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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:TRMT11-TPD52L1 (FusionGDB2 ID:94293)

Fusion Gene Summary for TRMT11-TPD52L1

check button Fusion gene summary
Fusion gene informationFusion gene name: TRMT11-TPD52L1
Fusion gene ID: 94293
HgeneTgene
Gene symbol

TRMT11

TPD52L1

Gene ID

60487

7164

Gene nametRNA methyltransferase 11 homologTPD52 like 1
SynonymsC6orf75|MDS024|TRM11|TRMT11-1D53|TPD53
Cytomap

6q22.32

6q22.31

Type of geneprotein-codingprotein-coding
DescriptiontRNA (guanine(10)-N2)-methyltransferase homologtRNA guanosine-2'-O-methyltransferase TRM11 homologtumor protein D53tumor protein D52 like 1
Modification date2020031320200327
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000334379, ENST00000368332, 
ENST00000450358, ENST00000489934, 
ENST00000392482, ENST00000524679, 
ENST00000532429, ENST00000534199, 
ENST00000530868, ENST00000304877, 
ENST00000368388, ENST00000368402, 
ENST00000527711, ENST00000528193, 
ENST00000534000, 
Fusion gene scores* DoF score11 X 7 X 7=5398 X 8 X 6=384
# samples 1412
** MAII scorelog2(14/539*10)=-1.94485844580754
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(12/384*10)=-1.67807190511264
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: TRMT11 [Title/Abstract] AND TPD52L1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointTRMT11(126307768)-TPD52L1(125541224), # samples:3
Anticipated loss of major functional domain due to fusion event.TRMT11-TPD52L1 seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene 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
TgeneTPD52L1

GO:0000086

G2/M transition of mitotic cell cycle

16112108

TgeneTPD52L1

GO:0043406

positive regulation of MAP kinase activity

14761963

TgeneTPD52L1

GO:0046330

positive regulation of JNK cascade

14761963

TgeneTPD52L1

GO:2001235

positive regulation of apoptotic signaling pathway

14761963


check buttonFusion gene breakpoints across TRMT11 (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 TPD52L1 (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-S3-AA15-01ATRMT11chr6

126307768

-TPD52L1chr6

125541224

+
ChimerDB4BRCATCGA-S3-AA15-01ATRMT11chr6

126307768

+TPD52L1chr6

125541224

+
ChimerDB4BRCATCGA-S3-AA15TRMT11chr6

126307768

+TPD52L1chr6

125541223

+


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Fusion Gene ORF analysis for TRMT11-TPD52L1

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-5UTRENST00000334379ENST00000392482TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000334379ENST00000392482TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-5UTRENST00000334379ENST00000524679TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000334379ENST00000524679TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-5UTRENST00000334379ENST00000532429TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000334379ENST00000532429TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-5UTRENST00000334379ENST00000534199TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000334379ENST00000534199TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-5UTRENST00000368332ENST00000392482TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000368332ENST00000392482TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-5UTRENST00000368332ENST00000524679TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000368332ENST00000524679TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-5UTRENST00000368332ENST00000532429TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000368332ENST00000532429TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-5UTRENST00000368332ENST00000534199TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000368332ENST00000534199TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-5UTRENST00000450358ENST00000392482TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000450358ENST00000392482TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-5UTRENST00000450358ENST00000524679TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000450358ENST00000524679TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-5UTRENST00000450358ENST00000532429TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000450358ENST00000532429TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-5UTRENST00000450358ENST00000534199TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-5UTRENST00000450358ENST00000534199TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-intronENST00000334379ENST00000530868TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-intronENST00000334379ENST00000530868TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-intronENST00000368332ENST00000530868TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-intronENST00000368332ENST00000530868TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
5CDS-intronENST00000450358ENST00000530868TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
5CDS-intronENST00000450358ENST00000530868TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000334379ENST00000304877TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000334379ENST00000304877TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000334379ENST00000368388TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000334379ENST00000368388TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000334379ENST00000368402TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000334379ENST00000368402TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000334379ENST00000527711TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000334379ENST00000527711TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000334379ENST00000528193TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000334379ENST00000528193TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000334379ENST00000534000TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000334379ENST00000534000TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000368332ENST00000304877TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000368332ENST00000304877TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000368332ENST00000368388TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000368332ENST00000368388TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000368332ENST00000368402TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000368332ENST00000368402TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000368332ENST00000527711TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000368332ENST00000527711TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000368332ENST00000528193TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000368332ENST00000528193TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000368332ENST00000534000TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000368332ENST00000534000TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000450358ENST00000304877TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000450358ENST00000304877TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000450358ENST00000368388TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000450358ENST00000368388TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000450358ENST00000368402TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000450358ENST00000368402TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000450358ENST00000527711TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000450358ENST00000527711TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000450358ENST00000528193TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000450358ENST00000528193TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
Frame-shiftENST00000450358ENST00000534000TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
Frame-shiftENST00000450358ENST00000534000TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
intron-3CDSENST00000489934ENST00000304877TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
intron-3CDSENST00000489934ENST00000304877TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
intron-3CDSENST00000489934ENST00000368388TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
intron-3CDSENST00000489934ENST00000368388TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
intron-3CDSENST00000489934ENST00000368402TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
intron-3CDSENST00000489934ENST00000368402TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
intron-3CDSENST00000489934ENST00000527711TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
intron-3CDSENST00000489934ENST00000527711TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
intron-3CDSENST00000489934ENST00000528193TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
intron-3CDSENST00000489934ENST00000528193TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
intron-3CDSENST00000489934ENST00000534000TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
intron-3CDSENST00000489934ENST00000534000TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
intron-5UTRENST00000489934ENST00000392482TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
intron-5UTRENST00000489934ENST00000392482TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
intron-5UTRENST00000489934ENST00000524679TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
intron-5UTRENST00000489934ENST00000524679TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
intron-5UTRENST00000489934ENST00000532429TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
intron-5UTRENST00000489934ENST00000532429TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
intron-5UTRENST00000489934ENST00000534199TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
intron-5UTRENST00000489934ENST00000534199TRMT11chr6

126307768

+TPD52L1chr6

125541223

+
intron-intronENST00000489934ENST00000530868TRMT11chr6

126307768

+TPD52L1chr6

125541224

+
intron-intronENST00000489934ENST00000530868TRMT11chr6

126307768

+TPD52L1chr6

125541223

+

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 TRMT11-TPD52L1


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)
TRMT11chr6126307768+TPD52L1chr6125541223+2.76E-060.99999726
TRMT11chr6126307768+TPD52L1chr6125541223+2.76E-060.99999726
TRMT11chr6126307768+TPD52L1chr6125541223+2.76E-060.99999726
TRMT11chr6126307768+TPD52L1chr6125541223+2.76E-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 TRMT11-TPD52L1


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/:126307768/:125541224)
- 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: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

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 TRMT11-TPD52L1


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 TRMT11-TPD52L1


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 TRMT11-TPD52L1


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 TRMT11-TPD52L1


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