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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:MGRN1-MSI2 (FusionGDB2 ID:53109)

Fusion Gene Summary for MGRN1-MSI2

check button Fusion gene summary
Fusion gene informationFusion gene name: MGRN1-MSI2
Fusion gene ID: 53109
HgeneTgene
Gene symbol

MGRN1

MSI2

Gene ID

23295

124540

Gene namemahogunin ring finger 1musashi RNA binding protein 2
SynonymsRNF156MSI2H
Cytomap

16p13.3

17q22

Type of geneprotein-codingprotein-coding
DescriptionE3 ubiquitin-protein ligase MGRN1RING finger protein 156RING-type E3 ubiquitin transferase MGRN1mahogunin RING finger protein 1mahogunin ring finger 1, E3 ubiquitin protein ligaseprobable E3 ubiquitin-protein ligase MGRN1RNA-binding protein Musashi homolog 2musashi homolog 2musashi-2
Modification date2020031320200313
UniProtAcc

O60291

Q96DH6

Ensembl transtripts involved in fusion geneENST00000262370, ENST00000415496, 
ENST00000399577, ENST00000588994, 
ENST00000586183, ENST00000588015, 
ENST00000416426, ENST00000284073, 
ENST00000322684, ENST00000442934, 
ENST00000579180, ENST00000579505, 
Fusion gene scores* DoF score11 X 9 X 9=89126 X 18 X 10=4680
# samples 1730
** MAII scorelog2(17/891*10)=-2.38989068538422
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(30/4680*10)=-3.96347412397489
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: MGRN1 [Title/Abstract] AND MSI2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointMGRN1(4733933)-MSI2(55754348), # samples:2
Anticipated loss of major functional domain due to fusion event.MGRN1-MSI2 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
MGRN1-MSI2 seems lost the major protein functional domain in Tgene partner, which is a CGC due to the frame-shifted ORF.
MGRN1-MSI2 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)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneMGRN1

GO:0043951

negative regulation of cAMP-mediated signaling

19737927

HgeneMGRN1

GO:0045744

negative regulation of G protein-coupled receptor signaling pathway

19737927


check buttonFusion gene breakpoints across MGRN1 (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 MSI2 (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
ChimerDB4OVTCGA-30-1853-01AMGRN1chr16

4733933

+MSI2chr17

55754348

+
ChimerDB4OVTCGA-30-1853-01AMGRN1chr16

4733933

+MSI2chr17

55754348

+
ChimerDB4OVTCGA-30-1853-01AMGRN1chr16

4733933

+MSI2chr17

55756910

+


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Fusion Gene ORF analysis for MGRN1-MSI2

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
Frame-shiftENST00000262370ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55754348

+
Frame-shiftENST00000262370ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000262370ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000262370ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000262370ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000262370ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55754348

+
Frame-shiftENST00000415496ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55754348

+
Frame-shiftENST00000415496ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000415496ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000415496ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000415496ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000415496ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55754348

+
Frame-shiftENST00000399577ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55754348

+
Frame-shiftENST00000399577ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000399577ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000399577ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000399577ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000399577ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55754348

+
Frame-shiftENST00000588994ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55754348

+
Frame-shiftENST00000588994ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000588994ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000588994ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000588994ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000588994ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55754348

+
Frame-shiftENST00000586183ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55754348

+
Frame-shiftENST00000586183ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000586183ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000586183ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000586183ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-intronENST00000586183ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55754348

+
intron-3CDSENST00000588015ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55754348

+
intron-3CDSENST00000588015ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55754348

+
intron-intronENST00000588015ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55754348

+
intron-intronENST00000588015ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55754348

+
intron-intronENST00000588015ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55754348

+
intron-intronENST00000588015ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55754348

+
5CDS-3UTRENST00000262370ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000262370ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000262370ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000262370ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000262370ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000262370ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000415496ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000415496ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000415496ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000415496ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000415496ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000415496ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000399577ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000399577ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000399577ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000399577ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000399577ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000399577ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000588994ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000588994ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000588994ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000588994ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000588994ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000588994ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000586183ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000586183ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000586183ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-3UTRENST00000586183ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000586183ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55756910

+
5CDS-intronENST00000586183ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55756910

+
intron-3UTRENST00000588015ENST00000416426MGRN1chr16

4733933

+MSI2chr17

55756910

+
intron-3UTRENST00000588015ENST00000284073MGRN1chr16

4733933

+MSI2chr17

55756910

+
intron-intronENST00000588015ENST00000322684MGRN1chr16

4733933

+MSI2chr17

55756910

+
intron-3UTRENST00000588015ENST00000442934MGRN1chr16

4733933

+MSI2chr17

55756910

+
intron-intronENST00000588015ENST00000579180MGRN1chr16

4733933

+MSI2chr17

55756910

+
intron-intronENST00000588015ENST00000579505MGRN1chr16

4733933

+MSI2chr17

55756910

+

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 MGRN1-MSI2


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 MGRN1-MSI2


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
MGRN1

O60291

MSI2

Q96DH6

FUNCTION: E3 ubiquitin-protein ligase. Mediates monoubiquitination at multiple sites of TSG101 in the presence of UBE2D1, but not of UBE2G1, nor UBE2H. Plays a role in the regulation of endosome-to-lysosome trafficking. Impairs MC1R- and MC4R-signaling by competing with GNAS-binding to MCRs and inhibiting agonist-induced cAMP production. Does not inhibit ADRB2-signaling. Does not promote MC1R ubiquitination. Acts also as a negative regulator of hedgehog signaling (By similarity). {ECO:0000250|UniProtKB:Q9D074, ECO:0000269|PubMed:17229889, ECO:0000269|PubMed:19703557, ECO:0000269|PubMed:19737927}.FUNCTION: RNA binding protein that regulates the expression of target mRNAs at the translation level. May play a role in the proliferation and maintenance of stem cells in the central nervous system (By similarity). {ECO:0000250}.

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 MGRN1-MSI2


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 MGRN1-MSI2


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 MGRN1-MSI2


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 MGRN1-MSI2


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