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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:TPM2-MYH9

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: TPM2-MYH9
FusionPDB ID: 93364
FusionGDB2.0 ID: 93364
HgeneTgene
Gene symbol

TPM2

MYH9

Gene ID

7169

4627

Gene nametropomyosin 2myosin heavy chain 9
SynonymsAMCD1|DA1|DA2B|DA2B4|HEL-S-273|NEM4|TMSBBDPLT6|DFNA17|EPSTS|FTNS|MATINS|MHA|NMHC-II-A|NMMHC-IIA|NMMHCA
Cytomap

9p13.3

22q12.3

Type of geneprotein-codingprotein-coding
Descriptiontropomyosin beta chainepididymis secretory protein Li 273nemaline myopathy type 4tropomyosin 2 (beta)myosin-9cellular myosin heavy chain, type Amyosin, heavy chain 9, non-musclenon-muscle myosin heavy chain 9non-muscle myosin heavy chain Anon-muscle myosin heavy chain IIanon-muscle myosin heavy polypeptide 9nonmuscle myosin heavy chain II-A
Modification date2020032820200315
UniProtAcc.

P35579

Ensembl transtripts involved in fusion geneENST idsENST00000329305, ENST00000360958, 
ENST00000378292, ENST00000378300, 
ENST00000401701, ENST00000475726, 
ENST00000216181, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score19 X 15 X 5=142544 X 46 X 15=30360
# samples 2156
** MAII scorelog2(21/1425*10)=-2.76250068627334
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(56/30360*10)=-5.76060115335786
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: TPM2 [Title/Abstract] AND MYH9 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)TPM2(35689701)-MYH9(36696223), # samples:1
TPM2(35689768)-MYH9(36695090), # samples:1
Anticipated loss of major functional domain due to fusion event.TPM2-MYH9 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
TPM2-MYH9 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
* 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
HgeneTPM2

GO:0043462

regulation of ATPase activity

17194691

TgeneMYH9

GO:0001525

angiogenesis

16403913

TgeneMYH9

GO:0001778

plasma membrane repair

27325790

TgeneMYH9

GO:0006509

membrane protein ectodomain proteolysis

16186248

TgeneMYH9

GO:0030048

actin filament-based movement

12237319|15845534

TgeneMYH9

GO:0031032

actomyosin structure organization

24072716


check buttonFusion gene breakpoints across TPM2 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across MYH9 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
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
ChimerDB4SARCTCGA-K1-A6RT-01ATPM2chr9

35689701

-MYH9chr22

36696223

-
ChiTaRS5.0N/ABF840453TPM2chr9

35689768

-MYH9chr22

36695090

-


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)
BP loci
(transcript)
Predicted start
(transcript)
Predicted stop
(transcript)
Seq length
(amino acids)
ENST00000378300TPM2chr935689701-ENST00000216181MYH9chr2236696223-454520024153851478
ENST00000378292TPM2chr935689701-ENST00000216181MYH9chr2236696223-5662131735324968478
ENST00000329305TPM2chr935689701-ENST00000216181MYH9chr2236696223-455521024253861478
ENST00000360958TPM2chr935689701-ENST00000216181MYH9chr2236696223-456421924343870478

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
ENST00000378300ENST00000216181TPM2chr935689701-MYH9chr2236696223-0.0023540140.99764603
ENST00000378292ENST00000216181TPM2chr935689701-MYH9chr2236696223-0.0025985470.9974015
ENST00000329305ENST00000216181TPM2chr935689701-MYH9chr2236696223-0.0022932030.9977068
ENST00000360958ENST00000216181TPM2chr935689701-MYH9chr2236696223-0.002271950.99772805

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>93364_93364_1_TPM2-MYH9_TPM2_chr9_35689701_ENST00000329305_MYH9_chr22_36696223_ENST00000216181_length(amino acids)=478AA_BP=
MKDCMRELDDTRASREEILAQAKENEKKLKSMEAEMIQLQEVREMEAELEDERKQRSMAVAARKKLEMDLKDLEAHIDSANKNRDEAIKQ
LRKLQVHELEKSKRALEQQVEEMKTQLEELEDELQATEDAKLRLEVNLQAMKAQFERDLQGRDEQSEEKKKQLVRQLLAEEKTISAKYAE
ERDRAEAEAREKETKALSLARALEEAMEQKAELERLNKQFRTEMEDLMSSKDDVGKSVADMKKKMEDSVGCLETAEEVKRKLQKDLEGLS
QRHEEKVAAYDKLEKTKTRLQQELDDLLVDLDHQRQSACNLEKKQKKFDQELLQEENRQKLSLSTKLKQVEDEKNSFREQLEEEEEAKHN
LEKQIATLHAQVELDNVTGLLSQSDSKSSKLTKDFSALESQLQDTQVKANLEKAKQTLENERGELANEVKVLLQGKGDSEHKRKKVEAQL

--------------------------------------------------------------

>93364_93364_2_TPM2-MYH9_TPM2_chr9_35689701_ENST00000360958_MYH9_chr22_36696223_ENST00000216181_length(amino acids)=478AA_BP=
MKDCMRELDDTRASREEILAQAKENEKKLKSMEAEMIQLQEVREMEAELEDERKQRSMAVAARKKLEMDLKDLEAHIDSANKNRDEAIKQ
LRKLQVHELEKSKRALEQQVEEMKTQLEELEDELQATEDAKLRLEVNLQAMKAQFERDLQGRDEQSEEKKKQLVRQLLAEEKTISAKYAE
ERDRAEAEAREKETKALSLARALEEAMEQKAELERLNKQFRTEMEDLMSSKDDVGKSVADMKKKMEDSVGCLETAEEVKRKLQKDLEGLS
QRHEEKVAAYDKLEKTKTRLQQELDDLLVDLDHQRQSACNLEKKQKKFDQELLQEENRQKLSLSTKLKQVEDEKNSFREQLEEEEEAKHN
LEKQIATLHAQVELDNVTGLLSQSDSKSSKLTKDFSALESQLQDTQVKANLEKAKQTLENERGELANEVKVLLQGKGDSEHKRKKVEAQL

--------------------------------------------------------------

>93364_93364_3_TPM2-MYH9_TPM2_chr9_35689701_ENST00000378292_MYH9_chr22_36696223_ENST00000216181_length(amino acids)=478AA_BP=
MKDCMRELDDTRASREEILAQAKENEKKLKSMEAEMIQLQEVREMEAELEDERKQRSMAVAARKKLEMDLKDLEAHIDSANKNRDEAIKQ
LRKLQVHELEKSKRALEQQVEEMKTQLEELEDELQATEDAKLRLEVNLQAMKAQFERDLQGRDEQSEEKKKQLVRQLLAEEKTISAKYAE
ERDRAEAEAREKETKALSLARALEEAMEQKAELERLNKQFRTEMEDLMSSKDDVGKSVADMKKKMEDSVGCLETAEEVKRKLQKDLEGLS
QRHEEKVAAYDKLEKTKTRLQQELDDLLVDLDHQRQSACNLEKKQKKFDQELLQEENRQKLSLSTKLKQVEDEKNSFREQLEEEEEAKHN
LEKQIATLHAQVELDNVTGLLSQSDSKSSKLTKDFSALESQLQDTQVKANLEKAKQTLENERGELANEVKVLLQGKGDSEHKRKKVEAQL

--------------------------------------------------------------

>93364_93364_4_TPM2-MYH9_TPM2_chr9_35689701_ENST00000378300_MYH9_chr22_36696223_ENST00000216181_length(amino acids)=478AA_BP=
MKDCMRELDDTRASREEILAQAKENEKKLKSMEAEMIQLQEVREMEAELEDERKQRSMAVAARKKLEMDLKDLEAHIDSANKNRDEAIKQ
LRKLQVHELEKSKRALEQQVEEMKTQLEELEDELQATEDAKLRLEVNLQAMKAQFERDLQGRDEQSEEKKKQLVRQLLAEEKTISAKYAE
ERDRAEAEAREKETKALSLARALEEAMEQKAELERLNKQFRTEMEDLMSSKDDVGKSVADMKKKMEDSVGCLETAEEVKRKLQKDLEGLS
QRHEEKVAAYDKLEKTKTRLQQELDDLLVDLDHQRQSACNLEKKQKKFDQELLQEENRQKLSLSTKLKQVEDEKNSFREQLEEEEEAKHN
LEKQIATLHAQVELDNVTGLLSQSDSKSSKLTKDFSALESQLQDTQVKANLEKAKQTLENERGELANEVKVLLQGKGDSEHKRKKVEAQL

--------------------------------------------------------------

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Fusion Protein Functional Features


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/chr9:35689701/chr22:36696223)
- 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
.MYH9

P35579

FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.FUNCTION: Cellular myosin that appears to play a role in cytokinesis, cell shape, and specialized functions such as secretion and capping. Promotes also cell motility together with S100A4 (PubMed:16707441). During cell spreading, plays an important role in cytoskeleton reorganization, focal contacts formation (in the margins but not the central part of spreading cells), and lamellipodial retraction; this function is mechanically antagonized by MYH10 (PubMed:20052411). {ECO:0000250|UniProtKB:Q8VDD5, ECO:0000269|PubMed:16707441, ECO:0000269|PubMed:20052411}.

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.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneMYH9chr9:35689701chr22:36696223ENST00000216181041837_192601961.0Coiled coilOntology_term=ECO:0000255
TgeneMYH9chr9:35689701chr22:36696223ENST0000021618104127_7701961.0DomainMyosin N-terminal SH3-like
TgeneMYH9chr9:35689701chr22:36696223ENST00000216181041779_80801961.0DomainIQ
TgeneMYH9chr9:35689701chr22:36696223ENST0000021618104181_77601961.0DomainMyosin motor
TgeneMYH9chr9:35689701chr22:36696223ENST00000216181041174_18101961.0Nucleotide bindingATP
TgeneMYH9chr9:35689701chr22:36696223ENST00000216181041654_67601961.0RegionNote=Actin-binding

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneTPM2chr9:35689701chr22:36696223ENST00000360958-191_28438.0285.0Coiled coilOntology_term=ECO:0000250
HgeneTPM2chr9:35689701chr22:36696223ENST00000378292-191_28438.0285.0Coiled coilOntology_term=ECO:0000250


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Fusion Protein-Protein Interaction


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 from validated records (BIOGRID-3.4.160)
GenePPI interactors


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
TPM2
MYH9


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to TPM2-MYH9


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to TPM2-MYH9


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

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