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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:TEX41-GRM1 (FusionGDB2 ID:HG401014TG2911)

Fusion Gene Summary for TEX41-GRM1

check button Fusion gene summary
Fusion gene informationFusion gene name: TEX41-GRM1
Fusion gene ID: hg401014tg2911
HgeneTgene
Gene symbol

TEX41

GRM1

Gene ID

401014

2911

Gene nametestis expressed 41glutamate metabotropic receptor 1
SynonymsDKFZp686O1327|LINC00953GPRC1A|MGLU1|MGLUR1|PPP1R85|SCA44|SCAR13
Cytomap('TEX41')('GRM1')

2q22.3

6q24.3

Type of genencRNAprotein-coding
Descriptionlong intergenic non-protein coding RNA 953testis expressed 41 (non-protein coding)metabotropic glutamate receptor 1glutamate receptor, metabotropic 1protein phosphatase 1, regulatory subunit 85
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000445791, 
Fusion gene scores* DoF score2 X 2 X 2=84 X 3 X 3=36
# samples 24
** MAII scorelog2(2/8*10)=1.32192809488736log2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: TEX41 [Title/Abstract] AND GRM1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointTEX41(145929698)-GRM1(146348784), # 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
TgeneGRM1

GO:0007186

G protein-coupled receptor signaling pathway

24603153



check button Fusion gene information
* 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
ChimerDB4SKCMTCGA-ER-A197-06ATEX41chr2

145929698

+GRM1chr6

146348784

+


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Fusion Gene ORF analysis for TEX41-GRM1

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-3CDSENST00000445791ENST00000361719TEX41chr2

145929698

+GRM1chr6

146348784

+
intron-3CDSENST00000445791ENST00000392299TEX41chr2

145929698

+GRM1chr6

146348784

+
intron-intronENST00000445791ENST00000282753TEX41chr2

145929698

+GRM1chr6

146348784

+
intron-intronENST00000445791ENST00000355289TEX41chr2

145929698

+GRM1chr6

146348784

+
intron-intronENST00000445791ENST00000492807TEX41chr2

145929698

+GRM1chr6

146348784

+
intron-intronENST00000445791ENST00000507907TEX41chr2

145929698

+GRM1chr6

146348784

+

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 TEX41-GRM1


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 TEX41-GRM1


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/:145929698/:146348784)
- 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 TEX41-GRM1


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 TEX41-GRM1


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 TEX41-GRM1


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 TEX41-GRM1


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneTEX41C0004238Atrial Fibrillation2CTD_human
HgeneTEX41C0235480Paroxysmal atrial fibrillation2CTD_human
HgeneTEX41C2585653Persistent atrial fibrillation2CTD_human
HgeneTEX41C3468561familial atrial fibrillation2CTD_human
TgeneC0011570Mental Depression5PSYGENET
TgeneC0011581Depressive disorder5PSYGENET
TgeneC0036341Schizophrenia2PSYGENET
TgeneC0038220Status Epilepticus2CTD_human
TgeneC0270823Petit mal status2CTD_human
TgeneC0311335Grand Mal Status Epilepticus2CTD_human
TgeneC0393734Complex Partial Status Epilepticus2CTD_human
TgeneC0751522Status Epilepticus, Subclinical2CTD_human
TgeneC0751523Non-Convulsive Status Epilepticus2CTD_human
TgeneC0751524Simple Partial Status Epilepticus2CTD_human
TgeneC3553816SPINOCEREBELLAR ATAXIA, AUTOSOMAL RECESSIVE 132GENOMICS_ENGLAND;ORPHANET;UNIPROT
TgeneC0001973Alcoholic Intoxication, Chronic1PSYGENET
TgeneC0014544Epilepsy1CTD_human
TgeneC0014556Epilepsy, Temporal Lobe1CTD_human
TgeneC0014558Uncinate Epilepsy1CTD_human
TgeneC0016045fibroma1CTD_human
TgeneC0016048Fibromatosis1CTD_human
TgeneC0041671Attention Deficit Disorder1CTD_human
TgeneC0041696Unipolar Depression1PSYGENET
TgeneC0086237Epilepsy, Cryptogenic1CTD_human
TgeneC0205766Myxofibroma1CTD_human
TgeneC0206639Neoplasms, Bone Tissue1CTD_human
TgeneC0221290Chondromyxoid fibroma1ORPHANET
TgeneC0236018Aura1CTD_human
TgeneC0393672Epilepsy, Benign Psychomotor, Childhood1CTD_human
TgeneC0393682Epilepsy, Lateral Temporal1CTD_human
TgeneC0751111Awakening Epilepsy1CTD_human
TgeneC1263846Attention deficit hyperactivity disorder1CTD_human
TgeneC1321905Minimal Brain Dysfunction1CTD_human
TgeneC4521563SPINOCEREBELLAR ATAXIA 441GENOMICS_ENGLAND;UNIPROT