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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:CNOT2-CRADD (FusionGDB2 ID:17730)

Fusion Gene Summary for CNOT2-CRADD

check button Fusion gene summary
Fusion gene informationFusion gene name: CNOT2-CRADD
Fusion gene ID: 17730
HgeneTgene
Gene symbol

CNOT2

CRADD

Gene ID

4848

8738

Gene nameCCR4-NOT transcription complex subunit 2CASP2 and RIPK1 domain containing adaptor with death domain
SynonymsCDC36|HSPC131|IDNADFS|NOT2|NOT2HMRT34|RAIDD
Cytomap

12q15

12q22

Type of geneprotein-codingprotein-coding
DescriptionCCR4-NOT transcription complex subunit 2CCR4-associated factor 2negative regulator of transcription 2death domain-containing protein CRADDCRADD/LYZ fusionRIP-associated ICH1/CED3-homologous protein with death domaincaspase and RIP adaptor with death domaindeath adaptor molecule RAIDDdeath domain containing protein CRADD
Modification date2020031320200313
UniProtAcc

Q9NZN8

P78560

Ensembl transtripts involved in fusion geneENST00000229195, ENST00000418359, 
ENST00000548230, ENST00000551483, 
ENST00000548330, ENST00000332896, 
ENST00000541813, ENST00000542893, 
ENST00000548483, ENST00000552033, 
ENST00000552983, 
Fusion gene scores* DoF score41 X 13 X 11=58639 X 7 X 6=378
# samples 4613
** MAII scorelog2(46/5863*10)=-3.6719332904521
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0		log2(13/378*10)=-1.53987461119262
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CNOT2 [Title/Abstract] AND CRADD [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCNOT2(70637260)-CRADD(94243746), # samples:2
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
HgeneCNOT2

GO:0000122

negative regulation of transcription by RNA polymerase II

14707134|16712523

TgeneCRADD

GO:0043065

positive regulation of apoptotic process

11821383


check buttonFusion gene breakpoints across CNOT2 (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 CRADD (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
ChimerDB4SARCTCGA-DX-A1L3-01ACNOT2chr12

70637260

+CRADDchr12

94243746

+
ChimerDB4SARCTCGA-DX-A1L3CNOT2chr12

70637260

+CRADDchr12

94243745

+


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Fusion Gene ORF analysis for CNOT2-CRADD

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
5UTR-3UTRENST00000229195ENST00000548330CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-3UTRENST00000229195ENST00000548330CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-3UTRENST00000418359ENST00000548330CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-3UTRENST00000418359ENST00000548330CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000229195ENST00000332896CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000229195ENST00000332896CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000229195ENST00000541813CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000229195ENST00000541813CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000229195ENST00000542893CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000229195ENST00000542893CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000229195ENST00000548483CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000229195ENST00000548483CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000229195ENST00000552033CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000229195ENST00000552033CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000229195ENST00000552983CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000229195ENST00000552983CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000418359ENST00000332896CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000418359ENST00000332896CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000418359ENST00000541813CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000418359ENST00000541813CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000418359ENST00000542893CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000418359ENST00000542893CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000418359ENST00000548483CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000418359ENST00000548483CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000418359ENST00000552033CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000418359ENST00000552033CNOT2chr12

70637260

+CRADDchr12

94243745

+
5UTR-intronENST00000418359ENST00000552983CNOT2chr12

70637260

+CRADDchr12

94243746

+
5UTR-intronENST00000418359ENST00000552983CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-3UTRENST00000548230ENST00000548330CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-3UTRENST00000548230ENST00000548330CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-3UTRENST00000551483ENST00000548330CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-3UTRENST00000551483ENST00000548330CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000548230ENST00000332896CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000548230ENST00000332896CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000548230ENST00000541813CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000548230ENST00000541813CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000548230ENST00000542893CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000548230ENST00000542893CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000548230ENST00000548483CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000548230ENST00000548483CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000548230ENST00000552033CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000548230ENST00000552033CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000548230ENST00000552983CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000548230ENST00000552983CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000551483ENST00000332896CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000551483ENST00000332896CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000551483ENST00000541813CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000551483ENST00000541813CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000551483ENST00000542893CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000551483ENST00000542893CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000551483ENST00000548483CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000551483ENST00000548483CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000551483ENST00000552033CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000551483ENST00000552033CNOT2chr12

70637260

+CRADDchr12

94243745

+
intron-intronENST00000551483ENST00000552983CNOT2chr12

70637260

+CRADDchr12

94243746

+
intron-intronENST00000551483ENST00000552983CNOT2chr12

70637260

+CRADDchr12

94243745

+

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 CNOT2-CRADD


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)
CNOT2chr1270637260+CRADDchr1294243745+6.73E-070.9999993
CNOT2chr1270637260+CRADDchr1294243745+6.73E-070.9999993
CNOT2chr1270637260+CRADDchr1294243745+6.73E-070.9999993
CNOT2chr1270637260+CRADDchr1294243745+6.73E-070.9999993

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.
genomic feature of top 1%

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Fusion Protein Features for CNOT2-CRADD


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/:70637260/:94243746)
- 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
CNOT2

Q9NZN8

CRADD

P78560

FUNCTION: Component of the CCR4-NOT complex which is one of the major cellular mRNA deadenylases and is linked to various cellular processes including bulk mRNA degradation, miRNA-mediated repression, translational repression during translational initiation and general transcription regulation. Additional complex functions may be a consequence of its influence on mRNA expression. Required for the CCR4-NOT complex structural integrity. Can repress transcription and may link the CCR4-NOT complex to transcriptional regulation; the repressive function may specifically involve the N-Cor repressor complex containing HDAC3, NCOR1 and NCOR2. Involved in the maintenance of embryonic stem (ES) cell identity. {ECO:0000269|PubMed:14707134, ECO:0000269|PubMed:16712523, ECO:0000269|PubMed:21299754, ECO:0000269|PubMed:22367759}.FUNCTION: Adapter protein that associates with PIDD1 and the caspase CASP2 to form the PIDDosome, a complex that activates CASP2 and triggers apoptosis (PubMed:9044836, PubMed:15073321, PubMed:16652156, PubMed:17159900, PubMed:17289572). Also recruits CASP2 to the TNFR-1 signaling complex through its interaction with RIPK1 and TRADD and may play a role in the tumor necrosis factor-mediated signaling pathway (PubMed:8985253). {ECO:0000269|PubMed:15073321, ECO:0000269|PubMed:16652156, ECO:0000269|PubMed:17159900, ECO:0000269|PubMed:17289572, ECO:0000269|PubMed:8985253, ECO:0000269|PubMed:9044836}.

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 CNOT2-CRADD


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 CNOT2-CRADD


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 CNOT2-CRADD


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 CNOT2-CRADD


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