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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:GSN-CSNK1D (FusionGDB2 ID:34937)

Fusion Gene Summary for GSN-CSNK1D

check button Fusion gene summary
Fusion gene informationFusion gene name: GSN-CSNK1D
Fusion gene ID: 34937
HgeneTgene
Gene symbol

GSN

CSNK1D

Gene ID

2934

1453

Gene namegelsolincasein kinase 1 delta
SynonymsADF|AGELASPS|CKI-delta|CKId|CKIdelta|FASPS2|HCKID
Cytomap

9q33.2

17q25.3

Type of geneprotein-codingprotein-coding
Descriptiongelsolinactin-depolymerizing factorbrevinepididymis secretory sperm binding proteincasein kinase I isoform deltacasein kinase Itau-protein kinase CSNK1D
Modification date2020032920200313
UniProtAcc.

P48730

Ensembl transtripts involved in fusion geneENST00000373823, ENST00000373808, 
ENST00000436847, ENST00000449733, 
ENST00000412819, ENST00000394353, 
ENST00000341272, ENST00000545652, 
ENST00000373818, ENST00000485767, 
ENST00000373807, ENST00000373806, 
ENST00000398519, ENST00000314028, 
ENST00000392334, ENST00000578904, 
Fusion gene scores* DoF score21 X 16 X 8=268820 X 19 X 9=3420
# samples 2422
** MAII scorelog2(24/2688*10)=-3.48542682717024
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(22/3420*10)=-3.9584208962486
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: GSN [Title/Abstract] AND CSNK1D [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointGSN(124064346)-CSNK1D(80210975), # samples:1
Anticipated loss of major functional domain due to fusion event.GSN-CSNK1D seems lost the major protein functional domain in Hgene partner, which is a tumor suppressor due to the frame-shifted ORF.
GSN-CSNK1D seems lost the major protein functional domain in Tgene partner, which is a kinase due to the frame-shifted ORF.
GSN-CSNK1D seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF.
GSN-CSNK1D seems lost the major protein functional domain in Tgene partner, which is a IUPHAR drug target 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
HgeneGSN

GO:0030041

actin filament polymerization

3020431

HgeneGSN

GO:0051014

actin filament severing

3020431

TgeneCSNK1D

GO:0006468

protein phosphorylation

16618118

TgeneCSNK1D

GO:0018105

peptidyl-serine phosphorylation

25500533

TgeneCSNK1D

GO:0051225

spindle assembly

10826492


check buttonFusion gene breakpoints across GSN (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 CSNK1D (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
ChiTaRS5.0N/ABE938381GSNchr9

124064346

+CSNK1Dchr17

80210975

-


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Fusion Gene ORF analysis for GSN-CSNK1D

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
Frame-shiftENST00000373823ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000373823ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000373823ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
5CDS-5UTRENST00000373823ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000373808ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000373808ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000373808ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
5CDS-5UTRENST00000373808ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000436847ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000436847ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000436847ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
5CDS-5UTRENST00000436847ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000449733ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000449733ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000449733ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
5CDS-5UTRENST00000449733ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000412819ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000412819ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000412819ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
5CDS-5UTRENST00000412819ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000394353ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000394353ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000394353ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
5CDS-5UTRENST00000394353ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000341272ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000341272ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000341272ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
5CDS-5UTRENST00000341272ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000545652ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000545652ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000545652ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
5CDS-5UTRENST00000545652ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000373818ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000373818ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
Frame-shiftENST00000373818ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
5CDS-5UTRENST00000373818ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-3CDSENST00000485767ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-3CDSENST00000485767ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-3CDSENST00000485767ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-5UTRENST00000485767ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-3CDSENST00000373807ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-3CDSENST00000373807ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-3CDSENST00000373807ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-5UTRENST00000373807ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-3CDSENST00000373806ENST00000398519GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-3CDSENST00000373806ENST00000314028GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-3CDSENST00000373806ENST00000392334GSNchr9

124064346

+CSNK1Dchr17

80210975

-
intron-5UTRENST00000373806ENST00000578904GSNchr9

124064346

+CSNK1Dchr17

80210975

-

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 GSN-CSNK1D


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 GSN-CSNK1D


check button Go to

FGviewer for the breakpoints of :-:

.
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
.CSNK1D

P48730

FUNCTION: Might normally function as a transcriptional repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.FUNCTION: Essential serine/threonine-protein kinase that regulates diverse cellular growth and survival processes including Wnt signaling, DNA repair and circadian rhythms. It can phosphorylate a large number of proteins. Casein kinases are operationally defined by their preferential utilization of acidic proteins such as caseins as substrates. Phosphorylates connexin-43/GJA1, MAP1A, SNAPIN, MAPT/TAU, TOP2A, DCK, HIF1A, EIF6, p53/TP53, DVL2, DVL3, ESR1, AIB1/NCOA3, DNMT1, PKD2, YAP1, PER1 and PER2. 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. YAP1 phosphorylation promotes its SCF(beta-TRCP) E3 ubiquitin ligase-mediated ubiquitination and subsequent degradation. DNMT1 phosphorylation reduces its DNA-binding activity. Phosphorylation of ESR1 and AIB1/NCOA3 stimulates their activity and coactivation. Phosphorylation of DVL2 and DVL3 regulates WNT3A signaling pathway that controls neurite outgrowth. EIF6 phosphorylation promotes its nuclear export. Triggers down-regulation of dopamine receptors in the forebrain. Activates DCK in vitro by phosphorylation. TOP2A phosphorylation favors DNA cleavable complex formation. May regulate the formation of the mitotic spindle apparatus in extravillous trophoblast. Modulates connexin-43/GJA1 gap junction assembly by phosphorylation. Probably involved in lymphocyte physiology. Regulates fast synaptic transmission mediated by glutamate. {ECO:0000269|PubMed:10606744, ECO:0000269|PubMed:12270943, ECO:0000269|PubMed:14761950, ECO:0000269|PubMed:16027726, ECO:0000269|PubMed:17562708, ECO:0000269|PubMed:17962809, ECO:0000269|PubMed:19043076, ECO:0000269|PubMed:19339517, ECO:0000269|PubMed:20041275, ECO:0000269|PubMed:20048001, ECO:0000269|PubMed:20407760, ECO:0000269|PubMed:20637175, ECO:0000269|PubMed:20696890, ECO:0000269|PubMed:20699359, ECO:0000269|PubMed:21084295, ECO:0000269|PubMed:21422228, ECO:0000269|PubMed:23636092}.

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 GSN-CSNK1D


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 GSN-CSNK1D


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 GSN-CSNK1D


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 GSN-CSNK1D


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneGSNC1622345Meretoja syndrome6CTD_human;GENOMICS_ENGLAND;UNIPROT
HgeneGSNC0936273Familial Amyloid Polyneuropathy, Type IV3ORPHANET
HgeneGSNC0001787Osteoporosis, Age-Related1CTD_human
HgeneGSNC0002726Amyloidosis1GENOMICS_ENGLAND
HgeneGSNC0018800Cardiomegaly1CTD_human
HgeneGSNC0019193Hepatitis, Toxic1CTD_human
HgeneGSNC0023893Liver Cirrhosis, Experimental1CTD_human
HgeneGSNC0025500Mesothelioma1CTD_human
HgeneGSNC0029456Osteoporosis1CTD_human
HgeneGSNC0029459Osteoporosis, Senile1CTD_human
HgeneGSNC0030524Paratuberculosis1CTD_human
HgeneGSNC0036341Schizophrenia1PSYGENET
HgeneGSNC0043094Weight Gain1CTD_human
HgeneGSNC0268389Amyloidosis, familial visceral1GENOMICS_ENGLAND
HgeneGSNC0751406Post-Traumatic Osteoporosis1CTD_human
HgeneGSNC0860207Drug-Induced Liver Disease1CTD_human
HgeneGSNC0948089Acute Coronary Syndrome1CTD_human
HgeneGSNC1262760Hepatitis, Drug-Induced1CTD_human
HgeneGSNC1383860Cardiac Hypertrophy1CTD_human
HgeneGSNC3658290Drug-Induced Acute Liver Injury1CTD_human
HgeneGSNC4277682Chemical and Drug Induced Liver Injury1CTD_human
HgeneGSNC4279912Chemically-Induced Liver Toxicity1CTD_human
TgeneCSNK1DC3808874ADVANCED SLEEP PHASE SYNDROME, FAMILIAL, 23GENOMICS_ENGLAND;UNIPROT
TgeneCSNK1DC1858496Advanced Sleep-Phase Syndrome, Familial1CTD_human;ORPHANET