST00000566304MYO9Achr15

72410021

-HEXAchr15

72643575

-
intron-5UTRENST00000563542ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72648958

-
intron-5UTRENST00000563542ENST00000429918MYO9Achr15

72410021

-HEXAchr15

72643575

-
intron-5UTRENST00000563542ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72648958

-
intron-5UTRENST00000563542ENST00000457859MYO9Achr15

72410021

-HEXAchr15

72643575

-
intron-5UTRENST00000563542ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72648958

-
intron-5UTRENST00000563542ENST00000567159MYO9Achr15

72410021

-HEXAchr15

72643575

-
intron-intronENST00000563542ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72648958

-
intron-intronENST00000563542ENST00000567213MYO9Achr15

72410021

-HEXAchr15

72643575

-

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 MYO9A-HEXA


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 MYO9A-HEXA


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/:72668061/:72208833)
- 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
MYO9A

B2RTY4

HEXA

P06865

FUNCTION: Myosins are actin-based motor molecules with ATPase activity. Unconventional myosins serve in intracellular movements. Regulates Rho by stimulating it's GTPase activity in neurons. Required for the regulation of neurite branching and motor neuron axon guidance (By similarity). {ECO:0000250|UniProtKB:Q8C170, ECO:0000250|UniProtKB:Q9Z1N3}.FUNCTION: Hydrolyzes the non-reducing end N-acetyl-D-hexosamine and/or sulfated N-acetyl-D-hexosamine of glycoconjugates, such as the oligosaccharide moieties from proteins and neutral glycolipids, or from certain mucopolysaccharides (PubMed:11707436, PubMed:9694901, PubMed:8672428, PubMed:8123671). The isozyme S is as active as the isozyme A on the anionic bis-sulfated glycans, the chondroitin-6-sulfate trisaccharide (C6S-3), and the dermatan sulfate pentasaccharide, and the sulfated glycosphingolipid SM2 (PubMed:11707436). The isozyme B does not hydrolyze each of these substrates, however hydrolyzes efficiently neutral oligosaccharide (PubMed:11707436). Only the isozyme A is responsible for the degradation of GM2 gangliosides in the presence of GM2A (PubMed:9694901, PubMed:8672428, PubMed:8123671). {ECO:0000269|PubMed:11707436, ECO:0000269|PubMed:8123671, ECO:0000269|PubMed:8672428, ECO:0000269|PubMed:9694901}.

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 MYO9A-HEXA


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 MYO9A-HEXA


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 MYO9A-HEXA


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 MYO9A-HEXA


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