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	Fusion Gene Summary
	Fusion Gene Sample Information
	Fusion ORF Analysis
	Fusion Amino Acid Sequences
	Fusion Protein Functional Features
	Fusion Protein-Protein Interaction
	Related drugs with this fusion protein
	Related disease with this fusion protein

Fusion Protein:TLK2-SND1

Fusion Protein Summary

Fusion gene summary

Fusion partner gene information	Fusion gene name: TLK2-SND1
	FusionPDB ID: 91168
	FusionGDB2.0 ID: 91168
		Hgene	Tgene
	Gene symbol	TLK2	SND1
	Gene ID	11011	27044
	Gene name	tousled like kinase 2	staphylococcal nuclease and tudor domain containing 1
	Synonyms	HsHPK\|MRD57\|PKU-ALPHA	TDRD11\|Tudor-SN\|p100
	Cytomap	17q23.2	7q32.1
	Type of gene	protein-coding	protein-coding
	Description	serine/threonine-protein kinase tousled-like 2	staphylococcal nuclease domain-containing protein 1EBNA2 coactivator p100testis tissue sperm-binding protein Li 82Ptudor domain-containing protein 11
	Modification date	20200313	20200313
	UniProtAcc	.	Q7KZF4
Ensembl transtripts involved in fusion gene	ENST ids	ENST00000577616, ENST00000582809, ENST00000326270, ENST00000343388, ENST00000346027, ENST00000542523,	ENST00000354725, ENST00000467238,
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)	* DoF score	18 X 11 X 9=1782	29 X 24 X 11=7656
	# samples	24	33
	** MAII score	log2(24/1782*10)=-2.8923910259134 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0	log2(33/7656*10)=-4.53605290024021 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0
Context (manual curation of fusion genes in FusionPDB)	PubMed: TLK2 [Title/Abstract] AND SND1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)	TLK2(60558567)-SND1(127630999), # samples:1
Anticipated loss of major functional domain due to fusion event.	TLK2-SND1 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-SND1 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-SND1 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-SND1 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-SND1 seems lost the major protein functional domain in Hgene partner, which is a epigenetic factor due to the frame-shifted ORF. TLK2-SND1 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF. TLK2-SND1 seems lost the major protein functional domain in Hgene partner, which is a IUPHAR drug target due to the frame-shifted ORF. TLK2-SND1 seems lost the major protein functional domain in Hgene partner, which is a kinase due to the frame-shifted ORF. TLK2-SND1 seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF. TLK2-SND1 seems lost the major protein functional domain in Tgene partner, which is a essential 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)

Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Hgene	TLK2	GO:0001672	regulation of chromatin assembly or disassembly	12660173
Hgene	TLK2	GO:0006468	protein phosphorylation	12660173
Hgene	TLK2	GO:0006974	cellular response to DNA damage stimulus	12660173
Hgene	TLK2	GO:0018105	peptidyl-serine phosphorylation	20016786
Hgene	TLK2	GO:0035556	intracellular signal transduction	12660173
Hgene	TLK2	GO:0071480	cellular response to gamma radiation	12660173
Tgene	SND1	GO:0010587	miRNA catabolic process	28546213

Fusion 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.

Fusion gene breakpoints across SND1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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Fusion Gene Sample Information

Fusion gene information from FusionGDB2.0.

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.

Source	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
ChimerDB4	BRCA	TCGA-D8-A27F	TLK2	chr17	60558567	+	SND1	chr7	127630999	+

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Fusion ORF Analysis

Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.

Henst

Tenst

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

Seq length
(transcript)

BP loci
(transcript)

Predicted start
(transcript)

Predicted stop
(transcript)

Seq length
(amino acids)

ENST00000326270

TLK2

chr17

60558567

ENST00000467238

SND1

chr7

127630999

1065

349

596

199

ENST00000346027

TLK2

chr17

60558567

ENST00000467238

SND1

chr7

127630999

1068

352

599

200

ENST00000343388

TLK2

chr17

60558567

ENST00000467238

SND1

chr7

127630999

943

227

474

158

ENST00000542523

TLK2

chr17

60558567

ENST00000467238

SND1

chr7

127630999

822

106

340

771

143

DeepORF 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.

Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand	No-coding score	Coding score
ENST00000326270	ENST00000467238	TLK2	chr17	60558567	+	SND1	chr7	127630999	+	0.33501408	0.66498595
ENST00000346027	ENST00000467238	TLK2	chr17	60558567	+	SND1	chr7	127630999	+	0.37188777	0.6281122
ENST00000343388	ENST00000467238	TLK2	chr17	60558567	+	SND1	chr7	127630999	+	0.36236167	0.63763833
ENST00000542523	ENST00000467238	TLK2	chr17	60558567	+	SND1	chr7	127630999	+	0.46874005	0.5312599

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Fusion Amino Acid Sequences

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

>91168_91168_1_TLK2-SND1_TLK2_chr17_60558567_ENST00000326270_SND1_chr7_127630999_ENST00000467238_length(amino acids)=199AA_BP=0
MHLHSQICLLRNIRYRNIDIHEQMGKVRPTKIKQQMKQESDNRHRSSRCSTSSLVKSVASSLKGSPSCTKPGRFRAPLGHSMPLLTPTPV
NLASNNSCRRGSRLCNSSIISAAAAAAAPRSSREGPRPDPAADRSALPLGRPGAEPGPLLSAATPRPGSRRRRRAPREGGRGRGGTKAAD

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

>91168_91168_2_TLK2-SND1_TLK2_chr17_60558567_ENST00000343388_SND1_chr7_127630999_ENST00000467238_length(amino acids)=158AA_BP=0
MHLHSQICLLRNIRYRNIDIHEQMGKVRPTKIKQQMKQESDNRHRSSRCSTSSLVKSVASSLKGSPSCTKPGRFRAPLGHSMPLLTPTPV

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

>91168_91168_3_TLK2-SND1_TLK2_chr17_60558567_ENST00000346027_SND1_chr7_127630999_ENST00000467238_length(amino acids)=200AA_BP=0
MHLHSQICLLRNIRYRNIDIHEQMGKVRPTKIKQQMKQESDNRHRSSRCSTSSLVKSVASSLKGSPSCTKPGRFRAPLGHSMPLLTPTPV
NLASNNSCRRGSRLCNSSIISAAAAAAAAPRSSREGPRPDPAADRSALPLGRPGAEPGPLLSAATPRPGSRRRRRAPREGGRGRGGTKAA

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

>91168_91168_4_TLK2-SND1_TLK2_chr17_60558567_ENST00000542523_SND1_chr7_127630999_ENST00000467238_length(amino acids)=143AA_BP=
MCRCICLKNITPHCLWDKVLSQFTYILDNLSNFMSHHPHSLRNSCLIRMDLLYWQFTIYTITFCFSHLSGRLTLSAQHISHRPCLLSYSL

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

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Fusion Protein Functional Features

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr17:60558567/chr7:127630999)
- 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.

Main function of each fusion partner protein. (from UniProt)

Hgene	Tgene
.	SND1 Q7KZF4
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: Endonuclease that mediates miRNA decay of both protein-free and AGO2-loaded miRNAs (PubMed:28546213, PubMed:18453631). As part of its function in miRNA decay, regulates mRNAs involved in G1-to-S phase transition (PubMed:28546213). Functions as a bridging factor between STAT6 and the basal transcription factor (PubMed:12234934). Plays a role in PIM1 regulation of MYB activity (PubMed:9809063). Functions as a transcriptional coactivator for STAT5 (By similarity). {ECO:0000250\|UniProtKB:Q78PY7, ECO:0000269\|PubMed:12234934, ECO:0000269\|PubMed:18453631, ECO:0000269\|PubMed:28546213, ECO:0000269\|PubMed:9809063}.; FUNCTION: (Microbial infection) Functions as a transcriptional coactivator for the Epstein-Barr virus nuclear antigen 2 (EBNA2). {ECO:0000269\|PubMed:7651391}.

Retention 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.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Tgene

SND1

chr17:60558567

chr7:127630999

ENST00000354725

729_787

556.3333333333334

911.0

Domain

Tudor

- Not-retained protein feature among the 13 regional features.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Protein feature

Protein feature note

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000326270

225_276

27.0

773.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000326270

317_347

27.0

773.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000326270

403_451

27.0

773.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000343388

225_276

27.0

719.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000343388

317_347

27.0

719.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000343388

403_451

27.0

719.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000346027

225_276

27.0

751.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000346027

317_347

27.0

751.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000346027

403_451

27.0

751.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000542523

225_276

27.0

719.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000542523

317_347

27.0

719.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000542523

403_451

27.0

719.0

Coiled coil

Ontology_term=ECO:0000255

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000326270

462_741

27.0

773.0

Domain

Protein kinase

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000343388

462_741

27.0

719.0

Domain

Protein kinase

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000346027

462_741

27.0

751.0

Domain

Protein kinase

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000542523

462_741

27.0

719.0

Domain

Protein kinase

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000326270

468_476

27.0

773.0

Nucleotide binding

ATP

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000343388

468_476

27.0

719.0

Nucleotide binding

ATP

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000346027

468_476

27.0

751.0

Nucleotide binding

ATP

Hgene

TLK2

chr17:60558567

chr7:127630999

ENST00000542523

468_476

27.0

719.0

Nucleotide binding

ATP

Tgene

SND1

chr17:60558567

chr7:127630999

ENST00000354725

18_166

556.3333333333334

911.0

Domain

TNase-like 1

Tgene

SND1

chr17:60558567

chr7:127630999

ENST00000354725

193_328

556.3333333333334

911.0

Domain

TNase-like 2

Tgene

SND1

chr17:60558567

chr7:127630999

ENST00000354725

341_496

556.3333333333334

911.0

Domain

TNase-like 3

Tgene

SND1

chr17:60558567

chr7:127630999

ENST00000354725

525_660

556.3333333333334

911.0

Domain

TNase-like 4

Tgene

SND1

chr17:60558567

chr7:127630999

ENST00000354725

321_325

556.3333333333334

911.0

Motif

Nuclear localization signal

Tgene

SND1

chr17:60558567

chr7:127630999

ENST00000354725

388_392

556.3333333333334

911.0

Motif

Nuclear localization signal

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Fusion Protein-Protein Interaction

Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in
ChiPPI page.

Protein-protein interactors with each fusion partner protein in wild-type from validated records (BIOGRID-3.4.160)

Gene

PPI interactors

SND1

IKBKE, SNW1, RBPJ, GTF2E2, GTF2E1, MYB, PIM1, STAT6, POLR2A, USP22, PDPK1, PRKAA1, UBA5, LZTR1, DHX9, CREBBP, RBM39, SIRT7, HHV8GK18_gp81, CUL3, CDK2, CAND1, APP, RPS3, HNRNPM, TOMM22, RPL19, MYBBP1A, SMNDC1, RPS20, NENF, RPL4, VDAC2, ILF2, SRSF3, HNRNPU, RPN1, HNRNPR, SSR3, FN1, VCAM1, CSNK2A1, ITGA4, G3BP1, PRPF8, RNU1-1, RNU2-1, RNU4-1, RNU6-1, RNU5A-1, MAK, TARDBP, EIF3CL, RPS11, RPS2, RPS6, RPS9, DDX3X, RPL23A, RPL35, RPS16, RPS26, RPS27, RPS3A, SHFM1, LIN28A, HUWE1, RAPGEF2, MDM2, CUL7, OBSL1, CCDC8, UBE2I, ESR1, MMP28, TDRD3, TXNDC5, NTRK1, NPM1, RPL10, CNOT1, Eif3a, Pabpc1, Rpl35, Srp72, Rrbp1, MCM2, U2AF2, CDH1, PTP4A1, MTDH, PA2G4, TRAP1, ANXA5, SNRPB2, EIF5B, GPI, IDH2, PDIA3, UBE2N, MRPL12, CRNN, ZNF207, CPNE3, CS, PYGL, SF3A3, DNAJC8, PLS3, CPSF6, NANS, SF3A1, ECHS1, SRP68, MYL12B, AIMP1, CYLD, DLD, DLST, PDHA1, SOD1, TRIM25, BRCA1, YAP1, EFTUD2, AAR2, PIH1D1, CHD3, ESR2, HEXIM1, AGR2, RECQL4, WWP1, MYC, CANX, GRWD1, KIAA1429, ATG16L1, NR2C2, AGRN, BMH2, BMH1, BRF1, AASS, P4HA1, HSP90AA1, HSP90AB1, LRPPRC, HADHA, ATP5C1, SHMT2, MCFD2, ATP5F1, VCP, CTNNB1, BCAP31, DLAT, EPRS, ILF3, PARP1, SFPQ, ALDH16A1, BCL2L13, CCT7, CORO1C, GFM1, PNPT1, SQSTM1, MAB21L2, SNRNP70, GSK3B, ANO7, BIRC3, STAU1, LMBR1L, NFX1, WWP2, Hsp22, TRIM28, PLEKHA4, PINK1, HCVgp1, ZC3H18, FGFR1, EMC4, HNRNPC, M, nsp4, nsp6, nsp8, ORF7b, CAPRIN1, LARP4B, MEX3B, SYNCRIP, TOP3B, UNK, USP10, SDCCAG3, CIT, ANLN, PTGER4, KIF14, FKBP8, PTPN1, ORF9b, LRRC59, SUMO2, NDN, HULC, NUPR1, BRD4, Apc2, LGALS9, IFI16, BKRF1, ASXL1, DNAJC1, DNAJC25, SEC63, H2AFX, TFDP1, MAX, LINC00624, CD274, ISG15, UFL1, DDRGK1, TP53, CKAP4, ELOVL5, EMD, GORASP1, MAPRE1, METTL7A, RPS24, SEC61B, SEC62, SERBP1, SSR1, STIM1, STX4, TMPO, FZR1, HOXA1, NAA40, BGLT3, PSMC3, ARFGAP1, PRPS2, SPINT2, FAM221B, BDH2, SYT6, EP300, CTIF, RCHY1, CCNF, MAP1LC3B, SLFN11, PDE4B, SIRT6,

Protein-protein interactors based on sequence similarity (STRING)

Gene	STRING network
TLK2
SND1

- Retained interactions in fusion protein (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost interactions due to fusion (protein functional feature from UniProt).

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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Related Drugs to TLK2-SND1

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

Hgene

Tgene

Drug

Source

PMID

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Related Diseases to TLK2-SND1

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

Hgene

Tgene

Disease

Source

PMID

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner	Gene	Disease ID	Disease name	# pubmeds	Source
Tgene	SND1	C0004352	Autistic Disorder	1	CTD_human
Tgene	SND1	C0024121	Lung Neoplasms	1	CTD_human
Tgene	SND1	C0242379	Malignant neoplasm of lung	1	CTD_human