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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:SPATA13-TNFRSF19 (FusionGDB2 ID:84955)

Fusion Gene Summary for SPATA13-TNFRSF19

check button Fusion gene summary
Fusion gene informationFusion gene name: SPATA13-TNFRSF19
Fusion gene ID: 84955
HgeneTgene
Gene symbol

SPATA13

TNFRSF19

Gene ID

221178

55504

Gene namespermatogenesis associated 13TNF receptor superfamily member 19
SynonymsARHGEF29|ASEF2TAJ|TAJ-alpha|TRADE|TROY
Cytomap

13q12.12

13q12.12

Type of geneprotein-codingprotein-coding
Descriptionspermatogenesis-associated protein 13APC-stimulated guanine nucleotide exchange factor 2adenomatous polyposis coli stimulated exchange factor 2tumor necrosis factor receptor superfamily member 19toxicity and JNK inducer
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000424834, ENST00000382108, 
ENST00000382095, ENST00000474317, 
ENST00000399949, ENST00000409126, 
ENST00000343003, 		ENST00000248484, 
ENST00000382263, ENST00000403372, 
ENST00000464735, ENST00000382258, 
Fusion gene scores* DoF score9 X 5 X 6=2707 X 6 X 6=252
# samples 98
** MAII scorelog2(9/270*10)=-1.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(8/252*10)=-1.65535182861255
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: SPATA13 [Title/Abstract] AND TNFRSF19 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointSPATA13(24735071)-TNFRSF19(24164289), # samples:2
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)

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 SPATA13 (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 TNFRSF19 (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
ChimerDB4READTCGA-DC-4745SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
ChimerDB4READTCGA-DC-4745SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
ChimerDB4READTCGA-DC-4745-01ASPATA13chr13

24735071

-TNFRSF19chr13

24164289

+


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Fusion Gene ORF analysis for SPATA13-TNFRSF19

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
intron-5UTRENST00000424834ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000424834ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-intronENST00000424834ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-3UTRENST00000424834ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000424834ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
5UTR-5UTRENST00000382108ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
5UTR-5UTRENST00000382108ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
5UTR-intronENST00000382108ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
5UTR-3UTRENST00000382108ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
5UTR-5UTRENST00000382108ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
5UTR-5UTRENST00000382095ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
5UTR-5UTRENST00000382095ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
5UTR-intronENST00000382095ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
5UTR-3UTRENST00000382095ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
5UTR-5UTRENST00000382095ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000474317ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000474317ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-intronENST00000474317ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-3UTRENST00000474317ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000474317ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000399949ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000399949ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-intronENST00000399949ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-3UTRENST00000399949ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000399949ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000409126ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000409126ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-intronENST00000409126ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-3UTRENST00000409126ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000409126ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000343003ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000343003ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-intronENST00000343003ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-3UTRENST00000343003ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-5UTRENST00000343003ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24164289

+
intron-3CDSENST00000424834ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-3CDSENST00000424834ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-5UTRENST00000424834ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-intronENST00000424834ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-intronENST00000424834ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
5UTR-3CDSENST00000382108ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
5UTR-3CDSENST00000382108ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
5UTR-5UTRENST00000382108ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
5UTR-intronENST00000382108ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
5UTR-intronENST00000382108ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
5UTR-3CDSENST00000382095ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
5UTR-3CDSENST00000382095ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
5UTR-5UTRENST00000382095ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
5UTR-intronENST00000382095ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
5UTR-intronENST00000382095ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-3CDSENST00000474317ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-3CDSENST00000474317ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-5UTRENST00000474317ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-intronENST00000474317ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-intronENST00000474317ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-3CDSENST00000399949ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-3CDSENST00000399949ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-5UTRENST00000399949ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-intronENST00000399949ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-intronENST00000399949ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-3CDSENST00000409126ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-3CDSENST00000409126ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-5UTRENST00000409126ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-intronENST00000409126ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-intronENST00000409126ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-3CDSENST00000343003ENST00000248484SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-3CDSENST00000343003ENST00000382263SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-5UTRENST00000343003ENST00000403372SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-intronENST00000343003ENST00000464735SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+
intron-intronENST00000343003ENST00000382258SPATA13chr13

24735071

+TNFRSF19chr13

24190006

+

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 SPATA13-TNFRSF19


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)
SPATA13chr1324735071+TNFRSF19chr1324164288+0.0001889570.9998111
SPATA13chr1324735071+TNFRSF19chr1324190005+7.99E-050.99992
SPATA13chr1324735071+TNFRSF19chr1324164288+0.0001889570.9998111
SPATA13chr1324735071+TNFRSF19chr1324190005+7.99E-050.99992

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.

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Fusion Protein Features for SPATA13-TNFRSF19


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
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.
- 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 SPATA13-TNFRSF19


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 SPATA13-TNFRSF19


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 SPATA13-TNFRSF19


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 SPATA13-TNFRSF19


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
TgeneTNFRSF19C0025202melanoma1CTD_human
TgeneTNFRSF19C0027439Nasopharyngeal Neoplasms1CTD_human
TgeneTNFRSF19C0238301Cancer of Nasopharynx1CTD_human