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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:MEIS2-IQSEC2 (FusionGDB2 ID:HG4212TG23096)

Fusion Gene Summary for MEIS2-IQSEC2

check button Fusion gene summary
Fusion gene informationFusion gene name: MEIS2-IQSEC2
Fusion gene ID: hg4212tg23096
HgeneTgene
Gene symbol

MEIS2

IQSEC2

Gene ID

4212

23096

Gene nameMeis homeobox 2IQ motif and Sec7 domain ArfGEF 2
SynonymsCPCMR|HsT18361|MRG1BRAG1|IQ-ArfGEF|MRX1|MRX18|MRX78
Cytomap('MEIS2')('IQSEC2')

15q14

Xp11.22

Type of geneprotein-codingprotein-coding
Descriptionhomeobox protein Meis2Meis homolog 2Meis1, myeloid ecotropic viral integration site 1 homolog 2Meis1-related gene 1TALE homeobox protein Meis2meis1-related protein 1IQ motif and SEC7 domain-containing protein 2IQ motif and Sec7 domain 2brefeldin A resistant Arf-guanine nucleotide exchange factor 1brefeldin A resistant Arf-guanine nucleotide exchange factor 1bbrefeldin A resistant Arf-guanine nucleotide exchange f
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000219869, ENST00000338564, 
ENST00000340545, ENST00000382766, 
ENST00000397620, ENST00000397624, 
ENST00000424352, ENST00000444725, 
ENST00000557796, ENST00000559085, 
ENST00000559408, ENST00000559561, 
ENST00000561208, 
Fusion gene scores* DoF score25 X 16 X 6=24005 X 5 X 1=25
# samples 275
** MAII scorelog2(27/2400*10)=-3.15200309344505
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(5/25*10)=1
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: MEIS2 [Title/Abstract] AND IQSEC2 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointMEIS2(37198848)-IQSEC2(53295510), # 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
HgeneMEIS2

GO:0045931

positive regulation of mitotic cell cycle

26512644

HgeneMEIS2

GO:0045944

positive regulation of transcription by RNA polymerase II

10764806

HgeneMEIS2

GO:0110024

positive regulation of cardiac muscle myoblast proliferation

26512644

TgeneIQSEC2

GO:0050804

modulation of chemical synaptic transmission

27009485

TgeneIQSEC2

GO:0098696

regulation of neurotransmitter receptor localization to postsynaptic specialization membrane

27009485



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/ACB050326MEIS2chr15

37198848

-IQSEC2chrX

53295510

+


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Fusion Gene ORF analysis for MEIS2-IQSEC2

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-intronENST00000219869ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000219869ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000219869ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000219869ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000338564ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000338564ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000338564ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000338564ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000340545ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000340545ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000340545ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000340545ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000382766ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000382766ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000382766ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000382766ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000397620ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000397620ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000397620ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000397620ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000397624ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000397624ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000397624ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000397624ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000424352ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000424352ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000424352ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000424352ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000444725ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000444725ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000444725ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000444725ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000557796ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000557796ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000557796ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000557796ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559085ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559085ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559085ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559085ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559408ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559408ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559408ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559408ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559561ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559561ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559561ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000559561ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000561208ENST00000375365MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000561208ENST00000375368MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000561208ENST00000396435MEIS2chr15

37198848

-IQSEC2chrX

53295510

+
intron-intronENST00000561208ENST00000462054MEIS2chr15

37198848

-IQSEC2chrX

53295510

+

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 MEIS2-IQSEC2


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)


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Fusion Protein Features for MEIS2-IQSEC2


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/:37198848/:53295510)
- 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
..
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: 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}.

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 MEIS2-IQSEC2


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 MEIS2-IQSEC2


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 MEIS2-IQSEC2


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 MEIS2-IQSEC2


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneMEIS2C4225666CHROMOSOME 15q14 DELETION SYNDROME6ORPHANET
HgeneMEIS2C3714756Intellectual Disability2GENOMICS_ENGLAND
HgeneMEIS2C0008925Cleft Palate1GENOMICS_ENGLAND
HgeneMEIS2C0018798Congenital Heart Defects1GENOMICS_ENGLAND
HgeneMEIS2C0741916Cardiac defects1GENOMICS_ENGLAND
HgeneMEIS2C1832950Cardiac Malformation, Cleft Lip-Palate, Microcephaly and Digital Anomalies1CTD_human;GENOMICS_ENGLAND
HgeneMEIS2C4021813Oral cleft1GENOMICS_ENGLAND
TgeneC2931498Mental Retardation, X-Linked 12CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneC0014544Epilepsy1CTD_human
TgeneC0086237Epilepsy, Cryptogenic1CTD_human
TgeneC0236018Aura1CTD_human
TgeneC0751111Awakening Epilepsy1CTD_human
TgeneC0795864Smith-Magenis syndrome1ORPHANET
TgeneC1136249Mental Retardation, X-Linked1CTD_human
TgeneC1535926Neurodevelopmental Disorders1CTD_human
TgeneC1845181MENTAL RETARDATION, X-LINKED 781CTD_human
TgeneC2749022Chromosome Xp11.23-P11.22 Duplication Syndrome1ORPHANET