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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:STAG2-XIAP (FusionGDB2 ID:86505)

Fusion Gene Summary for STAG2-XIAP

check button Fusion gene summary
Fusion gene informationFusion gene name: STAG2-XIAP
Fusion gene ID: 86505
HgeneTgene
Gene symbol

STAG2

XIAP

Gene ID

10735

331

Gene namestromal antigen 2X-linked inhibitor of apoptosis
SynonymsMKMS|NEDXCF|SA-2|SA2|SCC3B|bA517O1.1API3|BIRC4|IAP-3|ILP1|MIHA|XLP2|hIAP-3|hIAP3
Cytomap

Xq25

Xq25

Type of geneprotein-codingprotein-coding
Descriptioncohesin subunit SA-2SCC3 homolog 2E3 ubiquitin-protein ligase XIAPIAP-like proteinIAP-like protein 1RING-type E3 ubiquitin transferase XIAPX-linked IAPX-linked inhibitor of apoptosis, E3 ubiquitin protein ligasebaculoviral IAP repeat-containing protein 4inhibitor of apoptosis prote
Modification date2020032720200327
UniProtAcc.

XAF1

Ensembl transtripts involved in fusion geneENST00000218089, ENST00000469481, 
ENST00000354548, ENST00000371160, 
ENST00000371157, ENST00000371145, 
ENST00000371144, 		ENST00000434753, 
ENST00000468691, ENST00000371199, 
ENST00000355640, 
Fusion gene scores* DoF score14 X 16 X 7=15688 X 9 X 2=144
# samples 209
** MAII scorelog2(20/1568*10)=-2.97085365434048
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(9/144*10)=-0.678071905112638
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: STAG2 [Title/Abstract] AND XIAP [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointSTAG2(123094716)-XIAP(123034343), # samples:2
XIAP(122994143)-STAG2(123155216), # 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
TgeneXIAP

GO:0031398

positive regulation of protein ubiquitination

21931591

TgeneXIAP

GO:0043154

negative regulation of cysteine-type endopeptidase activity involved in apoptotic process

11583623

TgeneXIAP

GO:1902530

positive regulation of protein linear polyubiquitination

21931591


check buttonFusion gene breakpoints across STAG2 (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 XIAP (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-A2-A25B-01ASTAG2chrX

123094716

+XIAPchrX

123034343

+
ChimerDB4BRCATCGA-A2-A25B-01ASTAG2chrX

123094716

-XIAPchrX

123034343

+


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Fusion Gene ORF analysis for STAG2-XIAP

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
5UTR-3CDSENST00000218089ENST00000434753STAG2chrX

123094716

+XIAPchrX

123034343

+
5UTR-3UTRENST00000218089ENST00000468691STAG2chrX

123094716

+XIAPchrX

123034343

+
5UTR-3UTRENST00000218089ENST00000371199STAG2chrX

123094716

+XIAPchrX

123034343

+
5UTR-3UTRENST00000218089ENST00000355640STAG2chrX

123094716

+XIAPchrX

123034343

+
3UTR-3CDSENST00000469481ENST00000434753STAG2chrX

123094716

+XIAPchrX

123034343

+
3UTR-3UTRENST00000469481ENST00000468691STAG2chrX

123094716

+XIAPchrX

123034343

+
3UTR-3UTRENST00000469481ENST00000371199STAG2chrX

123094716

+XIAPchrX

123034343

+
3UTR-3UTRENST00000469481ENST00000355640STAG2chrX

123094716

+XIAPchrX

123034343

+
5UTR-3CDSENST00000354548ENST00000434753STAG2chrX

123094716

+XIAPchrX

123034343

+
5UTR-3UTRENST00000354548ENST00000468691STAG2chrX

123094716

+XIAPchrX

123034343

+
5UTR-3UTRENST00000354548ENST00000371199STAG2chrX

123094716

+XIAPchrX

123034343

+
5UTR-3UTRENST00000354548ENST00000355640STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3CDSENST00000371160ENST00000434753STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371160ENST00000468691STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371160ENST00000371199STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371160ENST00000355640STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3CDSENST00000371157ENST00000434753STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371157ENST00000468691STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371157ENST00000371199STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371157ENST00000355640STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3CDSENST00000371145ENST00000434753STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371145ENST00000468691STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371145ENST00000371199STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371145ENST00000355640STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3CDSENST00000371144ENST00000434753STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371144ENST00000468691STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371144ENST00000371199STAG2chrX

123094716

+XIAPchrX

123034343

+
intron-3UTRENST00000371144ENST00000355640STAG2chrX

123094716

+XIAPchrX

123034343

+

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 STAG2-XIAP


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)
STAG2chrX123094716+XIAPchrX123034342+3.31E-081
STAG2chrX123094716+XIAPchrX123034342+3.31E-081

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 STAG2-XIAP


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
.XIAP

XAF1

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.301

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 STAG2-XIAP


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 STAG2-XIAP


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 STAG2-XIAP


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 STAG2-XIAP


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneSTAG2C0005684Malignant neoplasm of urinary bladder3CGI;CTD_human
HgeneSTAG2C0005695Bladder Neoplasm3CGI;CTD_human
HgeneSTAG2C4310830Xq25 TRIPLICATION SYNDROME2ORPHANET
HgeneSTAG2C4311049Xq25 DUPLICATION SYNDROME2ORPHANET
HgeneSTAG2C0007138Carcinoma, Transitional Cell1CTD_human
HgeneSTAG2C0018798Congenital Heart Defects1GENOMICS_ENGLAND
HgeneSTAG2C0023466Leukemia, Monocytic, Chronic1CTD_human
HgeneSTAG2C0023470Myeloid Leukemia1CTD_human
HgeneSTAG2C0025958Microcephaly1GENOMICS_ENGLAND
HgeneSTAG2C0456070Growth delay1GENOMICS_ENGLAND
HgeneSTAG2C0557874Global developmental delay1GENOMICS_ENGLAND
HgeneSTAG2C1384666hearing impairment1GENOMICS_ENGLAND
HgeneSTAG2C1860789Leukemia, Megakaryoblastic, of Down Syndrome1CTD_human
HgeneSTAG2C2713368Hematopoetic Myelodysplasia1CTD_human
HgeneSTAG2C3463824MYELODYSPLASTIC SYNDROME1CTD_human
HgeneSTAG2C3714756Intellectual Disability1GENOMICS_ENGLAND
HgeneSTAG2C4021817Abnormality of head or neck1GENOMICS_ENGLAND
TgeneXIAPC1845076Lymphoproliferative Syndrome, X-Linked, 22CTD_human;GENOMICS_ENGLAND
TgeneXIAPC0014859Esophageal Neoplasms1CTD_human
TgeneXIAPC0021390Inflammatory Bowel Diseases1GENOMICS_ENGLAND
TgeneXIAPC0024291Lymphohistiocytosis, Hemophagocytic1GENOMICS_ENGLAND
TgeneXIAPC0024668Mammary Neoplasms, Experimental1CTD_human
TgeneXIAPC0027055Myocardial Reperfusion Injury1CTD_human
TgeneXIAPC0038002Splenomegaly1GENOMICS_ENGLAND
TgeneXIAPC0546837Malignant neoplasm of esophagus1CTD_human
TgeneXIAPC0919267ovarian neoplasm1CTD_human
TgeneXIAPC1140680Malignant neoplasm of ovary1CTD_human
TgeneXIAPC1862939AMYOTROPHIC LATERAL SCLEROSIS 11CTD_human
TgeneXIAPC1862941Amyotrophic Lateral Sclerosis, Sporadic1CTD_human
TgeneXIAPC4551993Amyotrophic Lateral Sclerosis, Familial1CTD_human