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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:ATP2C2-CSNK1E (FusionGDB2 ID:7900)

Fusion Gene Summary for ATP2C2-CSNK1E

check button Fusion gene summary
Fusion gene informationFusion gene name: ATP2C2-CSNK1E
Fusion gene ID: 7900
HgeneTgene
Gene symbol

ATP2C2

CSNK1E

Gene ID

9914

1454

Gene nameATPase secretory pathway Ca2+ transporting 2casein kinase 1 epsilon
SynonymsSPCA2CKIe|CKIepsilon|HCKIE
Cytomap

16q24.1

22q13.1

Type of geneprotein-codingprotein-coding
Descriptioncalcium-transporting ATPase type 2C member 2ATPase 2C2ATPase, Ca++ transporting, type 2C, member 2secretory pathway Ca(2+)-ATPase 2secretory pathway calcium ATPase 2casein kinase I isoform epsilon
Modification date2020032020200329
UniProtAcc

O75185

P49674

Ensembl transtripts involved in fusion geneENST00000262429, ENST00000416219, 
ENST00000420010, 		ENST00000405675, 
ENST00000498529, ENST00000359867, 
ENST00000396832, ENST00000400206, 
ENST00000403904, ENST00000413574, 
Fusion gene scores* DoF score10 X 6 X 6=36010 X 5 X 6=300
# samples 1211
** MAII scorelog2(12/360*10)=-1.58496250072116
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(11/300*10)=-1.44745897697122
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: ATP2C2 [Title/Abstract] AND CSNK1E [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointATP2C2(84432215)-CSNK1E(38692692), # 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
TgeneCSNK1E

GO:0006468

protein phosphorylation

15917222|17244647

TgeneCSNK1E

GO:0018105

peptidyl-serine phosphorylation

25500533

TgeneCSNK1E

GO:0032091

negative regulation of protein binding

23109420

TgeneCSNK1E

GO:0060070

canonical Wnt signaling pathway

14722104

TgeneCSNK1E

GO:1903827

regulation of cellular protein localization

17244647


check buttonFusion gene breakpoints across ATP2C2 (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 CSNK1E (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
ChimerDB4Non-CancerTCGA-IP-7968-11AATP2C2chr16

84432215

+CSNK1Echr22

38692692

-


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Fusion Gene ORF analysis for ATP2C2-CSNK1E

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-3UTRENST00000262429ENST00000405675ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-3UTRENST00000416219ENST00000405675ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-5UTRENST00000262429ENST00000498529ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-5UTRENST00000416219ENST00000498529ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-intronENST00000262429ENST00000359867ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-intronENST00000262429ENST00000396832ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-intronENST00000262429ENST00000400206ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-intronENST00000262429ENST00000403904ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-intronENST00000262429ENST00000413574ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-intronENST00000416219ENST00000359867ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-intronENST00000416219ENST00000396832ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-intronENST00000416219ENST00000400206ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-intronENST00000416219ENST00000403904ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
5CDS-intronENST00000416219ENST00000413574ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
intron-3UTRENST00000420010ENST00000405675ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
intron-5UTRENST00000420010ENST00000498529ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
intron-intronENST00000420010ENST00000359867ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
intron-intronENST00000420010ENST00000396832ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
intron-intronENST00000420010ENST00000400206ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
intron-intronENST00000420010ENST00000403904ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-
intron-intronENST00000420010ENST00000413574ATP2C2chr16

84432215

+CSNK1Echr22

38692692

-

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 ATP2C2-CSNK1E


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 ATP2C2-CSNK1E


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/:84432215/:38692692)
- 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
ATP2C2

O75185

CSNK1E

P49674

FUNCTION: This magnesium-dependent enzyme catalyzes the hydrolysis of ATP coupled with the transport of calcium. {ECO:0000250}.FUNCTION: Casein kinases are operationally defined by their preferential utilization of acidic proteins such as caseins as substrates. Can phosphorylate a large number of proteins. Participates in Wnt signaling. Phosphorylates DVL1 and DVL2. Central component of the circadian clock. In balance with PP1, determines the circadian period length, through the regulation of the speed and rhythmicity of PER1 and PER2 phosphorylation. Controls PER1 and PER2 nuclear transport and degradation. Inhibits cytokine-induced granuloytic differentiation. {ECO:0000269|PubMed:12556519, ECO:0000269|PubMed:15070676, ECO:0000269|PubMed:15917222, ECO:0000269|PubMed:16790549, ECO:0000269|PubMed:23413191}.

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 ATP2C2-CSNK1E


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 ATP2C2-CSNK1E


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 ATP2C2-CSNK1E


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 ATP2C2-CSNK1E


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