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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:RABL6-TMEM141 (FusionGDB2 ID:71611)

Fusion Gene Summary for RABL6-TMEM141

check button Fusion gene summary
Fusion gene informationFusion gene name: RABL6-TMEM141
Fusion gene ID: 71611
HgeneTgene
Gene symbol

RABL6

TMEM141

Gene ID

55684

85014

Gene nameRAB, member RAS oncogene family like 6transmembrane protein 141
SynonymsC9orf86|PARF|RBEL1|pp8875-
Cytomap

9q34.3

9q34.3

Type of geneprotein-codingprotein-coding
Descriptionrab-like protein 6Rab-like GTP-binding protein 1Cpartner of ARFputative GTP-binding protein Parftransmembrane protein 141
Modification date2020031320200320
UniProtAcc

Q3YEC7

.
Ensembl transtripts involved in fusion geneENST00000311502, ENST00000357466, 
ENST00000371663, ENST00000371671, 
ENST00000371675, ENST00000432842, 
ENST00000466096, 		ENST00000465017, 
ENST00000290079, 
Fusion gene scores* DoF score6 X 6 X 4=1443 X 4 X 3=36
# samples 74
** MAII scorelog2(7/144*10)=-1.04064198449735
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(4/36*10)=0.15200309344505
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: RABL6 [Title/Abstract] AND TMEM141 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointRABL6(139702778)-TMEM141(139686703), # samples:3
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 RABL6 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check buttonFusion gene breakpoints across TMEM141 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

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-13-0913-01ARABL6chr9

139702778

+TMEM141chr9

139686399

+
ChimerDB4OVTCGA-13-0913-01ARABL6chr9

139702778

+TMEM141chr9

139686703

+
ChimerDB4OVTCGA-13-0913-02ARABL6chr9

139702778

+TMEM141chr9

139686399

+
ChimerDB4OVTCGA-13-0913-02ARABL6chr9

139702778

+TMEM141chr9

139686703

+


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Fusion Gene ORF analysis for RABL6-TMEM141

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
5CDS-3UTRENST00000311502ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686703

+
5CDS-3UTRENST00000311502ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686399

+
5CDS-3UTRENST00000357466ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686703

+
5CDS-3UTRENST00000357466ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686399

+
5CDS-3UTRENST00000371663ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686703

+
5CDS-3UTRENST00000371663ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686399

+
5CDS-3UTRENST00000371671ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686703

+
5CDS-3UTRENST00000371671ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686399

+
In-frameENST00000311502ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686703

+
In-frameENST00000311502ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686399

+
In-frameENST00000357466ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686703

+
In-frameENST00000357466ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686399

+
In-frameENST00000371663ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686703

+
In-frameENST00000371663ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686399

+
In-frameENST00000371671ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686703

+
In-frameENST00000371671ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686399

+
intron-3CDSENST00000371675ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686703

+
intron-3CDSENST00000371675ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686399

+
intron-3CDSENST00000432842ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686703

+
intron-3CDSENST00000432842ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686399

+
intron-3CDSENST00000466096ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686703

+
intron-3CDSENST00000466096ENST00000290079RABL6chr9

139702778

+TMEM141chr9

139686399

+
intron-3UTRENST00000371675ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686703

+
intron-3UTRENST00000371675ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686399

+
intron-3UTRENST00000432842ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686703

+
intron-3UTRENST00000432842ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686399

+
intron-3UTRENST00000466096ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686703

+
intron-3UTRENST00000466096ENST00000465017RABL6chr9

139702778

+TMEM141chr9

139686399

+

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 RABL6-TMEM141


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)
RABL6chr9139702778+TMEM141chr9139686398+0.0009001370.99909985
RABL6chr9139702778+TMEM141chr9139686702+6.11E-070.9999994
RABL6chr9139702778+TMEM141chr9139686702+6.11E-070.9999994
RABL6chr9139702778+TMEM141chr9139686398+0.0009001370.99909985
RABL6chr9139702778+TMEM141chr9139686702+6.11E-070.9999994
RABL6chr9139702778+TMEM141chr9139686702+6.11E-070.9999994

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.
genomic feature

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.
genomic feature of top 1%

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Fusion Protein Features for RABL6-TMEM141


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/chr9:139702778/chr9:139686703)
- 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
RABL6

Q3YEC7

.
FUNCTION: May enhance cellular proliferation. May reduce growth inhibitory activity of CDKN2A. {ECO:0000269|PubMed:16582619}.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
TgeneTMEM141chr9:139702778chr9:139686399ENST000002900791558_7840109.0TransmembraneHelical

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneRABL6chr9:139702778chr9:139686399ENST00000311502+115293_38443730.0Compositional biasNote=Pro-rich
HgeneRABL6chr9:139702778chr9:139686399ENST00000311502+115645_68543730.0Compositional biasNote=Lys-rich
HgeneRABL6chr9:139702778chr9:139686399ENST00000357466+110293_38443521.0Compositional biasNote=Pro-rich
HgeneRABL6chr9:139702778chr9:139686399ENST00000357466+110645_68543521.0Compositional biasNote=Lys-rich
HgeneRABL6chr9:139702778chr9:139686399ENST00000371663+115293_38443731.0Compositional biasNote=Pro-rich
HgeneRABL6chr9:139702778chr9:139686399ENST00000371663+115645_68543731.0Compositional biasNote=Lys-rich
HgeneRABL6chr9:139702778chr9:139686399ENST00000371671+18293_38443315.0Compositional biasNote=Pro-rich
HgeneRABL6chr9:139702778chr9:139686399ENST00000371671+18645_68543315.0Compositional biasNote=Lys-rich
HgeneRABL6chr9:139702778chr9:139686703ENST00000311502+115293_38443730.0Compositional biasNote=Pro-rich
HgeneRABL6chr9:139702778chr9:139686703ENST00000311502+115645_68543730.0Compositional biasNote=Lys-rich
HgeneRABL6chr9:139702778chr9:139686703ENST00000357466+110293_38443521.0Compositional biasNote=Pro-rich
HgeneRABL6chr9:139702778chr9:139686703ENST00000357466+110645_68543521.0Compositional biasNote=Lys-rich
HgeneRABL6chr9:139702778chr9:139686703ENST00000371663+115293_38443731.0Compositional biasNote=Pro-rich
HgeneRABL6chr9:139702778chr9:139686703ENST00000371663+115645_68543731.0Compositional biasNote=Lys-rich
HgeneRABL6chr9:139702778chr9:139686703ENST00000371671+18293_38443315.0Compositional biasNote=Pro-rich
HgeneRABL6chr9:139702778chr9:139686703ENST00000371671+18645_68543315.0Compositional biasNote=Lys-rich
HgeneRABL6chr9:139702778chr9:139686399ENST00000311502+115100_10443730.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000311502+115177_17943730.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000311502+11550_5743730.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000357466+110100_10443521.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000357466+110177_17943521.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000357466+11050_5743521.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000371663+115100_10443731.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000371663+115177_17943731.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000371663+11550_5743731.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000371671+18100_10443315.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000371671+18177_17943315.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000371671+1850_5743315.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000311502+115100_10443730.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000311502+115177_17943730.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000311502+11550_5743730.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000357466+110100_10443521.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000357466+110177_17943521.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000357466+11050_5743521.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000371663+115100_10443731.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000371663+115177_17943731.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000371663+11550_5743731.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000371671+18100_10443315.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000371671+18177_17943315.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686703ENST00000371671+1850_5743315.0Nucleotide bindingGTP
HgeneRABL6chr9:139702778chr9:139686399ENST00000311502+11539_27943730.0RegionNote=Small GTPase-like
HgeneRABL6chr9:139702778chr9:139686399ENST00000357466+11039_27943521.0RegionNote=Small GTPase-like
HgeneRABL6chr9:139702778chr9:139686399ENST00000371663+11539_27943731.0RegionNote=Small GTPase-like
HgeneRABL6chr9:139702778chr9:139686399ENST00000371671+1839_27943315.0RegionNote=Small GTPase-like
HgeneRABL6chr9:139702778chr9:139686703ENST00000311502+11539_27943730.0RegionNote=Small GTPase-like
HgeneRABL6chr9:139702778chr9:139686703ENST00000357466+11039_27943521.0RegionNote=Small GTPase-like
HgeneRABL6chr9:139702778chr9:139686703ENST00000371663+11539_27943731.0RegionNote=Small GTPase-like
HgeneRABL6chr9:139702778chr9:139686703ENST00000371671+1839_27943315.0RegionNote=Small GTPase-like
TgeneTMEM141chr9:139702778chr9:139686399ENST000002900791532_5240109.0TransmembraneHelical
TgeneTMEM141chr9:139702778chr9:139686703ENST000002900792532_5268109.0TransmembraneHelical
TgeneTMEM141chr9:139702778chr9:139686703ENST000002900792558_7868109.0TransmembraneHelical


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Fusion Gene Sequence for RABL6-TMEM141


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 RABL6-TMEM141


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
HgeneRABL6chr9:139702778chr9:139686399ENST00000311502+115655_69343.333333333333336730.0CDKN2A
HgeneRABL6chr9:139702778chr9:139686399ENST00000357466+110655_69343.333333333333336521.0CDKN2A
HgeneRABL6chr9:139702778chr9:139686399ENST00000371663+115655_69343.333333333333336731.0CDKN2A
HgeneRABL6chr9:139702778chr9:139686399ENST00000371671+18655_69343.333333333333336315.0CDKN2A
HgeneRABL6chr9:139702778chr9:139686703ENST00000311502+115655_69343.333333333333336730.0CDKN2A
HgeneRABL6chr9:139702778chr9:139686703ENST00000357466+110655_69343.333333333333336521.0CDKN2A
HgeneRABL6chr9:139702778chr9:139686703ENST00000371663+115655_69343.333333333333336731.0CDKN2A
HgeneRABL6chr9:139702778chr9:139686703ENST00000371671+18655_69343.333333333333336315.0CDKN2A


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 RABL6-TMEM141


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 RABL6-TMEM141


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