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Center for Computational Systems Medicine level1
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Fusion Gene Summary

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Fusion Gene Sample Information

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Fusion ORF Analysis

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Fusion Amino Acid Sequences

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Fusion Protein Functional Features

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Fusion Protein-Protein Interaction

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Related drugs with this fusion protein

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Related disease with this fusion protein

Fusion Protein:ZNF384-CDCA3

Fusion Protein Summary

check button Fusion gene summary
Fusion partner gene informationFusion gene name: ZNF384-CDCA3
FusionPDB ID: 101951
FusionGDB2.0 ID: 101951
HgeneTgene
Gene symbol

ZNF384

CDCA3

Gene ID

171017

83461

Gene namezinc finger protein 384cell division cycle associated 3
SynonymsCAGH1|CAGH1A|CIZ|ERDA2|NMP4|NP|TNRC1GRCC8|TOME-1
Cytomap

12p13.31

12p13.31

Type of geneprotein-codingprotein-coding
Descriptionzinc finger protein 384CAG repeat protein 1Cas-interacting zinc finger proteinexpanded repeat domain, CAG/CTG 2nuclear matrix transcription factor 4trinucleotide repeat-containing gene 1 proteincell division cycle-associated protein 3gene-rich cluster protein C8trigger of mitotic entry protein 1
Modification date2020031320200313
UniProtAcc.

Q99618

Ensembl transtripts involved in fusion geneENST idsENST00000319770, ENST00000355772, 
ENST00000361959, ENST00000396795, 
ENST00000396799, ENST00000396801, 
ENST00000229265, ENST00000535406, 
ENST00000538862, ENST00000540683, 
ENST00000604599, ENST00000422785, 
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0)* DoF score5 X 5 X 3=751 X 1 X 1=1
# samples 51
** MAII scorelog2(5/75*10)=-0.584962500721156
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(1/1*10)=3.32192809488736
Context (manual curation of fusion genes in FusionPDB)

PubMed: ZNF384 [Title/Abstract] AND CDCA3 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0)ZNF384(6778197)-CDCA3(6958828), # samples:2
Anticipated loss of major functional domain due to fusion event.ZNF384-CDCA3 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.
ZNF384-CDCA3 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.
ZNF384-CDCA3 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.
ZNF384-CDCA3 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.
ZNF384-CDCA3 seems lost the major protein functional domain in Hgene partner, which is a CGC due to the frame-shifted ORF.
ZNF384-CDCA3 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF.
ZNF384-CDCA3 seems lost the major protein functional domain in Hgene partner, which is a transcription factor due to the frame-shifted ORF.
ZNF384-CDCA3 seems lost the major protein functional domain in Tgene partner, which is a essential 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 ZNF384 (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 CDCA3 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure


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Fusion Gene Sample Information

check buttonFusion gene information from FusionGDB2.0.
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
ChimerDB4CESCTCGA-C5-A7X3-01AZNF384chr12

6778197

-CDCA3chr12

6958828

-


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Fusion ORF Analysis


check buttonFusion information from ORFfinder translation from full-length transcript sequence from FusionPDB.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000319770ZNF384chr126778197-ENST00000422785CDCA3chr126958828-36411430531612519
ENST00000396801ZNF384chr126778197-ENST00000422785CDCA3chr126958828-375115401031722539
ENST00000361959ZNF384chr126778197-ENST00000422785CDCA3chr126958828-38031592591774571
ENST00000355772ZNF384chr126778197-ENST00000422785CDCA3chr126958828-33471136471318423
ENST00000396799ZNF384chr126778197-ENST00000422785CDCA3chr126958828-383816271031809568

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
ENST00000319770ENST00000422785ZNF384chr126778197-CDCA3chr126958828-0.0388078650.96119213
ENST00000396801ENST00000422785ZNF384chr126778197-CDCA3chr126958828-0.0613478120.9386522
ENST00000361959ENST00000422785ZNF384chr126778197-CDCA3chr126958828-0.0578287580.9421713
ENST00000355772ENST00000422785ZNF384chr126778197-CDCA3chr126958828-0.055635560.9443644
ENST00000396799ENST00000422785ZNF384chr126778197-CDCA3chr126958828-0.06409360.9359064

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Fusion Amino Acid Sequences


check button For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP

>101951_101951_1_ZNF384-CDCA3_ZNF384_chr12_6778197_ENST00000319770_CDCA3_chr12_6958828_ENST00000422785_length(amino acids)=519AA_BP=
MRVSRARSVRVSVWVCLAPEVRARALRLALFPLPRPFLVLPPSSAPSFPSKRRPSRALAQALAPPQPSPPESSGALERRRNKTAGGRERE
GRMEESHFNSNPYFWPSIPTVSGQIENTMFINKMKDQLLPEKGCGLAPPHYPTLLTVPASVSLPSGISMDTESKSDQLTPHSQASVTQNI
TVVPVPSTGLMTAGPGLVITSPSGSLVTTASSAQTFPISAPMIVSALPPGSQALQVVPDLSKKVASTLTEEGGGGGGGGGSVAPKPPRGR
KKKRMLESGLPEMNDPYVLSPEDDDDHQKDGKTYRCRMCSLTFYSKSEMQIHSKSHTETKPHKCPHCSKTFANSSYLAQHIRIHSGAKPY
SCNFCEKSFRQLSHLQQHTRIHTGDRPYKCAHPGCEKAFTQLSNLQSHRRQHNKDKPFKCHNCHRAYTDAASLEVHLSTHTVKHAKVYTC

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

>101951_101951_2_ZNF384-CDCA3_ZNF384_chr12_6778197_ENST00000355772_CDCA3_chr12_6958828_ENST00000422785_length(amino acids)=423AA_BP=
MGFAGARAAAPLPESSGALERRRNKTAGGREREGRMEESHFNSNPYFWPSIPTVSGQIENTMFINKMKDQLLPEKGCGLAPPHYPTLLTV
PASVSLPSGISMDTESKSDQLTPHSQASVTQNITVVPVPSTGLMTAALQVVPDLSKKVASTLTEEGGGGGGGGGSVAPKPPRGRKKKRML
ESGLPEMNDPYVLSPEDDDDHQKDGKTYRCRMCSLTFYSKSEMQIHSKSHTETKPHKCPHCSKTFANSSYLAQHIRIHSGAKPYSCNFCE
KSFRQLSHLQQHTRIHTGDRPYKCAHPGCEKAFTQLSNLQSHRRQHNKDKPFKCHNCHRAYTDAASLEVHLSTHTVKHAKVYTCTICSRA

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

>101951_101951_3_ZNF384-CDCA3_ZNF384_chr12_6778197_ENST00000361959_CDCA3_chr12_6958828_ENST00000422785_length(amino acids)=571AA_BP=
MRLALFPLPRPFLVLPPSSAPSFPSKRRPSRALAQALAPPQPSPPESSGALERRRNKTAGGREREGRMEESHFNSNPYFWPSIPTVSGQI
ENTMFINKMKDQLLPEKGCGLAPPHYPTLLTVPASVSLPSGISMDTESKSDQLTPHSQASVTQNITVVPVPSTGLMTAGVSCSQRWRREG
SQSRGPGLVITSPSGSLVTTASSAQTFPISAPMIVSALPPGSQALQVVPDLSKKVASTLTEEGGGGGGGGGSVAPKPPRGRKKKRMLESG
LPEMNDPYVLSPEDDDDHQKDGKTYRCRMCSLTFYSKSEMQIHSKSHTETKPHKCPHCSKTFANSSYLAQHIRIHSGAKPYSCNFCEKSF
RQLSHLQQHTRIHSKMHTETIKPHKCPHCSKTFANTSYLAQHLRIHSGAKPYNCSYCQKAFRQLSHLQQHTRIHTGDRPYKCAHPGCEKA
FTQLSNLQSHRRQHNKDKPFKCHNCHRAYTDAASLEVHLSTHTVKHAKVYTCTICSRAYTSPPQFQILRKLSQEPVATAIPSAVTPRQLT

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

>101951_101951_4_ZNF384-CDCA3_ZNF384_chr12_6778197_ENST00000396799_CDCA3_chr12_6958828_ENST00000422785_length(amino acids)=568AA_BP=
MGFAGARAAAPLPGECKGRAARRGGHPLPRAPALRVSRARSVRVSVWVCLAPEVRARALRLALFPLPRPFLVLPPSSAPSFPSKRRPSRA
LAQALAPPQPSPPESSGALERRRNKTAGGREREGRMEESHFNSNPYFWPSIPTVSGQIENTMFINKMKDQLLPEKGCGLAPPHYPTLLTV
PASVSLPSGISMDTESKSDQLTPHSQASVTQNITVVPVPSTGLMTAGVSCSQRWRREGSQSRGPGLVITSPSGSLVTTASSAQTFPISAP
MIVSALPPGSQALQVVPDLSKKVASTLTEEGGGGGGGGGSVAPKPPRGRKKKRMLESGLPEMNDPYVLSPEDDDDHQKDGKTYRCRMCSL
TFYSKSEMQIHSKSHTETKPHKCPHCSKTFANSSYLAQHIRIHSGAKPYSCNFCEKSFRQLSHLQQHTRIHTGDRPYKCAHPGCEKAFTQ
LSNLQSHRRQHNKDKPFKCHNCHRAYTDAASLEVHLSTHTVKHAKVYTCTICSRAYTSPPQFQILRKLSQEPVATAIPSAVTPRQLTLLS

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

>101951_101951_5_ZNF384-CDCA3_ZNF384_chr12_6778197_ENST00000396801_CDCA3_chr12_6958828_ENST00000422785_length(amino acids)=539AA_BP=
MGFAGARAAAPLPESSGALERRRNKTAGGREREGRMEESHFNSNPYFWPSIPTVSGQIENTMFINKMKDQLLPEKGCGLAPPHYPTLLTV
PASVSLPSGISMDTESKSDQLTPHSQASVTQNITVVPVPSTGLMTAGVSCSQRWRREGSQSRGPGLVITSPSGSLVTTASSAQTFPISAP
MIVSALPPGSQALQVVPDLSKKVASTLTEEGGGGGGGGGSVAPKPPRGRKKKRMLESGLPEMNDPYVLSPEDDDDHQKDGKTYRCRMCSL
TFYSKSEMQIHSKSHTETKPHKCPHCSKTFANSSYLAQHIRIHSGAKPYSCNFCEKSFRQLSHLQQHTRIHSKMHTETIKPHKCPHCSKT
FANTSYLAQHLRIHSGAKPYNCSYCQKAFRQLSHLQQHTRIHTGDRPYKCAHPGCEKAFTQLSNLQSHRRQHNKDKPFKCHNCHRAYTDA

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

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Fusion Protein Functional Features


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/chr12:6778197/chr12:6958828)
- 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
.CDCA3

Q99618

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: F-box-like protein which is required for entry into mitosis. Acts by participating in E3 ligase complexes that mediate the ubiquitination and degradation of WEE1 kinase at G2/M phase (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.
- Retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneZNF384chr12:6778197chr12:6958828ENST00000355772-89228_250328.0462.0Zinc fingerC2H2-type 1
HgeneZNF384chr12:6778197chr12:6958828ENST00000355772-89256_278328.0462.0Zinc fingerC2H2-type 2
HgeneZNF384chr12:6778197chr12:6958828ENST00000355772-89284_306328.0462.0Zinc fingerC2H2-type 3
HgeneZNF384chr12:6778197chr12:6958828ENST00000361959-1011228_250444.0578.0Zinc fingerC2H2-type 1
HgeneZNF384chr12:6778197chr12:6958828ENST00000361959-1011256_278444.0578.0Zinc fingerC2H2-type 2
HgeneZNF384chr12:6778197chr12:6958828ENST00000361959-1011284_306444.0578.0Zinc fingerC2H2-type 3
HgeneZNF384chr12:6778197chr12:6958828ENST00000361959-1011317_339444.0578.0Zinc fingerC2H2-type 4
HgeneZNF384chr12:6778197chr12:6958828ENST00000361959-1011345_367444.0578.0Zinc fingerC2H2-type 5
HgeneZNF384chr12:6778197chr12:6958828ENST00000361959-1011373_397444.0578.0Zinc fingerC2H2-type 6
HgeneZNF384chr12:6778197chr12:6958828ENST00000361959-1011403_425444.0578.0Zinc fingerC2H2-type 7
HgeneZNF384chr12:6778197chr12:6958828ENST00000396795-89228_250383.0517.0Zinc fingerC2H2-type 1
HgeneZNF384chr12:6778197chr12:6958828ENST00000396795-89256_278383.0517.0Zinc fingerC2H2-type 2
HgeneZNF384chr12:6778197chr12:6958828ENST00000396795-89284_306383.0517.0Zinc fingerC2H2-type 3
HgeneZNF384chr12:6778197chr12:6958828ENST00000396795-89317_339383.0517.0Zinc fingerC2H2-type 4
HgeneZNF384chr12:6778197chr12:6958828ENST00000396795-89345_367383.0517.0Zinc fingerC2H2-type 5
HgeneZNF384chr12:6778197chr12:6958828ENST00000396799-910228_250383.0517.0Zinc fingerC2H2-type 1
HgeneZNF384chr12:6778197chr12:6958828ENST00000396799-910256_278383.0517.0Zinc fingerC2H2-type 2
HgeneZNF384chr12:6778197chr12:6958828ENST00000396799-910284_306383.0517.0Zinc fingerC2H2-type 3
HgeneZNF384chr12:6778197chr12:6958828ENST00000396799-910317_339383.0517.0Zinc fingerC2H2-type 4
HgeneZNF384chr12:6778197chr12:6958828ENST00000396799-910345_367383.0517.0Zinc fingerC2H2-type 5
HgeneZNF384chr12:6778197chr12:6958828ENST00000396801-1011228_250444.0578.0Zinc fingerC2H2-type 1
HgeneZNF384chr12:6778197chr12:6958828ENST00000396801-1011256_278444.0578.0Zinc fingerC2H2-type 2
HgeneZNF384chr12:6778197chr12:6958828ENST00000396801-1011284_306444.0578.0Zinc fingerC2H2-type 3
HgeneZNF384chr12:6778197chr12:6958828ENST00000396801-1011317_339444.0578.0Zinc fingerC2H2-type 4
HgeneZNF384chr12:6778197chr12:6958828ENST00000396801-1011345_367444.0578.0Zinc fingerC2H2-type 5
HgeneZNF384chr12:6778197chr12:6958828ENST00000396801-1011373_397444.0578.0Zinc fingerC2H2-type 6
HgeneZNF384chr12:6778197chr12:6958828ENST00000396801-1011403_425444.0578.0Zinc fingerC2H2-type 7
TgeneCDCA3chr12:6778197chr12:6958828ENST0000053540605258_2600269.0MotifNote=KEN box
TgeneCDCA3chr12:6778197chr12:6958828ENST0000053886206258_2600269.0MotifNote=KEN box
TgeneCDCA3chr12:6778197chr12:6958828ENST000005354060591_1200269.0RegionNote=F-box-like
TgeneCDCA3chr12:6778197chr12:6958828ENST000005388620691_1200269.0RegionNote=F-box-like

- Not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneZNF384chr12:6778197chr12:6958828ENST00000355772-89461_521328.0462.0Compositional biasNote=Gln-rich
HgeneZNF384chr12:6778197chr12:6958828ENST00000355772-89466_499328.0462.0Compositional biasNote=Ala-rich
HgeneZNF384chr12:6778197chr12:6958828ENST00000361959-1011461_521444.0578.0Compositional biasNote=Gln-rich
HgeneZNF384chr12:6778197chr12:6958828ENST00000361959-1011466_499444.0578.0Compositional biasNote=Ala-rich
HgeneZNF384chr12:6778197chr12:6958828ENST00000396795-89461_521383.0517.0Compositional biasNote=Gln-rich
HgeneZNF384chr12:6778197chr12:6958828ENST00000396795-89466_499383.0517.0Compositional biasNote=Ala-rich
HgeneZNF384chr12:6778197chr12:6958828ENST00000396799-910461_521383.0517.0Compositional biasNote=Gln-rich
HgeneZNF384chr12:6778197chr12:6958828ENST00000396799-910466_499383.0517.0Compositional biasNote=Ala-rich
HgeneZNF384chr12:6778197chr12:6958828ENST00000396801-1011461_521444.0578.0Compositional biasNote=Gln-rich
HgeneZNF384chr12:6778197chr12:6958828ENST00000396801-1011466_499444.0578.0Compositional biasNote=Ala-rich
HgeneZNF384chr12:6778197chr12:6958828ENST00000355772-89317_339328.0462.0Zinc fingerC2H2-type 4
HgeneZNF384chr12:6778197chr12:6958828ENST00000355772-89345_367328.0462.0Zinc fingerC2H2-type 5
HgeneZNF384chr12:6778197chr12:6958828ENST00000355772-89373_397328.0462.0Zinc fingerC2H2-type 6
HgeneZNF384chr12:6778197chr12:6958828ENST00000355772-89403_425328.0462.0Zinc fingerC2H2-type 7
HgeneZNF384chr12:6778197chr12:6958828ENST00000355772-89433_455328.0462.0Zinc fingerC2H2-type 8
HgeneZNF384chr12:6778197chr12:6958828ENST00000361959-1011433_455444.0578.0Zinc fingerC2H2-type 8
HgeneZNF384chr12:6778197chr12:6958828ENST00000396795-89373_397383.0517.0Zinc fingerC2H2-type 6
HgeneZNF384chr12:6778197chr12:6958828ENST00000396795-89403_425383.0517.0Zinc fingerC2H2-type 7
HgeneZNF384chr12:6778197chr12:6958828ENST00000396795-89433_455383.0517.0Zinc fingerC2H2-type 8
HgeneZNF384chr12:6778197chr12:6958828ENST00000396799-910373_397383.0517.0Zinc fingerC2H2-type 6
HgeneZNF384chr12:6778197chr12:6958828ENST00000396799-910403_425383.0517.0Zinc fingerC2H2-type 7
HgeneZNF384chr12:6778197chr12:6958828ENST00000396799-910433_455383.0517.0Zinc fingerC2H2-type 8
HgeneZNF384chr12:6778197chr12:6958828ENST00000396801-1011433_455444.0578.0Zinc fingerC2H2-type 8


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Fusion Protein-Protein Interaction


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 from validated records (BIOGRID-3.4.160)
GenePPI interactors


check button Protein-protein interactors based on sequence similarity (STRING)
GeneSTRING network
ZNF384
CDCA3


check button - Retained interactions in fusion protein (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost interactions due to fusion (protein functional feature from UniProt).
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs to ZNF384-CDCA3


check button Drugs used for this fusion-positive patient.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDrugSourcePMID

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Related Diseases to ZNF384-CDCA3


check button Diseases that have this fusion gene.
(Manual curation of PubMed, 04-30-2022 + MyCancerGenome)
HgeneTgeneDiseaseSourcePMID

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