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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:MID1-EBF1 (FusionGDB2 ID:53590)

Fusion Gene Summary for MID1-EBF1

check button Fusion gene summary
Fusion gene informationFusion gene name: MID1-EBF1
Fusion gene ID: 53590
HgeneTgene
Gene symbol

MID1

EBF1

Gene ID

4281

1879

Gene namemidline 1EBF transcription factor 1
SynonymsBBBG1|FXY|GBBB1|MIDIN|OGS1|OS|OSX|RNF59|TRIM18|XPRF|ZNFXYCOE1|EBF|O/E-1|OLF1
Cytomap

Xp22.2

5q33.3

Type of geneprotein-codingprotein-coding
DescriptionE3 ubiquitin-protein ligase Midline-1Opitz/BBB syndromeRING finger protein 59RING finger protein Midline-1RING-type E3 ubiquitin transferase Midline-1midline 1 RING finger proteinputative transcription factor XPRFtripartite motif protein TRIM18tritranscription factor COE1Collier, Olf and EBF transcription factor 1early B cell factor 1olfactory neuronal transcription factor 1
Modification date2020031320200320
UniProtAcc

O15344

Q9UH73

Ensembl transtripts involved in fusion geneENST00000317552, ENST00000380779, 
ENST00000380780, ENST00000380782, 
ENST00000380785, ENST00000380787, 
ENST00000453318, ENST00000479925, 
ENST00000313708, ENST00000380654, 
ENST00000517373, ENST00000518836, 
Fusion gene scores* DoF score13 X 10 X 8=104013 X 13 X 4=676
# samples 1512
** MAII scorelog2(15/1040*10)=-2.79354912253257
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(12/676*10)=-2.49398884067367
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: MID1 [Title/Abstract] AND EBF1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointMID1(10471632)-EBF1(158163350), # 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

check buttonFusion gene breakpoints across MID1 (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 EBF1 (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
ChiTaRS5.0N/AFN082041MID1chrX

10471632

+EBF1chr5

158163350

+


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Fusion Gene ORF analysis for MID1-EBF1

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-intronENST00000317552ENST00000313708MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000317552ENST00000380654MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000317552ENST00000517373MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000317552ENST00000518836MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380779ENST00000313708MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380779ENST00000380654MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380779ENST00000517373MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380779ENST00000518836MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380780ENST00000313708MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380780ENST00000380654MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380780ENST00000517373MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380780ENST00000518836MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380782ENST00000313708MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380782ENST00000380654MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380782ENST00000517373MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380782ENST00000518836MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380785ENST00000313708MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380785ENST00000380654MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380785ENST00000517373MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380785ENST00000518836MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380787ENST00000313708MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380787ENST00000380654MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380787ENST00000517373MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000380787ENST00000518836MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000453318ENST00000313708MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000453318ENST00000380654MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000453318ENST00000517373MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000453318ENST00000518836MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000479925ENST00000313708MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000479925ENST00000380654MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000479925ENST00000517373MID1chrX

10471632

+EBF1chr5

158163350

+
intron-intronENST00000479925ENST00000518836MID1chrX

10471632

+EBF1chr5

158163350

+

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 MID1-EBF1


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)

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 MID1-EBF1


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/:10471632/:158163350)
- 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 buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
MID1

O15344

EBF1

Q9UH73

FUNCTION: Has E3 ubiquitin ligase activity towards IGBP1, promoting its monoubiquitination, which results in deprotection of the catalytic subunit of protein phosphatase PP2A, and its subsequent degradation by polyubiquitination. {ECO:0000269|PubMed:10400985, ECO:0000269|PubMed:11685209, ECO:0000269|PubMed:22613722}.FUNCTION: Key pioneer transcription factor of B-cell specification and commitment (PubMed:27807034). Recognizes variations of the palindromic sequence 5'-ATTCCCNNGGGAATT-3'. Operates in a transcription factor network to activate B-cell-specific genes and repress genes associated with alternative cell fates. For instance, positively regulates many B-cell specific genes including BCR or CD40 while repressing genes that direct cells into alternative lineages, including GATA3 and TCF7 for the T-cell lineage. In addition to its role during lymphopoiesis, controls the thermogenic gene program in adipocytes during development and in response to environmental cold (By similarity). {ECO:0000250|UniProtKB:Q07802, ECO:0000269|PubMed:27807034}.; FUNCTION: (Microbial infection) Acts as a chromatin anchor for Epstein-Barr virus EBNA2 to mediate the assembly of EBNA2 chromatin complexes in B-cells (PubMed:28968461). In addition, binds to the viral LMP1 proximal promoter and promotes its expression during latency (PubMed:26819314). {ECO:0000269|PubMed:26819314, ECO:0000269|PubMed:28968461}.

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 MID1-EBF1


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 MID1-EBF1


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 MID1-EBF1


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 MID1-EBF1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource