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Center for Computational Systems Medicine
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FusionGeneSummary

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FusionProtFeature

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FusionGeneSequence

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FusionGenePPI

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RelatedDrugs

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RelatedDiseases

Fusion gene ID: 6529

FusionGeneSummary for CDK16_USP9X

check button Fusion gene summary
Fusion gene informationFusion gene name: CDK16_USP9X
Fusion gene ID: 6529
HgeneTgene
Gene symbol

CDK16

USP9X

Gene ID

5127

8239

Gene namecyclin dependent kinase 16ubiquitin specific peptidase 9 X-linked
SynonymsPCTAIRE|PCTAIRE1|PCTGAIRE|PCTK1DFFRX|FAF|FAM|MRX99|MRXS99F
Cytomap

Xp11.3

Xp11.4

Type of geneprotein-codingprotein-coding
Descriptioncyclin-dependent kinase 16PCTAIRE-motif protein kinase 1cell division protein kinase 16serine/threonine-protein kinase PCTAIRE-1testis secretory sperm-binding protein Li 224nprobable ubiquitin carboxyl-terminal hydrolase FAF-XDrosophila fat facets related, X-linkeddeubiquitinating enzyme FAF-Xfat facets in mammalsfat facets protein related, X-linkedhFAMubiquitin specific protease 9, X chromosome (fat facets-like Drosoph
Modification date2018052320180523
UniProtAcc

Q00536

Q93008

Ensembl transtripts involved in fusion geneENST00000517997, ENST00000457458, 
ENST00000357227, ENST00000518022, 
ENST00000276052, 
ENST00000378308, 
ENST00000324545, 
Fusion gene scores* DoF score6 X 6 X 4=1447 X 8 X 2=112
# samples 68
** MAII scorelog2(6/144*10)=-1.26303440583379
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(8/112*10)=-0.485426827170242
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CDK16 [Title/Abstract] AND USP9X [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotation
* 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
TgeneUSP9X

GO:0016579

protein deubiquitination

19135894

TgeneUSP9X

GO:0030509

BMP signaling pathway

19135894

TgeneUSP9X

GO:1901537

positive regulation of DNA demethylation

25944111


check button Fusion gene information from three resources
(ChiTars (NAR, 2018), tumorfusions (NAR, 2018), Gao et al. (Cell, 2018))
* 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.
Data typeSourceCancer typeSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChiTaRS3.1BI019783CDK16chrX

47080370

-USP9XchrX

40977867

+
* LD: Li Ding group's fusion gene list
  RV: Roel Verhaak group's fusion gene list
  ChiTaRs fusion database

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
intron-intronENST00000517997ENST00000378308CDK16chrX

47080370

-USP9XchrX

40977867

+
intron-intronENST00000517997ENST00000324545CDK16chrX

47080370

-USP9XchrX

40977867

+
intron-intronENST00000457458ENST00000378308CDK16chrX

47080370

-USP9XchrX

40977867

+
intron-intronENST00000457458ENST00000324545CDK16chrX

47080370

-USP9XchrX

40977867

+
intron-intronENST00000357227ENST00000378308CDK16chrX

47080370

-USP9XchrX

40977867

+
intron-intronENST00000357227ENST00000324545CDK16chrX

47080370

-USP9XchrX

40977867

+
intron-intronENST00000518022ENST00000378308CDK16chrX

47080370

-USP9XchrX

40977867

+
intron-intronENST00000518022ENST00000324545CDK16chrX

47080370

-USP9XchrX

40977867

+
intron-intronENST00000276052ENST00000378308CDK16chrX

47080370

-USP9XchrX

40977867

+
intron-intronENST00000276052ENST00000324545CDK16chrX

47080370

-USP9XchrX

40977867

+

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FusionProtFeatures for CDK16_USP9X


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CDK16

Q00536

USP9X

Q93008

Protein kinase that plays a role in vesicle-mediatedtransport processes and exocytosis. Regulates GH1 release by brainneurons. Phosphorylates NSF, and thereby regulates NSFoligomerization. Required for normal spermatogenesis. Regulatesneuron differentiation and dendrite development (By similarity).Plays a role in the regulation of insulin secretion in response tochanges in blood glucose levels. Can phosphorylate CCNY at 'Ser-336' (in vitro). {ECO:0000250, ECO:0000269|PubMed:22184064,ECO:0000269|PubMed:22796189, ECO:0000269|PubMed:22798068}. Deubiquitinase involved both in the processing ofubiquitin precursors and of ubiquitinated proteins. May thereforeplay an important regulatory role at the level of protein turnoverby preventing degradation of proteins through the removal ofconjugated ubiquitin. Specifically hydrolyzes 'Lys-48'-, 'Lys-29'- and 'Lys-33'-linked polyubiquitins chains. Essentialcomponent of TGF-beta/BMP signaling cascade. Specificallydeubiquitinates monoubiquitinated SMAD4, opposing the activity ofE3 ubiquitin-protein ligase TRIM33. Deubiquitinates alkylationrepair enzyme ALKBH3. OTUD4 recruits USP7 and USP9X to stabilizeALKBH3, thereby promoting the repair of alkylated DNA lesions(PubMed:25944111). Regulates chromosome alignment and segregationin mitosis by regulating the localization of BIRC5/survivin tomitotic centromeres. Involved in axonal growth and neuronal cellmigration (PubMed:16322459, PubMed:18254724, PubMed:19135894,PubMed:24607389). {ECO:0000269|PubMed:16322459,ECO:0000269|PubMed:18254724, ECO:0000269|PubMed:19135894,ECO:0000269|PubMed:24607389, ECO:0000269|PubMed:25944111}.

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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FusionGeneSequence for CDK16_USP9X


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences.
(nt: nucleotides, aa: amino acids)

* Fusion amino acid sequences.

* Fusion transcript sequences (only coding sequence (CDS) region).

* Fusion transcript sequences (Full-length transcript).

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FusionGenePPI for CDK16_USP9X


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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RelatedDrugs for CDK16_USP9X


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for CDK16_USP9X


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCDK16C0036341Schizophrenia2PSYGENET
TgeneUSP9XC3806746MENTAL RETARDATION, X-LINKED 991UNIPROT