Fusion Gene Studies
in Kim Lab

FusionBase FusionGDB FusionGDB2 FusionPDB FusionNeoAntigen FusionAI FusionNW FGviewer Publication Contact
FusionGDB Logo

Home

Download

Statistics

Examples

Help

Contact
Center for Computational Systems Medicine
leaf

Fusion Gene Summary

leaf

Fusion Gene ORF analysis

leaf

Fusion Genomic Features

leaf

Fusion Protein Features

leaf

Fusion Gene Sequence

leaf

Fusion Gene PPI analysis

leaf

Related Drugs

leaf

Related Diseases

Fusion gene:CRLS1-CES5A (FusionGDB2 ID:HG54675TG221223)

Fusion Gene Summary for CRLS1-CES5A

check button Fusion gene summary
Fusion gene informationFusion gene name: CRLS1-CES5A
Fusion gene ID: hg54675tg221223
HgeneTgene
Gene symbol

CRLS1

CES5A

Gene ID

54675

221223

Gene namecardiolipin synthase 1carboxylesterase 5A
SynonymsC20orf155|CLS|CLS1|GCD10|dJ967N21.6CAUXIN|CES4C1|CES5|CES7|HEL126
Cytomap('CRLS1')('CES5A')

20p12.3

16q12.2

Type of geneprotein-codingprotein-coding
Descriptioncardiolipin synthase (CMP-forming)carboxylesterase 5Acarboxylesterase 5carboxylesterase 7carboxylesterase-like urinary excreted protein homologepididymis luminal protein 126
Modification date2020031320200313
UniProtAcc..
Ensembl transtripts involved in fusion geneENST00000452938, ENST00000378863, 
ENST00000378868, ENST00000464921, 
Fusion gene scores* DoF score8 X 8 X 5=3205 X 5 X 2=50
# samples 85
** MAII scorelog2(8/320*10)=-2
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(5/50*10)=0
Context

PubMed: CRLS1 [Title/Abstract] AND CES5A [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCRLS1(6015201)-CES5A(55903656), # samples:2
Anticipated loss of major functional domain due to fusion event.CRLS1-CES5A seems lost the major protein functional domain in Hgene partner, which is a cell metabolism gene due to the frame-shifted ORF.
CRLS1-CES5A seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
CRLS1-CES5A seems lost the major protein functional domain in Tgene partner, which is a cell metabolism gene due to the frame-shifted 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

check buttonFusion gene breakpoints across CRLS1 (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 CES5A (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
ChimerDB4BRCATCGA-A2-A0CL-01ACRLS1chr20

6015201

+CES5Achr16

55903656

-


Top

Fusion Gene ORF analysis for CRLS1-CES5A

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
3UTR-3CDSENST00000452938ENST00000521992CRLS1chr20

6015201

+CES5Achr16

55903656

-
3UTR-intronENST00000452938ENST00000290567CRLS1chr20

6015201

+CES5Achr16

55903656

-
3UTR-intronENST00000452938ENST00000319165CRLS1chr20

6015201

+CES5Achr16

55903656

-
3UTR-intronENST00000452938ENST00000518005CRLS1chr20

6015201

+CES5Achr16

55903656

-
3UTR-intronENST00000452938ENST00000520435CRLS1chr20

6015201

+CES5Achr16

55903656

-
3UTR-intronENST00000452938ENST00000541580CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000378863ENST00000290567CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000378863ENST00000319165CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000378863ENST00000518005CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000378863ENST00000520435CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000378863ENST00000541580CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000378868ENST00000290567CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000378868ENST00000319165CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000378868ENST00000518005CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000378868ENST00000520435CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000378868ENST00000541580CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000464921ENST00000290567CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000464921ENST00000319165CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000464921ENST00000518005CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000464921ENST00000520435CRLS1chr20

6015201

+CES5Achr16

55903656

-
5CDS-intronENST00000464921ENST00000541580CRLS1chr20

6015201

+CES5Achr16

55903656

-
Frame-shiftENST00000378863ENST00000521992CRLS1chr20

6015201

+CES5Achr16

55903656

-
Frame-shiftENST00000378868ENST00000521992CRLS1chr20

6015201

+CES5Achr16

55903656

-
In-frameENST00000464921ENST00000521992CRLS1chr20

6015201

+CES5Achr16

55903656

-

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)
ENST00000464921CRLS1chr206015201+ENST00000521992CES5Achr1655903656-23107026992012437

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
ENST00000464921ENST00000521992CRLS1chr206015201+CES5Achr1655903656-0.000737490.9992625

Top

Fusion Genomic Features for CRLS1-CES5A


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

Top

Fusion Protein Features for CRLS1-CES5A


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/chr20:6015201/chr16:55903656)
- 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
HgeneCRLS1chr20:6015201chr16:55903656ENST00000378863+67109_129273302.0TransmembraneHelical
HgeneCRLS1chr20:6015201chr16:55903656ENST00000378863+67133_153273302.0TransmembraneHelical
HgeneCRLS1chr20:6015201chr16:55903656ENST00000378863+67190_212273302.0TransmembraneHelical
HgeneCRLS1chr20:6015201chr16:55903656ENST00000378863+67250_270273302.0TransmembraneHelical
HgeneCRLS1chr20:6015201chr16:55903656ENST00000378868+67109_129174203.0TransmembraneHelical
HgeneCRLS1chr20:6015201chr16:55903656ENST00000378868+67133_153174203.0TransmembraneHelical

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneCRLS1chr20:6015201chr16:55903656ENST00000378863+67272_292273302.0TransmembraneHelical
HgeneCRLS1chr20:6015201chr16:55903656ENST00000378868+67190_212174203.0TransmembraneHelical
HgeneCRLS1chr20:6015201chr16:55903656ENST00000378868+67250_270174203.0TransmembraneHelical
HgeneCRLS1chr20:6015201chr16:55903656ENST00000378868+67272_292174203.0TransmembraneHelical


Top

Fusion Gene Sequence for CRLS1-CES5A


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.
>19517_19517_1_CRLS1-CES5A_CRLS1_chr20_6015201_ENST00000464921_CES5A_chr16_55903656_ENST00000521992_length(transcript)=2310nt_BP=702nt
GAGAAGGATGAAAACAAATTCTTTGGCTTATATGTTAATTAGAGAGTGGAAGGCAAATCCAAGTTAATTTCTACTTAGATTTATGTCCAC
TGAACTTAGATCTGTGTGTATTTGTTCTGCCACATTTTTGTATTATTTTATTTTTATTATTTTATTTATTTTGTATTATTATATTTTGTA
TTATTATATTGTTTCTGGTTTACCATCTGGTAAATTCTTATTTCTGGTTTAAGTCAATTTCTAGAATATTCTGTTAAGTTTACCGTTTTC
AGTGTAAAAACCTATAGTGTTGATGTTAACCATTTTTAATATGTAAACGATTTTATGAACTATTTCCCTTTAATGCTAATAAAACTTGTC
CATGATGTCTGGCTTTGTGGGCTATGTGATCTCTGTTACAGCTACTCAGCTCTGCTGTTGTAGTGTGAAAGCAGCCACAGAAAATATTTA
AATTATTCCACTTACTTACATGATCATTTCGAGAGATGTAATGTTGATTGCTGCTGTTTTTTATGTCAGATACCGAACTCTTCCAACACC
ACGAACACTTGCCAAGTATTTCAATCCTTGCTATGCCACTGCTAGGTTAAAACCAACATTCATCAGCAAGGTGAATACAGCAGTCCAGTT
AATCTTGGTGGCAGCTTCTTTGGCAGCTCCAGTTTTCAACTATGCTGACAGCATTTATCTTCAGATACTATGGTCTTGGTGTGGTTCCCA
GGAGGTGCCTTCAAGACTGGCTCAGCCTCCATCTTTGATGGGTCCGCCCTGGCTGCCTATGAGGACGTGCTGGTTGTGGTCGTCCAGTAC
CGGCTAGGAATATTTGGTTTCTTCACCACATGGGATCAGCATGCTCCGGGGAACTGGGCCTTCAAGGACCAGGTGGCTGCTCTGTCCTGG
GTCCAGAAGAACATCGAGTTCTTCGGTGGGGACCCCAGCTCTGTGACCATCTTTGGCGAGTCCGCGGGAGCCATAAGTGTTTCTAGTCTT
ATACTGTCTCCCATGGCCAAAGGCTTATTCCACAAAGCCATCATGGAGAGTGGGGTGGCCATCATCCCTTACCTGGAGGCCCATGATTAT
GAGAAGAGTGAGGACCTGCAGGTGGTTGCACATTTCTGTGGTAACAATGCGTCAGACTCTGAGGCCCTGCTGAGGTGCCTGAGGACAAAA
CCCTCCAAGGAGCTGCTGACCCTCAGCCAGAAAACAAAGTCTTTCACTCGAGTGGTTGATGGTGCTTTCTTTCCTAATGAGCCTCTAGAT
CTATTGTCTCAGAAAGCATTTAAAGCAATTCCTTCCATCATCGGAGTCAATAACCACGAGTGTGGCTTCCTGCTGCCTATGAAGGAGGCT
CCTGAGATCCTCAGTGGCTCCAACAAGTCCCTTGCCCTCCATCTGATACAAAACATCCTGCACATCCCGCCTCAGTATTTGCACCTTGTG
GCTAATGAATACTTCCATGACAAGCACTCCCTGACTGAAATCCGAGACAGTCTTCTGGACTTGCTTGGAGATGTGTTCTTTGTGGTCCCT
GCACTGATCACAGCTCGATATCACAGAGATGCTGGTGCACCTGTCTACTTCTATGAGTTTCGGCACCGGCCTCAGTGCTTTGAAGACACG
AAGCCAGCTTTTGTCAAAGCCGACCACGCTGATGAAGTCCGCTTTGTGTTCGGTGGTGCCTTCCTGAAGGGGGACATTGTTATGTTCGAA
GGAGCCACGGAGGAGGAGAAGTTACTGAGCCGGAAGATGATGAAATACTGGGCTACCTTTGCTCGAACCGGGAATCCTAATGGGAACGAC
CTGTCTCTGTGGCCAGCTTATAATCTGACTGAGCAGTACCTCCAGCTGGACTTGAACATGAGCCTCGGACAGAGACTCAAAGAACCGCGG
GTGGATTTTTGGACCAGCACCATCCCCCTGATCCTGTCTGCCTCCGACATGCTCCACAGTCCTCTTTCTTCCTTAACTTTCCTCTCTCTC
CTCCAGCCTTTCTTTTTCTTTTGTGCTCCTTGAGAAGTTATCTTTCTGTGATTTTGGTTTCCCTTCTCCTCCCATAATTTCTCCCGCAAT
CATTAGCTTCTTTCTGAGCTCAGCTGCTTTCTATGGGGATCCTTGCAAAACAAGCTGCTTTCGCTGATATTTTATGGACTTAGGAATGAT
CCTTACAGAATTCTTTTCAACATCAAAAAGTGCAATTTGTCTTGGAAGGCAACAAGATTTCTTCAATAAATTTGGAAGAGGGCTGGCCTA

>19517_19517_1_CRLS1-CES5A_CRLS1_chr20_6015201_ENST00000464921_CES5A_chr16_55903656_ENST00000521992_length(amino acids)=437AA_BP=1
MVLVWFPGGAFKTGSASIFDGSALAAYEDVLVVVVQYRLGIFGFFTTWDQHAPGNWAFKDQVAALSWVQKNIEFFGGDPSSVTIFGESAG
AISVSSLILSPMAKGLFHKAIMESGVAIIPYLEAHDYEKSEDLQVVAHFCGNNASDSEALLRCLRTKPSKELLTLSQKTKSFTRVVDGAF
FPNEPLDLLSQKAFKAIPSIIGVNNHECGFLLPMKEAPEILSGSNKSLALHLIQNILHIPPQYLHLVANEYFHDKHSLTEIRDSLLDLLG
DVFFVVPALITARYHRDAGAPVYFYEFRHRPQCFEDTKPAFVKADHADEVRFVFGGAFLKGDIVMFEGATEEEKLLSRKMMKYWATFART

--------------------------------------------------------------

Top

Fusion Gene PPI Analysis for CRLS1-CES5A


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


Top

Related Drugs for CRLS1-CES5A


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

Top

Related Diseases for CRLS1-CES5A


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