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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:CERS5-LIMA1 (FusionGDB2 ID:HG91012TG51474)

Fusion Gene Summary for CERS5-LIMA1

check button Fusion gene summary
Fusion gene informationFusion gene name: CERS5-LIMA1
Fusion gene ID: hg91012tg51474
HgeneTgene
Gene symbol

CERS5

LIMA1

Gene ID

91012

51474

Gene nameceramide synthase 5LIM domain and actin binding 1
SynonymsLASS5|Trh4EPLIN|LDLCQ8|SREBP3
Cytomap('CERS5')('LIMA1')

12q13.12

12q13.12

Type of geneprotein-codingprotein-coding
Descriptionceramide synthase 5LAG1 homolog, ceramide synthase 5LAG1 longevity assurance homolog 5TRAM homolog 4sphingosine N-acyltransferase CERS5LIM domain and actin-binding protein 11110021C24Rikepithelial protein lost in neoplasm betasterol regulatory element binding protein 3
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000317551, ENST00000422340, 
ENST00000547852, 
Fusion gene scores* DoF score8 X 6 X 7=33611 X 12 X 9=1188
# samples 1014
** MAII scorelog2(10/336*10)=-1.74846123300404
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(14/1188*10)=-3.0850361038558
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CERS5 [Title/Abstract] AND LIMA1 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCERS5(50560884)-LIMA1(50575820), # samples:4
Anticipated loss of major functional domain due to fusion event.CERS5-LIMA1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
CERS5-LIMA1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
CERS5-LIMA1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
CERS5-LIMA1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
* 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
HgeneCERS5

GO:0046513

ceramide biosynthetic process

16951403|29632068

TgeneLIMA1

GO:0030835

negative regulation of actin filament depolymerization

12566430

TgeneLIMA1

GO:0031529

ruffle organization

12566430

TgeneLIMA1

GO:0051017

actin filament bundle assembly

12566430


check buttonFusion gene breakpoints across CERS5 (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 LIMA1 (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
* 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
ChimerDB4LUSCTCGA-LA-A7SW-01ACERS5chr12

50560884

-LIMA1chr12

50575820

-
ChimerDB4LUSCTCGA-LA-A7SWCERS5chr12

50560884

-LIMA1chr12

50575820

-
ChimerDB4OVTCGA-59-2354-01ACERS5chr12

50528329

-LIMA1chr12

50599851

-
ChimerDB4STADTCGA-BR-6454-01ACERS5chr12

50560884

-LIMA1chr12

50575820

-


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Fusion Gene ORF analysis for CERS5-LIMA1

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-5UTRENST00000317551ENST00000552008CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-5UTRENST00000422340ENST00000552008CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000317551ENST00000341247CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000317551ENST00000394943CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000317551ENST00000547825CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000317551ENST00000552008CERS5chr12

50560884

-LIMA1chr12

50575820

-
5CDS-intronENST00000317551ENST00000552491CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000317551ENST00000552783CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000317551ENST00000552823CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000317551ENST00000552909CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000422340ENST00000341247CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000422340ENST00000394943CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000422340ENST00000547825CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000422340ENST00000552491CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000422340ENST00000552783CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000422340ENST00000552823CERS5chr12

50528329

-LIMA1chr12

50599851

-
5CDS-intronENST00000422340ENST00000552909CERS5chr12

50528329

-LIMA1chr12

50599851

-
5UTR-3CDSENST00000422340ENST00000341247CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000422340ENST00000394943CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000422340ENST00000547825CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000422340ENST00000552491CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000422340ENST00000552783CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000422340ENST00000552823CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000422340ENST00000552909CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000547852ENST00000341247CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000547852ENST00000394943CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000547852ENST00000547825CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000547852ENST00000552491CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000547852ENST00000552783CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000547852ENST00000552823CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-3CDSENST00000547852ENST00000552909CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-intronENST00000422340ENST00000552008CERS5chr12

50560884

-LIMA1chr12

50575820

-
5UTR-intronENST00000547852ENST00000552008CERS5chr12

50560884

-LIMA1chr12

50575820

-
In-frameENST00000317551ENST00000341247CERS5chr12

50560884

-LIMA1chr12

50575820

-
In-frameENST00000317551ENST00000394943CERS5chr12

50560884

-LIMA1chr12

50575820

-
In-frameENST00000317551ENST00000547825CERS5chr12

50560884

-LIMA1chr12

50575820

-
In-frameENST00000317551ENST00000552491CERS5chr12

50560884

-LIMA1chr12

50575820

-
In-frameENST00000317551ENST00000552783CERS5chr12

50560884

-LIMA1chr12

50575820

-
In-frameENST00000317551ENST00000552823CERS5chr12

50560884

-LIMA1chr12

50575820

-
In-frameENST00000317551ENST00000552909CERS5chr12

50560884

-LIMA1chr12

50575820

-
intron-5UTRENST00000547852ENST00000552008CERS5chr12

50528329

-LIMA1chr12

50599851

-
intron-intronENST00000547852ENST00000341247CERS5chr12

50528329

-LIMA1chr12

50599851

-
intron-intronENST00000547852ENST00000394943CERS5chr12

50528329

-LIMA1chr12

50599851

-
intron-intronENST00000547852ENST00000547825CERS5chr12

50528329

-LIMA1chr12

50599851

-
intron-intronENST00000547852ENST00000552491CERS5chr12

50528329

-LIMA1chr12

50599851

-
intron-intronENST00000547852ENST00000552783CERS5chr12

50528329

-LIMA1chr12

50599851

-
intron-intronENST00000547852ENST00000552823CERS5chr12

50528329

-LIMA1chr12

50599851

-
intron-intronENST00000547852ENST00000552909CERS5chr12

50528329

-LIMA1chr12

50599851

-

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 CERS5-LIMA1


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.
genomic feature

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Fusion Protein Features for CERS5-LIMA1


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/chr12:50560884/chr12:50575820)
- 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
HgeneCERS5chr12:50560884chr12:50575820ENST00000317551-1101_4665393.0Topological domainLumenal
HgeneCERS5chr12:50560884chr12:50575820ENST00000317551-11047_6765393.0TransmembraneHelical
TgeneLIMA1chr12:50560884chr12:50575820ENST00000341247811388_448380760.0DomainLIM zinc-binding
TgeneLIMA1chr12:50560884chr12:50575820ENST00000394943811388_448381761.0DomainLIM zinc-binding
TgeneLIMA1chr12:50560884chr12:50575820ENST0000054782525388_44878458.0DomainLIM zinc-binding
TgeneLIMA1chr12:50560884chr12:50575820ENST0000055278358388_448221601.0DomainLIM zinc-binding
TgeneLIMA1chr12:50560884chr12:50575820ENST0000055282358388_448220600.0DomainLIM zinc-binding

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneCERS5chr12:50560884chr12:50575820ENST00000317551-110139_34065393.0DomainTLC
HgeneCERS5chr12:50560884chr12:50575820ENST00000317551-11075_13665393.0RegionHomeobox-like
HgeneCERS5chr12:50560884chr12:50575820ENST00000317551-110332_39265393.0Topological domainCytoplasmic
HgeneCERS5chr12:50560884chr12:50575820ENST00000317551-110148_16865393.0TransmembraneHelical
HgeneCERS5chr12:50560884chr12:50575820ENST00000317551-110183_20365393.0TransmembraneHelical
HgeneCERS5chr12:50560884chr12:50575820ENST00000317551-110214_23465393.0TransmembraneHelical
HgeneCERS5chr12:50560884chr12:50575820ENST00000317551-110272_29265393.0TransmembraneHelical
HgeneCERS5chr12:50560884chr12:50575820ENST00000317551-110311_33165393.0TransmembraneHelical


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Fusion Gene Sequence for CERS5-LIMA1


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 CERS5-LIMA1


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 CERS5-LIMA1


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 CERS5-LIMA1


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