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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:LAMTOR5-LAMTOR5 (FusionGDB2 ID:44017)

Fusion Gene Summary for LAMTOR5-LAMTOR5

check button Fusion gene summary
Fusion gene informationFusion gene name: LAMTOR5-LAMTOR5
Fusion gene ID: 44017
HgeneTgene
Gene symbol

LAMTOR5

LAMTOR5

Gene ID

10542

10542

Gene namelate endosomal/lysosomal adaptor, MAPK and MTOR activator 5late endosomal/lysosomal adaptor, MAPK and MTOR activator 5
SynonymsHBXIP|XIPHBXIP|XIP
Cytomap

1p13.3

1p13.3

Type of geneprotein-codingprotein-coding
Descriptionragulator complex protein LAMTOR5HBV X-interacting proteinHBx-interacting proteinhepatitis B virus x interacting proteinhepatitis B virus x-interacting protein (9.6kD)late endosomal/lysosomal adaptor and MAPK and MTOR activator 5ragulator complex protein LAMTOR5HBV X-interacting proteinHBx-interacting proteinhepatitis B virus x interacting proteinhepatitis B virus x-interacting protein (9.6kD)late endosomal/lysosomal adaptor and MAPK and MTOR activator 5
Modification date2020032920200329
UniProtAcc

O43504

O43504

Ensembl transtripts involved in fusion geneENST00000256644, ENST00000474861, 
ENST00000483260, ENST00000602318, 
ENST00000602858, 		ENST00000256644, 
ENST00000474861, ENST00000483260, 
ENST00000602318, ENST00000602858, 
Fusion gene scores* DoF score2 X 2 X 1=42 X 2 X 2=8
# samples 22
** MAII scorelog2(2/4*10)=2.32192809488736log2(2/8*10)=1.32192809488736
Context

PubMed: LAMTOR5 [Title/Abstract] AND LAMTOR5 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointLAMTOR5(110950286)-LAMTOR5(110944163), # 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
HgeneLAMTOR5

GO:0043066

negative regulation of apoptotic process

12773388

HgeneLAMTOR5

GO:0043123

positive regulation of I-kappaB kinase/NF-kappaB signaling

21343296

HgeneLAMTOR5

GO:0043154

negative regulation of cysteine-type endopeptidase activity involved in apoptotic process

12773388

HgeneLAMTOR5

GO:1900182

positive regulation of protein localization to nucleus

21343296

HgeneLAMTOR5

GO:1905636

positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding

21343296

TgeneLAMTOR5

GO:0043066

negative regulation of apoptotic process

12773388

TgeneLAMTOR5

GO:0043123

positive regulation of I-kappaB kinase/NF-kappaB signaling

21343296

TgeneLAMTOR5

GO:0043154

negative regulation of cysteine-type endopeptidase activity involved in apoptotic process

12773388

TgeneLAMTOR5

GO:1900182

positive regulation of protein localization to nucleus

21343296

TgeneLAMTOR5

GO:1905636

positive regulation of RNA polymerase II regulatory region sequence-specific DNA binding

21343296


check buttonFusion gene breakpoints across LAMTOR5 (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 LAMTOR5 (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/ACB159127LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-


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Fusion Gene ORF analysis for LAMTOR5-LAMTOR5

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-3CDSENST00000256644ENST00000256644LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000256644ENST00000474861LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000256644ENST00000483260LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000256644ENST00000602318LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000256644ENST00000602858LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000474861ENST00000256644LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000474861ENST00000474861LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000474861ENST00000483260LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000474861ENST00000602318LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000474861ENST00000602858LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000483260ENST00000256644LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000483260ENST00000474861LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000483260ENST00000483260LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000483260ENST00000602318LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000483260ENST00000602858LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000602318ENST00000256644LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000602318ENST00000474861LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000602318ENST00000483260LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000602318ENST00000602318LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000602318ENST00000602858LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000602858ENST00000256644LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000602858ENST00000474861LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000602858ENST00000483260LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000602858ENST00000602318LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-
intron-3CDSENST00000602858ENST00000602858LAMTOR5chr1

110950286

+LAMTOR5chr1

110944163

-

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 LAMTOR5-LAMTOR5


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 LAMTOR5-LAMTOR5


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/:110950286/:110944163)
- 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
LAMTOR5

O43504

LAMTOR5

O43504

FUNCTION: As part of the Ragulator complex it is involved in amino acid sensing and activation of mTORC1, a signaling complex promoting cell growth in response to growth factors, energy levels, and amino acids. Activated by amino acids through a mechanism involving the lysosomal V-ATPase, the Ragulator functions as a guanine nucleotide exchange factor activating the small GTPases Rag. Activated Ragulator and Rag GTPases function as a scaffold recruiting mTORC1 to lysosomes where it is in turn activated. When complexed to BIRC5, interferes with apoptosome assembly, preventing recruitment of pro-caspase-9 to oligomerized APAF1, thereby selectively suppressing apoptosis initiated via the mitochondrial/cytochrome c pathway. Down-regulates hepatitis B virus (HBV) replication. {ECO:0000269|PubMed:12773388, ECO:0000269|PubMed:22980980}.FUNCTION: As part of the Ragulator complex it is involved in amino acid sensing and activation of mTORC1, a signaling complex promoting cell growth in response to growth factors, energy levels, and amino acids. Activated by amino acids through a mechanism involving the lysosomal V-ATPase, the Ragulator functions as a guanine nucleotide exchange factor activating the small GTPases Rag. Activated Ragulator and Rag GTPases function as a scaffold recruiting mTORC1 to lysosomes where it is in turn activated. When complexed to BIRC5, interferes with apoptosome assembly, preventing recruitment of pro-caspase-9 to oligomerized APAF1, thereby selectively suppressing apoptosis initiated via the mitochondrial/cytochrome c pathway. Down-regulates hepatitis B virus (HBV) replication. {ECO:0000269|PubMed:12773388, ECO:0000269|PubMed:22980980}.

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 LAMTOR5-LAMTOR5


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 LAMTOR5-LAMTOR5


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 LAMTOR5-LAMTOR5


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 LAMTOR5-LAMTOR5


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