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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:ACLY-CNP (FusionGDB2 ID:HG47TG1267)

Fusion Gene Summary for ACLY-CNP

check button Fusion gene summary
Fusion gene informationFusion gene name: ACLY-CNP
Fusion gene ID: hg47tg1267
HgeneTgene
Gene symbol

ACLY

CNP

Gene ID

47

1267

Gene nameATP citrate lyase2',3'-cyclic nucleotide 3' phosphodiesterase
SynonymsACL|ATPCL|CLATPCNP1
Cytomap('ACLY')('CNP')

17q21.2

17q21.2

Type of geneprotein-codingprotein-coding
DescriptionATP-citrate synthaseATP-citrate (pro-S-)-lyasecitrate cleavage enzyme2',3'-cyclic-nucleotide 3'-phosphodiesterase2', 3' cyclic nucleotide 3' phosphohydrolaseCNPase
Modification date2020031320200313
UniProtAcc

P53396

P09543

Ensembl transtripts involved in fusion geneENST00000352035, ENST00000353196, 
ENST00000393896, ENST00000537919, 
ENST00000590151, ENST00000588779, 
Fusion gene scores* DoF score11 X 14 X 6=9246 X 6 X 3=108
# samples 136
** MAII scorelog2(13/924*10)=-2.8293812283876
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(6/108*10)=-0.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ACLY [Title/Abstract] AND CNP [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointACLY(40057948)-CNP(40129340), # 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
HgeneACLY

GO:0006085

acetyl-CoA biosynthetic process

1371749

HgeneACLY

GO:0006101

citrate metabolic process

1371749

HgeneACLY

GO:0006107

oxaloacetate metabolic process

1371749

HgeneACLY

GO:0008610

lipid biosynthetic process

23932781



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-LL-A6FR-01AACLYchr17

40057948

-CNPchr17

40129340

-


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Fusion Gene ORF analysis for ACLY-CNP

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-3UTRENST00000352035ENST00000393892ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-3UTRENST00000353196ENST00000393892ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-3UTRENST00000393896ENST00000393892ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-3UTRENST00000537919ENST00000393892ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-3UTRENST00000590151ENST00000393892ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000352035ENST00000393888ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000352035ENST00000472031ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000352035ENST00000591072ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000352035ENST00000592446ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000353196ENST00000393888ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000353196ENST00000472031ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000353196ENST00000591072ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000353196ENST00000592446ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000393896ENST00000393888ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000393896ENST00000472031ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000393896ENST00000591072ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000393896ENST00000592446ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000537919ENST00000393888ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000537919ENST00000472031ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000537919ENST00000591072ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000537919ENST00000592446ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000590151ENST00000393888ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000590151ENST00000472031ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000590151ENST00000591072ACLYchr17

40057948

-CNPchr17

40129340

-
5CDS-intronENST00000590151ENST00000592446ACLYchr17

40057948

-CNPchr17

40129340

-
intron-3UTRENST00000588779ENST00000393892ACLYchr17

40057948

-CNPchr17

40129340

-
intron-intronENST00000588779ENST00000393888ACLYchr17

40057948

-CNPchr17

40129340

-
intron-intronENST00000588779ENST00000472031ACLYchr17

40057948

-CNPchr17

40129340

-
intron-intronENST00000588779ENST00000591072ACLYchr17

40057948

-CNPchr17

40129340

-
intron-intronENST00000588779ENST00000592446ACLYchr17

40057948

-CNPchr17

40129340

-

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 ACLY-CNP


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)


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Fusion Protein Features for ACLY-CNP


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/:40057948/:40129340)
- 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
ACLY

P53396

CNP

P09543

FUNCTION: Catalyzes the cleavage of citrate into oxaloacetate and acetyl-CoA, the latter serving as common substrate for de novo cholesterol and fatty acid synthesis. {ECO:0000269|PubMed:10653665, ECO:0000269|PubMed:1371749, ECO:0000269|PubMed:19286649, ECO:0000269|PubMed:23932781, ECO:0000269|PubMed:9116495}.FUNCTION: May participate in RNA metabolism in the myelinating cell, CNP is the third most abundant protein in central nervous system myelin. {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 ACLY-CNP


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 ACLY-CNP


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 ACLY-CNP


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgeneACLYP53396DB11936Bempedoic acidInhibitorSmall moleculeApproved|Investigational

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Related Diseases for ACLY-CNP


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneACLYC0018801Heart failure1CTD_human
HgeneACLYC0018802Congestive heart failure1CTD_human
HgeneACLYC0023212Left-Sided Heart Failure1CTD_human
HgeneACLYC0028754Obesity1CTD_human
HgeneACLYC0235527Heart Failure, Right-Sided1CTD_human
HgeneACLYC1959583Myocardial Failure1CTD_human
HgeneACLYC1961112Heart Decompensation1CTD_human
HgeneACLYC2239176Liver carcinoma1CTD_human
TgeneC0036341Schizophrenia5PSYGENET
TgeneC0023893Liver Cirrhosis, Experimental1CTD_human
TgeneC0041696Unipolar Depression1PSYGENET
TgeneC1269683Major Depressive Disorder1PSYGENET