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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:TRMU-ST13

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: TRMU-ST13
FusionPDB ID: 94319
FusionGDB2.0 ID: 94319
HgeneTgene
Gene symbol

TRMU

ST13

Gene ID

55687

6767

Gene nametRNA 5-methylaminomethyl-2-thiouridylate methyltransferaseST13 Hsp70 interacting protein
SynonymsLCAL3|MTO2|MTU1|TRMT|TRMT1AAG2|FAM10A1|FAM10A4|HIP|HOP|HSPABP|HSPABP1|P48|PRO0786|SNC6
Cytomap

22q13.31

22q13.2

Type of geneprotein-codingprotein-coding
Descriptionmitochondrial tRNA-specific 2-thiouridylase 1MTO2 homologlung cancer associated lncRNA 3mitochondrial 5-methylaminomethyl-2-thiouridylate-methyltransferasehsc70-interacting proteinHsp70-interacting proteinaging-associated protein 2heat shock 70kD protein binding proteinprogesterone receptor-associated p48 proteinputative tumor suppressor ST13renal carcinoma antigen NY-REN-33suppression of tumorigenic
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST idsENST00000424260, ENST00000290846, 
ENST00000381019, ENST00000476901, 
ENST00000216218, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score11 X 8 X 10=8809 X 8 X 6=432
# samples 1613
** MAII scorelog2(16/880*10)=-2.4594316186373
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(13/432*10)=-1.73251968913501
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)

PubMed: TRMU [Title/Abstract] AND ST13 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)TRMU(46748227)-ST13(41231891), # samples:2
TRMU(46749764)-ST13(41231891), # samples:2
Anticipated loss of major functional domain due to fusion event.TRMU-ST13 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.
TRMU-ST13 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.
TRMU-ST13 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.
TRMU-ST13 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.
TRMU-ST13 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
TRMU-ST13 seems lost the major protein functional domain in Tgene partner, which is a tumor suppressor due to the frame-shifted 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

check buttonFusion gene breakpoints across TRMU (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 ST13 (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
ChimerDB4SKCMTCGA-D3-A2JC-06ATRMUchr22

46742441

+ST13chr22

41231891

-
ChimerDB4SKCMTCGA-D3-A2JC-06ATRMUchr22

46748227

+ST13chr22

41231891

-
ChimerDB4SKCMTCGA-D3-A2JC-06ATRMUchr22

46749764

+ST13chr22

41231891

-
ChimerDB4SKCMTCGA-D3-A2JCTRMUchr22

46749764

+ST13chr22

41231891

-


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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)
ENST00000290846TRMUchr2246748227+ENST00000216218ST13chr2241231891-384311123101839509
ENST00000381019TRMUchr2246748227+ENST00000216218ST13chr2241231891-352379251519504
ENST00000290846TRMUchr2246742441+ENST00000216218ST13chr2241231891-35498183101545411
ENST00000381019TRMUchr2246742441+ENST00000216218ST13chr2241231891-322949851225406
ENST00000424260TRMUchr2246742441+ENST00000216218ST13chr2241231891-33125812081308366

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
ENST00000290846ENST00000216218TRMUchr2246748227+ST13chr2241231891-0.0001359090.9998641
ENST00000381019ENST00000216218TRMUchr2246748227+ST13chr2241231891-0.0001206030.99987936
ENST00000290846ENST00000216218TRMUchr2246742441+ST13chr2241231891-0.0001108210.99988914
ENST00000381019ENST00000216218TRMUchr2246742441+ST13chr2241231891-9.82E-050.9999018
ENST00000424260ENST00000216218TRMUchr2246742441+ST13chr2241231891-0.000125770.99987423

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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

>94319_94319_1_TRMU-ST13_TRMU_chr22_46742441_ENST00000290846_ST13_chr22_41231891_ENST00000216218_length(amino acids)=411AA_BP=169
MQLAKLGDWRMQALRHVVCALSGGVDSAVAALLLRRRGYQVTGVFMKNWDSLDEHGVCTADKDCEDAYRVCQILDIPFHQVSYVKEYWND
VFSDFLNEYEKGRTPNPDIVCNKHIKFSCFFHYAVDNLGADAIATGHYARTSLEDEEVFEQKHVKKPEGLFRNRFEVRNGELQKAIDLFT
DAIKLNPRLAILYAKRASVFVKLQKPNAAIRDCDRAIEINPDSAQPYKWRGKAHRLLGHWEEAAHDLALACKLDYDEDASAMLKEVQPRA
QKIAEHRRKYERKREEREIKERIERVKKAREEHERAQREEEARRQSGAQYGSFPGGFPGGMPGNFPGGMPGMGGGMPGMAGMPGLNEILS

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

>94319_94319_2_TRMU-ST13_TRMU_chr22_46742441_ENST00000381019_ST13_chr22_41231891_ENST00000216218_length(amino acids)=406AA_BP=164
MGDWRMQALRHVVCALSGGVDSAVAALLLRRRGYQVTGVFMKNWDSLDEHGVCTADKDCEDAYRVCQILDIPFHQVSYVKEYWNDVFSDF
LNEYEKGRTPNPDIVCNKHIKFSCFFHYAVDNLGADAIATGHYARTSLEDEEVFEQKHVKKPEGLFRNRFEVRNGELQKAIDLFTDAIKL
NPRLAILYAKRASVFVKLQKPNAAIRDCDRAIEINPDSAQPYKWRGKAHRLLGHWEEAAHDLALACKLDYDEDASAMLKEVQPRAQKIAE
HRRKYERKREEREIKERIERVKKAREEHERAQREEEARRQSGAQYGSFPGGFPGGMPGNFPGGMPGMGGGMPGMAGMPGLNEILSDPEVL

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

>94319_94319_3_TRMU-ST13_TRMU_chr22_46742441_ENST00000424260_ST13_chr22_41231891_ENST00000216218_length(amino acids)=366AA_BP=124
MKNWDSLDEHGVCTADKDCEDAYRVCQILDIPFHQVSYVKEYWNDVFSDFLNEYEKGRTPNPDIVCNKHIKFSCFFHYAVDNLGADAIAT
GHYARTSLEDEEVFEQKHVKKPEGLFRNRFEVRNGELQKAIDLFTDAIKLNPRLAILYAKRASVFVKLQKPNAAIRDCDRAIEINPDSAQ
PYKWRGKAHRLLGHWEEAAHDLALACKLDYDEDASAMLKEVQPRAQKIAEHRRKYERKREEREIKERIERVKKAREEHERAQREEEARRQ
SGAQYGSFPGGFPGGMPGNFPGGMPGMGGGMPGMAGMPGLNEILSDPEVLAAMQDPEVMVAFQDVAQNPANMSKYQSNPKVMNLISKLSA

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

>94319_94319_4_TRMU-ST13_TRMU_chr22_46748227_ENST00000290846_ST13_chr22_41231891_ENST00000216218_length(amino acids)=509AA_BP=267
MQLAKLGDWRMQALRHVVCALSGGVDSAVAALLLRRRGYQVTGVFMKNWDSLDEHGVCTADKDCEDAYRVCQILDIPFHQVSYVKEYWND
VFSDFLNEYEKGRTPNPDIVCNKHIKFSCFFHYAVDNLGADAIATGHYARTSLEDEEVFEQKHVKKPEGLFRNRFEVRNAVKLLQAADSF
KDQTFFLSQVSQDALRRTIFPLGGLTKEFVKKIAAENRLHHVLQKKESMGMCFIGKRNFEHFLLQYLQPRPGHFISIEDNKVLGTHKGEL
QKAIDLFTDAIKLNPRLAILYAKRASVFVKLQKPNAAIRDCDRAIEINPDSAQPYKWRGKAHRLLGHWEEAAHDLALACKLDYDEDASAM
LKEVQPRAQKIAEHRRKYERKREEREIKERIERVKKAREEHERAQREEEARRQSGAQYGSFPGGFPGGMPGNFPGGMPGMGGGMPGMAGM

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

>94319_94319_5_TRMU-ST13_TRMU_chr22_46748227_ENST00000381019_ST13_chr22_41231891_ENST00000216218_length(amino acids)=504AA_BP=262
MGDWRMQALRHVVCALSGGVDSAVAALLLRRRGYQVTGVFMKNWDSLDEHGVCTADKDCEDAYRVCQILDIPFHQVSYVKEYWNDVFSDF
LNEYEKGRTPNPDIVCNKHIKFSCFFHYAVDNLGADAIATGHYARTSLEDEEVFEQKHVKKPEGLFRNRFEVRNAVKLLQAADSFKDQTF
FLSQVSQDALRRTIFPLGGLTKEFVKKIAAENRLHHVLQKKESMGMCFIGKRNFEHFLLQYLQPRPGHFISIEDNKVLGTHKGELQKAID
LFTDAIKLNPRLAILYAKRASVFVKLQKPNAAIRDCDRAIEINPDSAQPYKWRGKAHRLLGHWEEAAHDLALACKLDYDEDASAMLKEVQ
PRAQKIAEHRRKYERKREEREIKERIERVKKAREEHERAQREEEARRQSGAQYGSFPGGFPGGMPGNFPGGMPGMGGGMPGMAGMPGLNE

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

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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/chr22:46748227/chr22:41231891)
- 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
..
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: 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.

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
HgeneTRMUchr22:46742441chr22:41231891ENST00000290846+41110_17159.33333333333334422.0Nucleotide bindingATP
HgeneTRMUchr22:46742441chr22:41231891ENST00000381019+41010_17159.33333333333334377.0Nucleotide bindingATP
HgeneTRMUchr22:46748227chr22:41231891ENST00000290846+71110_17257.3333333333333422.0Nucleotide bindingATP
HgeneTRMUchr22:46748227chr22:41231891ENST00000381019+71010_17257.3333333333333377.0Nucleotide bindingATP
TgeneST13chr22:46742441chr22:41231891ENST00000216218412279_312127.33333333333333370.0Compositional biasNote=Gly/Met/Pro-rich
TgeneST13chr22:46748227chr22:41231891ENST00000216218412279_312127.33333333333333370.0Compositional biasNote=Gly/Met/Pro-rich
TgeneST13chr22:46742441chr22:41231891ENST00000216218412319_358127.33333333333333370.0DomainNote=STI1
TgeneST13chr22:46748227chr22:41231891ENST00000216218412319_358127.33333333333333370.0DomainNote=STI1
TgeneST13chr22:46742441chr22:41231891ENST00000216218412148_181127.33333333333333370.0RepeatNote=TPR 2
TgeneST13chr22:46742441chr22:41231891ENST00000216218412182_215127.33333333333333370.0RepeatNote=TPR 3
TgeneST13chr22:46748227chr22:41231891ENST00000216218412148_181127.33333333333333370.0RepeatNote=TPR 2
TgeneST13chr22:46748227chr22:41231891ENST00000216218412182_215127.33333333333333370.0RepeatNote=TPR 3

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
TgeneST13chr22:46742441chr22:41231891ENST00000216218412114_147127.33333333333333370.0RepeatNote=TPR 1
TgeneST13chr22:46748227chr22:41231891ENST00000216218412114_147127.33333333333333370.0RepeatNote=TPR 1


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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
TRMU
ST13


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
HgeneTRMUchr22:46742441chr22:41231891ENST00000290846+411171_173159.33333333333334422.0tRNA
HgeneTRMUchr22:46742441chr22:41231891ENST00000290846+411334_335159.33333333333334422.0tRNA
HgeneTRMUchr22:46742441chr22:41231891ENST00000381019+410171_173159.33333333333334377.0tRNA
HgeneTRMUchr22:46742441chr22:41231891ENST00000381019+410334_335159.33333333333334377.0tRNA
HgeneTRMUchr22:46748227chr22:41231891ENST00000290846+711334_335257.3333333333333422.0tRNA
HgeneTRMUchr22:46748227chr22:41231891ENST00000381019+710334_335257.3333333333333377.0tRNA


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Related Drugs to TRMU-ST13


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 TRMU-ST13


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