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Center for Computational Systems Medicine
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Fusion Gene and Fusion Protein Summary

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Fusion Amino Acid Sequences (multiple BPs and multiple gene isoforms)

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Fusion Protein Breakpoint Sequences - (for the Screening of the FusionNeoAntigens)

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Potential FusionNeoAntigens in HLA I - (netMHCpan v4.1 + deepHLApan v1.1)

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Potential FusionNeoAntigens in HLA II - (netMHCIIpan v4.1)

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Fusion Breakpoint 14 AA Peptide Structure - (RoseTTAFold)

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D - (Glide)

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Vaccine Design for the FusionNeoAntigens (RNA/protein sequences)

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Potential target of CAR-T therapy development

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Information on the samples that have these potential fusion neoantigens

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Fusion Protein Targeting Drugs - (Manual Curation)

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Fusion Protein Related diseases - (Manual Curation)

Fusion Protein:TLK2-THRA

Fusion Gene and Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: TLK2-THRA
FusionPDB ID: 91169
FusionGDB2.0 ID: 91169
HgeneTgene
Gene symbol

TLK2

THRA

Gene ID

11011

7067

Gene nametousled like kinase 2thyroid hormone receptor alpha
SynonymsHsHPK|MRD57|PKU-ALPHAAR7|CHNG6|EAR7|ERB-T-1|ERBA|ERBA1|NR1A1|THRA1|THRA2|c-ERBA-1
Cytomap

17q23.2

17q21.1

Type of geneprotein-codingprotein-coding
Descriptionserine/threonine-protein kinase tousled-like 2thyroid hormone receptor alphaEAR-7ERBA-related 7V-erbA-related protein 7c-erbA-alphanuclear receptor subfamily 1 group A member 1thyroid hormone receptor alpha 1thyroid hormone receptor, alpha (erythroblastic leukemia viral (v-erb-a) oncogene homo
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST idsENST00000326270, ENST00000343388, 
ENST00000346027, ENST00000542523, 
ENST00000582809, ENST00000577616, 
ENST00000264637, ENST00000394121, 
ENST00000450525, ENST00000546243, 
ENST00000584985, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score18 X 11 X 9=178210 X 11 X 6=660
# samples 2412
** MAII scorelog2(24/1782*10)=-2.8923910259134
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(12/660*10)=-2.4594316186373
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Fusion gene context

PubMed: TLK2 [Title/Abstract] AND THRA [Title/Abstract] AND fusion [Title/Abstract]

Fusion neoantigen context

PubMed: TLK2 [Title/Abstract] AND THRA [Title/Abstract] AND neoantigen [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)TLK2(60613698)-THRA(38240088), # samples:2
Anticipated loss of major functional domain due to fusion event.TLK2-THRA 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.
TLK2-THRA 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.
TLK2-THRA 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.
TLK2-THRA 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
HgeneTLK2

GO:0001672

regulation of chromatin assembly or disassembly

12660173

HgeneTLK2

GO:0006468

protein phosphorylation

12660173

HgeneTLK2

GO:0006974

cellular response to DNA damage stimulus

12660173

HgeneTLK2

GO:0018105

peptidyl-serine phosphorylation

20016786

HgeneTLK2

GO:0035556

intracellular signal transduction

12660173

HgeneTLK2

GO:0071480

cellular response to gamma radiation

12660173

TgeneTHRA

GO:0006357

regulation of transcription by RNA polymerase II

18052923

TgeneTHRA

GO:0006366

transcription by RNA polymerase II

8710870|9653119

TgeneTHRA

GO:0009755

hormone-mediated signaling pathway

18052923

TgeneTHRA

GO:0017055

negative regulation of RNA polymerase II transcriptional preinitiation complex assembly

8524305

TgeneTHRA

GO:0045892

negative regulation of transcription, DNA-templated

8710870

TgeneTHRA

GO:2000143

negative regulation of DNA-templated transcription, initiation

8524305



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/chr17:60613698/chr17:38240088)
- 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 buttonRetention analysis results 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, are available here.

check buttonFusion gene breakpoints across TLK2 (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 THRA (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 Amino Acid Sequences


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)
ENST00000582809TLK2chr1760613698+ENST00000394121THRAchr1738240088+22697873702037555
ENST00000582809TLK2chr1760613698+ENST00000264637THRAchr1738240088+25237873702037555
ENST00000582809TLK2chr1760613698+ENST00000584985THRAchr1738240088+24067873701920516
ENST00000582809TLK2chr1760613698+ENST00000450525THRAchr1738240088+49697873701797475
ENST00000582809TLK2chr1760613698+ENST00000546243THRAchr1738240088+20727873701797475
ENST00000326270TLK2chr1760613698+ENST00000394121THRAchr1738240088+22817991212049642
ENST00000326270TLK2chr1760613698+ENST00000264637THRAchr1738240088+25357991212049642
ENST00000326270TLK2chr1760613698+ENST00000584985THRAchr1738240088+24187991211932603
ENST00000326270TLK2chr1760613698+ENST00000450525THRAchr1738240088+49817991211809562
ENST00000326270TLK2chr1760613698+ENST00000546243THRAchr1738240088+20847991211809562
ENST00000346027TLK2chr1760613698+ENST00000394121THRAchr1738240088+22848021212052643
ENST00000346027TLK2chr1760613698+ENST00000264637THRAchr1738240088+25388021212052643
ENST00000346027TLK2chr1760613698+ENST00000584985THRAchr1738240088+24218021211935604
ENST00000346027TLK2chr1760613698+ENST00000450525THRAchr1738240088+49848021211812563
ENST00000346027TLK2chr1760613698+ENST00000546243THRAchr1738240088+20878021211812563
ENST00000343388TLK2chr1760613698+ENST00000394121THRAchr1738240088+2063581501831593
ENST00000343388TLK2chr1760613698+ENST00000264637THRAchr1738240088+2317581501831593
ENST00000343388TLK2chr1760613698+ENST00000584985THRAchr1738240088+2200581501714554
ENST00000343388TLK2chr1760613698+ENST00000450525THRAchr1738240088+4763581501591513
ENST00000343388TLK2chr1760613698+ENST00000546243THRAchr1738240088+1866581501591513
ENST00000542523TLK2chr1760613698+ENST00000394121THRAchr1738240088+1942460251710561
ENST00000542523TLK2chr1760613698+ENST00000264637THRAchr1738240088+2196460251710561
ENST00000542523TLK2chr1760613698+ENST00000584985THRAchr1738240088+2079460251593522
ENST00000542523TLK2chr1760613698+ENST00000450525THRAchr1738240088+4642460251470481
ENST00000542523TLK2chr1760613698+ENST00000546243THRAchr1738240088+1745460251470481
ENST00000582809TLK2chr1760613698+ENST00000394121THRAchr1738240087+22697873702037555
ENST00000582809TLK2chr1760613698+ENST00000264637THRAchr1738240087+25237873702037555
ENST00000582809TLK2chr1760613698+ENST00000584985THRAchr1738240087+24067873701920516
ENST00000582809TLK2chr1760613698+ENST00000450525THRAchr1738240087+49697873701797475
ENST00000582809TLK2chr1760613698+ENST00000546243THRAchr1738240087+20727873701797475
ENST00000326270TLK2chr1760613698+ENST00000394121THRAchr1738240087+22817991212049642
ENST00000326270TLK2chr1760613698+ENST00000264637THRAchr1738240087+25357991212049642
ENST00000326270TLK2chr1760613698+ENST00000584985THRAchr1738240087+24187991211932603
ENST00000326270TLK2chr1760613698+ENST00000450525THRAchr1738240087+49817991211809562
ENST00000326270TLK2chr1760613698+ENST00000546243THRAchr1738240087+20847991211809562
ENST00000346027TLK2chr1760613698+ENST00000394121THRAchr1738240087+22848021212052643
ENST00000346027TLK2chr1760613698+ENST00000264637THRAchr1738240087+25388021212052643
ENST00000346027TLK2chr1760613698+ENST00000584985THRAchr1738240087+24218021211935604
ENST00000346027TLK2chr1760613698+ENST00000450525THRAchr1738240087+49848021211812563
ENST00000346027TLK2chr1760613698+ENST00000546243THRAchr1738240087+20878021211812563
ENST00000343388TLK2chr1760613698+ENST00000394121THRAchr1738240087+2063581501831593
ENST00000343388TLK2chr1760613698+ENST00000264637THRAchr1738240087+2317581501831593
ENST00000343388TLK2chr1760613698+ENST00000584985THRAchr1738240087+2200581501714554
ENST00000343388TLK2chr1760613698+ENST00000450525THRAchr1738240087+4763581501591513
ENST00000343388TLK2chr1760613698+ENST00000546243THRAchr1738240087+1866581501591513
ENST00000542523TLK2chr1760613698+ENST00000394121THRAchr1738240087+1942460251710561
ENST00000542523TLK2chr1760613698+ENST00000264637THRAchr1738240087+2196460251710561
ENST00000542523TLK2chr1760613698+ENST00000584985THRAchr1738240087+2079460251593522
ENST00000542523TLK2chr1760613698+ENST00000450525THRAchr1738240087+4642460251470481
ENST00000542523TLK2chr1760613698+ENST00000546243THRAchr1738240087+1745460251470481

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
ENST00000582809ENST00000394121TLK2chr1760613698+THRAchr1738240088+0.0166509280.9833491
ENST00000582809ENST00000264637TLK2chr1760613698+THRAchr1738240088+0.0128396120.98716044
ENST00000582809ENST00000584985TLK2chr1760613698+THRAchr1738240088+0.0103003390.98969966
ENST00000582809ENST00000450525TLK2chr1760613698+THRAchr1738240088+0.0021851810.9978148
ENST00000582809ENST00000546243TLK2chr1760613698+THRAchr1738240088+0.0056504430.99434954
ENST00000326270ENST00000394121TLK2chr1760613698+THRAchr1738240088+0.0165586580.98344135
ENST00000326270ENST00000264637TLK2chr1760613698+THRAchr1738240088+0.0112096660.9887903
ENST00000326270ENST00000584985TLK2chr1760613698+THRAchr1738240088+0.0102337490.9897662
ENST00000326270ENST00000450525TLK2chr1760613698+THRAchr1738240088+0.0015432780.9984567
ENST00000326270ENST00000546243TLK2chr1760613698+THRAchr1738240088+0.0065538190.9934462
ENST00000346027ENST00000394121TLK2chr1760613698+THRAchr1738240088+0.0168201660.9831798
ENST00000346027ENST00000264637TLK2chr1760613698+THRAchr1738240088+0.0116079170.98839206
ENST00000346027ENST00000584985TLK2chr1760613698+THRAchr1738240088+0.0105046680.98949534
ENST00000346027ENST00000450525TLK2chr1760613698+THRAchr1738240088+0.0015627950.9984372
ENST00000346027ENST00000546243TLK2chr1760613698+THRAchr1738240088+0.0067721370.9932279
ENST00000343388ENST00000394121TLK2chr1760613698+THRAchr1738240088+0.0153117890.9846882
ENST00000343388ENST00000264637TLK2chr1760613698+THRAchr1738240088+0.0109494370.9890506
ENST00000343388ENST00000584985TLK2chr1760613698+THRAchr1738240088+0.0086909060.99130905
ENST00000343388ENST00000450525TLK2chr1760613698+THRAchr1738240088+0.0016696520.9983304
ENST00000343388ENST00000546243TLK2chr1760613698+THRAchr1738240088+0.0061072390.9938928
ENST00000542523ENST00000394121TLK2chr1760613698+THRAchr1738240088+0.0161907840.98380923
ENST00000542523ENST00000264637TLK2chr1760613698+THRAchr1738240088+0.0112246240.9887754
ENST00000542523ENST00000584985TLK2chr1760613698+THRAchr1738240088+0.0087596980.9912403
ENST00000542523ENST00000450525TLK2chr1760613698+THRAchr1738240088+0.0016659290.9983341
ENST00000542523ENST00000546243TLK2chr1760613698+THRAchr1738240088+0.0063361410.9936639
ENST00000582809ENST00000394121TLK2chr1760613698+THRAchr1738240087+0.0166509280.9833491
ENST00000582809ENST00000264637TLK2chr1760613698+THRAchr1738240087+0.0128396120.98716044
ENST00000582809ENST00000584985TLK2chr1760613698+THRAchr1738240087+0.0103003390.98969966
ENST00000582809ENST00000450525TLK2chr1760613698+THRAchr1738240087+0.0021851810.9978148
ENST00000582809ENST00000546243TLK2chr1760613698+THRAchr1738240087+0.0056504430.99434954
ENST00000326270ENST00000394121TLK2chr1760613698+THRAchr1738240087+0.0165586580.98344135
ENST00000326270ENST00000264637TLK2chr1760613698+THRAchr1738240087+0.0112096660.9887903
ENST00000326270ENST00000584985TLK2chr1760613698+THRAchr1738240087+0.0102337490.9897662
ENST00000326270ENST00000450525TLK2chr1760613698+THRAchr1738240087+0.0015432780.9984567
ENST00000326270ENST00000546243TLK2chr1760613698+THRAchr1738240087+0.0065538190.9934462
ENST00000346027ENST00000394121TLK2chr1760613698+THRAchr1738240087+0.0168201660.9831798
ENST00000346027ENST00000264637TLK2chr1760613698+THRAchr1738240087+0.0116079170.98839206
ENST00000346027ENST00000584985TLK2chr1760613698+THRAchr1738240087+0.0105046680.98949534
ENST00000346027ENST00000450525TLK2chr1760613698+THRAchr1738240087+0.0015627950.9984372
ENST00000346027ENST00000546243TLK2chr1760613698+THRAchr1738240087+0.0067721370.9932279
ENST00000343388ENST00000394121TLK2chr1760613698+THRAchr1738240087+0.0153117890.9846882
ENST00000343388ENST00000264637TLK2chr1760613698+THRAchr1738240087+0.0109494370.9890506
ENST00000343388ENST00000584985TLK2chr1760613698+THRAchr1738240087+0.0086909060.99130905
ENST00000343388ENST00000450525TLK2chr1760613698+THRAchr1738240087+0.0016696520.9983304
ENST00000343388ENST00000546243TLK2chr1760613698+THRAchr1738240087+0.0061072390.9938928
ENST00000542523ENST00000394121TLK2chr1760613698+THRAchr1738240087+0.0161907840.98380923
ENST00000542523ENST00000264637TLK2chr1760613698+THRAchr1738240087+0.0112246240.9887754
ENST00000542523ENST00000584985TLK2chr1760613698+THRAchr1738240087+0.0087596980.9912403
ENST00000542523ENST00000450525TLK2chr1760613698+THRAchr1738240087+0.0016659290.9983341
ENST00000542523ENST00000546243TLK2chr1760613698+THRAchr1738240087+0.0063361410.9936639

check button Predicted full-length fusion amino acid sequences. For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among all the predicted ones.

Get the fusion protein sequences from here.

Fusion protein sequence information is available in the fasta format.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

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Fusion Protein Breakpoint Sequences for TLK2-THRA

check button +/-13 AA sequence from the breakpoints of the fusion protein sequences.
HgeneHchrHbpTgeneTchrTbpLength(fusion protein)BP in fusion proteinPeptide
TLK2chr1760613698THRAchr1738240087460145AQRGAGLCFTFVSGFFRRTIQKNLHP
TLK2chr1760613698THRAchr1738240087581177AQRGAGLCFTFVSGFFRRTIQKNLHP
TLK2chr1760613698THRAchr1738240087787139AQRGAGLCFTFVSGFFRRTIQKNLHP
TLK2chr1760613698THRAchr1738240087799226AQRGAGLCFTFVSGFFRRTIQKNLHP
TLK2chr1760613698THRAchr1738240087802227AQRGAGLCFTFVSGFFRRTIQKNLHP
TLK2chr1760613698THRAchr1738240088460145AQRGAGLCFTFVSGFFRRTIQKNLHP
TLK2chr1760613698THRAchr1738240088581177AQRGAGLCFTFVSGFFRRTIQKNLHP
TLK2chr1760613698THRAchr1738240088787139AQRGAGLCFTFVSGFFRRTIQKNLHP
TLK2chr1760613698THRAchr1738240088799226AQRGAGLCFTFVSGFFRRTIQKNLHP
TLK2chr1760613698THRAchr1738240088802227AQRGAGLCFTFVSGFFRRTIQKNLHP

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Potential FusionNeoAntigen Information of TLK2-THRA in HLA I

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.
TLK2-THRA_60613698_38240087.msa

check button Potential FusionNeoAntigen Information
* We used NetMHCpan v4.1 (%rank<0.5) and deepHLApan v1.1 (immunogenic score>0.5)
Fusion geneHchrHbpTgeneTchrTbpHLA IFusionNeoAntigen peptideBinding scoreImmunogenic scoreNeoantigen start (at BP 13)Neoantigen end (at BP 13)
TLK2-THRAchr1760613698chr1738240087799HLA-A74:09FTFVSGFFR0.97360.5811817
TLK2-THRAchr1760613698chr1738240087799HLA-A74:11FTFVSGFFR0.97360.5811817
TLK2-THRAchr1760613698chr1738240087799HLA-A74:03FTFVSGFFR0.97360.5811817
TLK2-THRAchr1760613698chr1738240087799HLA-A74:09FTFVSGFFRR0.97540.5362818
TLK2-THRAchr1760613698chr1738240087799HLA-A74:03FTFVSGFFRR0.97540.5362818
TLK2-THRAchr1760613698chr1738240087799HLA-A74:11FTFVSGFFRR0.97540.5362818
TLK2-THRAchr1760613698chr1738240087799HLA-A74:01FTFVSGFFR0.97360.5811817
TLK2-THRAchr1760613698chr1738240087799HLA-A30:01SGFFRRTIQK0.98850.80651222
TLK2-THRAchr1760613698chr1738240087799HLA-A74:01FTFVSGFFRR0.97540.5362818

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Potential FusionNeoAntigen Information of TLK2-THRA in HLA II

check button Multiple sequence alignments of the potential FusionNeoAntigens per fusion breakpoints. If the MSA is empty, then it means that there were predicted fusion neoantigens in this fusion breakpoint, but those predicted fusion neoantigens were not across the breakpoint, which is not fusion-specific.

check button Potential FusionNeoAntigen Information
* We used NetMHCIIpan v4.1 (%rank<0.5).
Fusion geneHchrHbpTgeneTchrTbpHLA IIFusionNeoAntigen peptideNeoantigen start (at BP 13)Neoantigen end (at BP 13)

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Fusion breakpoint peptide structures of TLK2-THRA

check button3D structures of the fusion breakpoint peptide of 14AA sequence that have potential fusion neoantigens
* The minimum length of the amino acid sequence in RoseTTAFold is 14AA. Here, we predicted the 14AA fusion protein breakpoint sequence not the fusion neoantigen peptide, which is shorter than 14 AA.
File nameBPseqHgeneTgeneHchrHbpTchrTbpAAlen
4813LCFTFVSGFFRRTITLK2THRAchr1760613698chr1738240087799

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Filtering FusionNeoAntigens Through Checking the Interaction with HLAs in 3D of TLK2-THRA

check buttonVirtual screening between 25 HLAs (from PDB) and FusionNeoAntigens
* We used Glide to predict the interaction between HLAs and neoantigens.
HLA allelePDB IDFile nameBPseqDocking scoreGlide score
HLA-B14:023BVN4813LCFTFVSGFFRRTI-7.9962-8.1096
HLA-B14:023BVN4813LCFTFVSGFFRRTI-5.70842-6.74372
HLA-B52:013W394813LCFTFVSGFFRRTI-6.83737-6.95077
HLA-B52:013W394813LCFTFVSGFFRRTI-4.4836-5.5189
HLA-A11:014UQ24813LCFTFVSGFFRRTI-10.0067-10.1201
HLA-A11:014UQ24813LCFTFVSGFFRRTI-9.03915-10.0745
HLA-A24:025HGA4813LCFTFVSGFFRRTI-6.56204-6.67544
HLA-A24:025HGA4813LCFTFVSGFFRRTI-5.42271-6.45801
HLA-B44:053DX84813LCFTFVSGFFRRTI-7.85648-8.89178
HLA-B44:053DX84813LCFTFVSGFFRRTI-5.3978-5.5112
HLA-A02:016TDR4813LCFTFVSGFFRRTI-3.37154-4.40684

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Vaccine Design for the FusionNeoAntigens of TLK2-THRA

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-Is.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptide sequenceFusionNeoAntigen RNA sequence
TLK2-THRAchr1760613698chr17382400871222SGFFRRTIQKTCAGGCTTCTTTCGCCGCACAATCCAGAAG
TLK2-THRAchr1760613698chr1738240087817FTFVSGFFRTTCACTTTTGTTTCAGGCTTCTTTCGC
TLK2-THRAchr1760613698chr1738240087818FTFVSGFFRRTTCACTTTTGTTTCAGGCTTCTTTCGCCGC

check button mRNA and peptide sequences of FusionNeoAntigens that have potential interaction with HLA-IIs.
Fusion geneHchrHbpTchrTbpStart in +/-13AAEnd in +/-13AAFusionNeoAntigen peptideFusionNEoAntigen RNA sequence

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Information of the samples that have these potential fusion neoantigens of TLK2-THRA

check button These samples were reported as having these fusion breakpoints. For individual breakpoints, we checked the open reading frames considering multiple gene isoforms and chose the in-frame fusion genes only. Then, we made fusion protein sequences and predicted the fusion neoantigens. These fusion-positive samples may have these potential fusion neoantigens.
Cancer typeFusion geneHchrHbpHenstTchrTbpTenstSample
BLCATLK2-THRAchr1760613698ENST00000326270chr1738240087ENST00000264637TCGA-FD-A43P

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Potential target of CAR-T therapy development for TLK2-THRA

check button Predicted 3D structure. We used RoseTTAFold.

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, to provide the retention of the transmembrane domain, we only show the protein feature retention information of those transmembrane features


* Minus value of BPloci means that the break point is located before the CDS.
- In-frame and retained 'Transmembrane'.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

check button Subcellular localization prediction of the transmembrane domain retained fusion proteins
* We used DeepLoc 1.0. The order of the X-axis of the barplot is as follows: Entry_ID, Localization, Type, Nucleus, Cytoplasm, Extracellular, Mitochondrion, Cell_membrane, Endoplasmic_reticulum, Plastid, Golgi.apparatus, Lysosome.Vacuole, Peroxisome. Y-axis is the output score of DeepLoc. Clicking the image will open a new tab with a large image.
HgeneHchrHbpHenstTgeneTchrTbpTenstDeepLoc result

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Related Drugs to TLK2-THRA

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 TLK2-THRA

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