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	Fusion Gene Summary
	Fusion Gene ORF analysis
	Fusion Genomic Features
	Fusion Protein Features
	Fusion Gene Sequence
	Fusion Gene PPI analysis
	Related Drugs
	Related Diseases

Fusion gene:ZNF175-CTU1 (FusionGDB2 ID:101564)

Fusion Gene Summary for ZNF175-CTU1

Fusion gene summary

Fusion gene information	Fusion gene name: ZNF175-CTU1
	Fusion gene ID: 101564
		Hgene	Tgene
	Gene symbol	ZNF175	CTU1
	Gene ID	7728	90353
	Gene name	zinc finger protein 175	cytosolic thiouridylase subunit 1
	Synonyms	OTK18	ATPBD3\|NCS6
	Cytomap	19q13.41	19q13.41
	Type of gene	protein-coding	protein-coding
	Description	zinc finger protein 175zinc finger protein OTK18	cytoplasmic tRNA 2-thiolation protein 1ATP binding domain 3ATP-binding domain-containing protein 3cancer-associated gene proteincancer-associated proteincytoplasmic tRNA adenylyltransferase 1cytosolic thiouridylase subunit 1 homolog
	Modification date	20200313	20200313
	UniProtAcc	.	Q7Z7A3
	Ensembl transtripts involved in fusion gene	ENST00000262259, ENST00000436511, ENST00000545217, ENST00000596504,	ENST00000421832,
Fusion gene scores	* DoF score	3 X 3 X 3=27	2 X 2 X 2=8
	# samples	4	2
	** MAII score	log2(4/27*10)=0.567040592723894 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0	log2(2/8*10)=1.32192809488736
Context	PubMed: ZNF175 [Title/Abstract] AND CTU1 [Title/Abstract] AND fusion [Title/Abstract]
Most frequent breakpoint	ZNF175(52085135)-CTU1(51602396), # samples:1
Anticipated loss of major functional domain due to fusion event.

* 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	ZNF175	GO:0000122	negative regulation of transcription by RNA polymerase II	17170456
Hgene	ZNF175	GO:0045944	positive regulation of transcription by RNA polymerase II	17170456

Fusion gene breakpoints across ZNF175 (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 CTU1 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

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	BLCA	TCGA-CF-A8HY	ZNF175	chr19	52085135	+	CTU1	chr19	51602396	-

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Fusion Gene ORF analysis for ZNF175-CTU1

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.

ORF	Henst	Tenst	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
In-frame	ENST00000262259	ENST00000421832	ZNF175	chr19	52085135	+	CTU1	chr19	51602396	-
In-frame	ENST00000436511	ENST00000421832	ZNF175	chr19	52085135	+	CTU1	chr19	51602396	-
intron-3CDS	ENST00000545217	ENST00000421832	ZNF175	chr19	52085135	+	CTU1	chr19	51602396	-
intron-3CDS	ENST00000596504	ENST00000421832	ZNF175	chr19	52085135	+	CTU1	chr19	51602396	-

ORFfinder result based on the fusion transcript sequence of in-frame fusion genes.

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)

ENST00000262259

ZNF175

chr19

52085135

ENST00000421832

CTU1

chr19

51602396

2187

653

358

1191

277

ENST00000436511

ZNF175

chr19

52085135

ENST00000421832

CTU1

chr19

51602396

1831

297

835

277

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
ENST00000262259	ENST00000421832	ZNF175	chr19	52085135	+	CTU1	chr19	51602396	-	0.017520076	0.98247993
ENST00000436511	ENST00000421832	ZNF175	chr19	52085135	+	CTU1	chr19	51602396	-	0.014176776	0.98582315

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Fusion Genomic Features for ZNF175-CTU1

FusionAI 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.

Hgene

Hchr

Hbp

Hstrand

Tgene

Tchr

Tbp

Tstrand

1-p

p (fusion gene breakpoint)

Distribution 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.

Distribution 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.

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Fusion Protein Features for ZNF175-CTU1

Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr19:52085135/chr19:51602396)
- 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
.	CTU1 Q7Z7A3
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: Plays a central role in 2-thiolation of mcm(5)S(2)U at tRNA wobble positions of tRNA(Lys), tRNA(Glu) and tRNA(Gln). Directly binds tRNAs and probably acts by catalyzing adenylation of tRNAs, an intermediate required for 2-thiolation. It is unclear whether it acts as a sulfurtransferase that transfers sulfur from thiocarboxylated URM1 onto the uridine of tRNAs at wobble position. {ECO:0000255\|HAMAP-Rule:MF_03053, ECO:0000269\|PubMed:19017811}.

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.

- In-frame and 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

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

27_98

712.0

Domain

KRAB

- In-frame and 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

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

359_362

712.0

Motif

Nuclear localization signal

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

279_301

712.0

Zinc finger

C2H2-type 1%3B atypical

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

307_329

712.0

Zinc finger

C2H2-type 2%3B atypical

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

335_357

712.0

Zinc finger

C2H2-type 3

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

363_385

712.0

Zinc finger

C2H2-type 4

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

391_413

712.0

Zinc finger

C2H2-type 5

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

419_441

712.0

Zinc finger

C2H2-type 6

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

447_469

712.0

Zinc finger

C2H2-type 7

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

475_497

712.0

Zinc finger

C2H2-type 8

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

503_525

712.0

Zinc finger

C2H2-type 9

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

531_553

712.0

Zinc finger

C2H2-type 10

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

559_581

712.0

Zinc finger

C2H2-type 11

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

587_609

712.0

Zinc finger

C2H2-type 12

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

615_637

712.0

Zinc finger

C2H2-type 13

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

643_665

712.0

Zinc finger

C2H2-type 14

Hgene

ZNF175

chr19:52085135

chr19:51602396

ENST00000262259

671_693

712.0

Zinc finger

C2H2-type 15

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Fusion Gene Sequence for ZNF175-CTU1

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.

>101564_101564_1_ZNF175-CTU1_ZNF175_chr19_52085135_ENST00000262259_CTU1_chr19_51602396_ENST00000421832_length(transcript)=2187nt_BP=653nt
GTTGTTAAGTGGATCTAAGCCTATGTCGCTTACTGGACGCTGAAGTGATTGGGAATATTAGCAGTGGGGGTTCTGTAGGGTCAGGAAGGG
GCGGCTGGCTTTGGGGGAGTGATGAGGGGCTTGTTGGGGGTGGGGGTGCGTGATAAAGGGATTTCTCGGCTGAAGACGAGGCTGTGAGGC
TTCTGCAGAACCCCCAGGTCAGGCCACATCATTGAGGCTGCAGGATCTCTCTTCATAGCCCAGTACGACTCTCCGCCGTGTCCCTGGTTG
GAAAATCCAAACACCTATCCAGCTTCTGGCTCCTGGGAAAAGTGGAGTTGTCAGCAAGAGAGACCGAGAGTAGAAGCCCAGAGTGGAGAT
GCCTGCTGATGTGAATTTATCCCAGAAGCCTCAGGTCCTGGGTCCAGAGAAGCAGGATGGATCTTGCGAGGCATCAGTGTCATTTGAGGA
CGTGACCGTGGACTTCAGCAGGGAGGAGTGGCAGCAACTGGACCCTGCCCAGAGATGCCTGTACCGGGATGTGATGCTGGAGCTCTATAG
CCATCTCTTCGCAGTGGGGTATCACATTCCCAACCCAGAGGTCATCTTCAGAATGCTAAAAGAAAAGGAGCCGCGTGTGGAGGAGGCTGA
AGTCTCACATCAGAGGTGTCAAGGTCACAACGCCGACGACATGGCGGAGACCGTGCTCATGAACTTCCTACGGGGCGACGCGGGGCGGCT
GGCCCGGGGCGGGGGCCTGGGCTCTCCCGGCGAGGGGGGCGCCCTGCCGCGCTGCCGCCCGCTGCAGTTCGCCTCGCAGAAGGAGGTGGT
GCTGTACGCGCACTTCCGCCGCCTCGACTACTTCTCCGAGGAGTGCGTCTACGCGCCCGAGGCCTTCCGCGGCCACGCCCGGGACCTGCT
CAAGCGCCTGGAGGCGGCGCGGCCGTCCGCGGTGCTGGACCTCGTGCACTCGGCCGAGCGCCTGGCGCTGGCCCCGGCCGCGCGGCCCCC
GCGCCCCGGCGCCTGCTCCCGCTGTGGGGCGCTGGCCAGCCGCGCGCTCTGCCAGGCCTGCGCGCTCCTGGACGGCCTGAACCGCGGCCG
GCCCCGCCTGGCCATCGGCAAGGGCCGCCGGGGTCTGGACGAGGAGGCGACGCCGGGGACGCCCGGGGATCCGGCCCGGCCCCCCGCCTC
CAAGGCCGTCCCCACCTTCTAGCGACTTCGGGCCTCCCGCCGGGATCTGATGCCGCGGGGTGGGGGCTGCCTGTAAATGACACTGTGAAT
AAACCCGTTACCTTACCTGGCCTTCCATGTGGGGTTGGGAAGGAGACGGGGGCCCATTCACCTGAAACCCTGAAGAAGCTGGGACCCCAG
ACTTCGAGGTCTCAGGGAAGAAGGGTCTCGAACTGGGCTTCAGGCTCTGAGGGAGGAGGGGGCTGGGGGACCATCCTAGGTCTGAGAGAG
GAGAGGGCCAGGACTAAGCCTAGAAGAAGTGGGACTGGGGACCCCAGGCATCTGTGGCTGAGGAAGGAGGGCCTGGGGTCGTGGACTCCT
GGGTCTCAGGGAGGAGGGGGCTGAACACCGTGTGATTCTTGAGCGAGTGGGGATTGGTTGGGGACCTCCTGCCCAGGGCCTCTGCTGGTT
CTGGGTGCGCTCAGCATGGTCCTGACCCTCCTTGAGCATCAGATTCCTGATGTTTCCTGTTTGCCCGCAGTGGGGTAAGCGGAGCGTGAC
TTGATGGACACACGCCATTCACAGCCGCCGTCACGATGCCTCCCTTCCAGCGCTTCGTGTGTAGCACGCACTGCACCCTCATTTCGTCTC
CACCACGGTCTCACTGGCTGTAGCCTGAAGTGGTAAATGGCCCTAAGACACCCAGTCGGAAGGGGTCACACCGAGGGCTCCCTCCAAAGC
TCTCGAATATCACAGGTCGTGGAATTGGTCCTCCCCCACCCATCCCCTCTCGAATCTCTCCTGGTATCTCTGTCACGGGTGAGGAGGGGT
TGGATGCGTTCCCCAAACCTTGGACTCTGGAGGCAGGGTTGTGTGAGCCTGTCGGTGACTTAGCCTCTTTCATGTCCCATTTCTCCTATG
AAAATATAATCAGCCCCCTTCCCCCCCGCCCCCCCATCCCCCCCGCATCAAGGCACCACTGGGAGGAAATGGAAGATCAGAGAAGTTGAG

>101564_101564_1_ZNF175-CTU1_ZNF175_chr19_52085135_ENST00000262259_CTU1_chr19_51602396_ENST00000421832_length(amino acids)=277AA_BP=98
MPADVNLSQKPQVLGPEKQDGSCEASVSFEDVTVDFSREEWQQLDPAQRCLYRDVMLELYSHLFAVGYHIPNPEVIFRMLKEKEPRVEEA
EVSHQRCQGHNADDMAETVLMNFLRGDAGRLARGGGLGSPGEGGALPRCRPLQFASQKEVVLYAHFRRLDYFSEECVYAPEAFRGHARDL
LKRLEAARPSAVLDLVHSAERLALAPAARPPRPGACSRCGALASRALCQACALLDGLNRGRPRLAIGKGRRGLDEEATPGTPGDPARPPA

--------------------------------------------------------------
>101564_101564_2_ZNF175-CTU1_ZNF175_chr19_52085135_ENST00000436511_CTU1_chr19_51602396_ENST00000421832_length(transcript)=1831nt_BP=297nt
AGATGCCTGCTGATGTGAATTTATCCCAGAAGCCTCAGGTCCTGGGTCCAGAGAAGCAGGATGGATCTTGCGAGGCATCAGTGTCATTTG
AGGACGTGACCGTGGACTTCAGCAGGGAGGAGTGGCAGCAACTGGACCCTGCCCAGAGATGCCTGTACCGGGATGTGATGCTGGAGCTCT
ATAGCCATCTCTTCGCAGTGGGGTATCACATTCCCAACCCAGAGGTCATCTTCAGAATGCTAAAAGAAAAGGAGCCGCGTGTGGAGGAGG
CTGAAGTCTCACATCAGAGGTGTCAAGGTCACAACGCCGACGACATGGCGGAGACCGTGCTCATGAACTTCCTACGGGGCGACGCGGGGC
GGCTGGCCCGGGGCGGGGGCCTGGGCTCTCCCGGCGAGGGGGGCGCCCTGCCGCGCTGCCGCCCGCTGCAGTTCGCCTCGCAGAAGGAGG
TGGTGCTGTACGCGCACTTCCGCCGCCTCGACTACTTCTCCGAGGAGTGCGTCTACGCGCCCGAGGCCTTCCGCGGCCACGCCCGGGACC
TGCTCAAGCGCCTGGAGGCGGCGCGGCCGTCCGCGGTGCTGGACCTCGTGCACTCGGCCGAGCGCCTGGCGCTGGCCCCGGCCGCGCGGC
CCCCGCGCCCCGGCGCCTGCTCCCGCTGTGGGGCGCTGGCCAGCCGCGCGCTCTGCCAGGCCTGCGCGCTCCTGGACGGCCTGAACCGCG
GCCGGCCCCGCCTGGCCATCGGCAAGGGCCGCCGGGGTCTGGACGAGGAGGCGACGCCGGGGACGCCCGGGGATCCGGCCCGGCCCCCCG
CCTCCAAGGCCGTCCCCACCTTCTAGCGACTTCGGGCCTCCCGCCGGGATCTGATGCCGCGGGGTGGGGGCTGCCTGTAAATGACACTGT
GAATAAACCCGTTACCTTACCTGGCCTTCCATGTGGGGTTGGGAAGGAGACGGGGGCCCATTCACCTGAAACCCTGAAGAAGCTGGGACC
CCAGACTTCGAGGTCTCAGGGAAGAAGGGTCTCGAACTGGGCTTCAGGCTCTGAGGGAGGAGGGGGCTGGGGGACCATCCTAGGTCTGAG
AGAGGAGAGGGCCAGGACTAAGCCTAGAAGAAGTGGGACTGGGGACCCCAGGCATCTGTGGCTGAGGAAGGAGGGCCTGGGGTCGTGGAC
TCCTGGGTCTCAGGGAGGAGGGGGCTGAACACCGTGTGATTCTTGAGCGAGTGGGGATTGGTTGGGGACCTCCTGCCCAGGGCCTCTGCT
GGTTCTGGGTGCGCTCAGCATGGTCCTGACCCTCCTTGAGCATCAGATTCCTGATGTTTCCTGTTTGCCCGCAGTGGGGTAAGCGGAGCG
TGACTTGATGGACACACGCCATTCACAGCCGCCGTCACGATGCCTCCCTTCCAGCGCTTCGTGTGTAGCACGCACTGCACCCTCATTTCG
TCTCCACCACGGTCTCACTGGCTGTAGCCTGAAGTGGTAAATGGCCCTAAGACACCCAGTCGGAAGGGGTCACACCGAGGGCTCCCTCCA
AAGCTCTCGAATATCACAGGTCGTGGAATTGGTCCTCCCCCACCCATCCCCTCTCGAATCTCTCCTGGTATCTCTGTCACGGGTGAGGAG
GGGTTGGATGCGTTCCCCAAACCTTGGACTCTGGAGGCAGGGTTGTGTGAGCCTGTCGGTGACTTAGCCTCTTTCATGTCCCATTTCTCC
TATGAAAATATAATCAGCCCCCTTCCCCCCCGCCCCCCCATCCCCCCCGCATCAAGGCACCACTGGGAGGAAATGGAAGATCAGAGAAGT

>101564_101564_2_ZNF175-CTU1_ZNF175_chr19_52085135_ENST00000436511_CTU1_chr19_51602396_ENST00000421832_length(amino acids)=277AA_BP=98
MPADVNLSQKPQVLGPEKQDGSCEASVSFEDVTVDFSREEWQQLDPAQRCLYRDVMLELYSHLFAVGYHIPNPEVIFRMLKEKEPRVEEA
EVSHQRCQGHNADDMAETVLMNFLRGDAGRLARGGGLGSPGEGGALPRCRPLQFASQKEVVLYAHFRRLDYFSEECVYAPEAFRGHARDL
LKRLEAARPSAVLDLVHSAERLALAPAARPPRPGACSRCGALASRALCQACALLDGLNRGRPRLAIGKGRRGLDEEATPGTPGDPARPPA

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

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Fusion Gene PPI Analysis for ZNF175-CTU1

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 (BIOGRID-3.4.160)

Hgene

Hgene's interactors

Tgene

Tgene's interactors

- Retained PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Still interaction with

- Lost PPIs in in-frame fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

- Retained PPIs, but lost function due to frame-shift fusion.

Partner

Gene

Hbp

Tbp

ENST

Strand

BPexon

TotalExon

Protein feature loci

*BPloci

TotalLen

Interaction lost with

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Related Drugs for ZNF175-CTU1

Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)

Partner

Gene

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

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Related Diseases for ZNF175-CTU1

Diseases associated with fusion partners.
(DisGeNet 4.0)

Partner

Gene

Disease ID

Disease name

# pubmeds

Source