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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:ELAC2-LSR (FusionGDB2 ID:26125)

Fusion Gene Summary for ELAC2-LSR

check button Fusion gene summary
Fusion gene informationFusion gene name: ELAC2-LSR
Fusion gene ID: 26125
HgeneTgene
Gene symbol

ELAC2

LSR

Gene ID

60528

51599

Gene nameelaC ribonuclease Z 2lipolysis stimulated lipoprotein receptor
SynonymsCOXPD17|ELC2|HPC2ILDR3|LISCH7
Cytomap

17p12

19q13.12

Type of geneprotein-codingprotein-coding
Descriptionzinc phosphodiesterase ELAC protein 2RNase Z 2elaC homolog 2elaC homolog protein 2elaC-like protein 2heredity prostate cancer protein 2putative prostate cancer susceptibility protein HPC2/ELAC2ribonuclease Z 2tRNA 3 endonuclease 2tRNase Z (long flipolysis-stimulated lipoprotein receptorLISCH proteinimmunoglobulin-like domain containing receptor 3lipolysis-stimulated remnantliver-specific bHLH-Zip transcription factor
Modification date2020031520200313
UniProtAcc

Q9BQ52

Q86X29

Ensembl transtripts involved in fusion geneENST00000338034, ENST00000395962, 
ENST00000426905, ENST00000578071, 
ENST00000609345, 		ENST00000347609, 
ENST00000354900, ENST00000360798, 
ENST00000361790, ENST00000427250, 
ENST00000597933, ENST00000602122, 
Fusion gene scores* DoF score4 X 6 X 4=964 X 4 X 3=48
# samples 54
** MAII scorelog2(5/96*10)=-0.941106310946431
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(4/48*10)=-0.263034405833794
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ELAC2 [Title/Abstract] AND LSR [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointELAC2(12895793)-LSR(35758250), # 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

check buttonFusion gene breakpoints across ELAC2 (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 LSR (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
ChimerDB4STADTCGA-BR-A4PD-01AELAC2chr17

12895793

-LSRchr19

35758250

+


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Fusion Gene ORF analysis for ELAC2-LSR

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-intronENST00000338034ENST00000347609ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000338034ENST00000354900ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000338034ENST00000360798ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000338034ENST00000361790ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000338034ENST00000427250ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000338034ENST00000597933ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000338034ENST00000602122ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000395962ENST00000347609ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000395962ENST00000354900ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000395962ENST00000360798ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000395962ENST00000361790ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000395962ENST00000427250ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000395962ENST00000597933ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000395962ENST00000602122ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000426905ENST00000347609ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000426905ENST00000354900ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000426905ENST00000360798ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000426905ENST00000361790ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000426905ENST00000427250ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000426905ENST00000597933ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000426905ENST00000602122ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000578071ENST00000347609ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000578071ENST00000354900ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000578071ENST00000360798ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000578071ENST00000361790ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000578071ENST00000427250ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000578071ENST00000597933ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000578071ENST00000602122ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000609345ENST00000347609ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000609345ENST00000354900ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000609345ENST00000360798ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000609345ENST00000361790ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000609345ENST00000427250ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000609345ENST00000597933ELAC2chr17

12895793

-LSRchr19

35758250

+
intron-intronENST00000609345ENST00000602122ELAC2chr17

12895793

-LSRchr19

35758250

+

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 ELAC2-LSR


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 ELAC2-LSR


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/:12895793/:35758250)
- 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
ELAC2

Q9BQ52

LSR

Q86X29

FUNCTION: Zinc phosphodiesterase, which displays mitochondrial tRNA 3'-processing endonuclease activity. Involved in tRNA maturation, by removing a 3'-trailer from precursor tRNA (PubMed:21593607). Associates with mitochondrial DNA complexes at the nucleoids to initiate RNA processing and ribosome assembly (PubMed:24703694). {ECO:0000269|PubMed:21593607, ECO:0000269|PubMed:24703694}.FUNCTION: Probable role in the clearance of triglyceride-rich lipoprotein from blood. Binds chylomicrons, LDL and VLDL in presence of free fatty acids and allows their subsequent uptake in the cells (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 ELAC2-LSR


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 ELAC2-LSR


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 ELAC2-LSR


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 ELAC2-LSR


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