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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: 6628

FusionGeneSummary for CDKN1A_CD9

check button Fusion gene summary
Fusion gene informationFusion gene name: CDKN1A_CD9
Fusion gene ID: 6628
HgeneTgene
Gene symbol

CDKN1A

CD9

Gene ID

1026

928

Gene namecyclin dependent kinase inhibitor 1ACD9 molecule
SynonymsCAP20|CDKN1|CIP1|MDA-6|P21|SDI1|WAF1|p21CIP1BTCC-1|DRAP-27|MIC3|MRP-1|TSPAN-29|TSPAN29
Cytomap

6p21.2

12p13.31

Type of geneprotein-codingprotein-coding
Descriptioncyclin-dependent kinase inhibitor 1CDK-interacting protein 1CDK-interaction protein 1DNA synthesis inhibitorcyclin-dependent kinase inhibitor 1A (p21, Cip1)melanoma differentiation associated protein 6wild-type p53-activated fragment 1CD9 antigen5H9 antigenBA-2/p24 antigenCD9 antigen (p24)antigen CD9cell growth-inhibiting gene 2 proteinleukocyte antigen MIC3motility related protein-1tetraspanin-29
Modification date2018052720180523
UniProtAcc

P38936

P21926

Ensembl transtripts involved in fusion geneENST00000448526, ENST00000244741, 
ENST00000405375, ENST00000373711, 
ENST00000478800, 
ENST00000382518, 
ENST00000009180, ENST00000382515, 
ENST00000481267, 
Fusion gene scores* DoF score4 X 4 X 2=325 X 6 X 2=60
# samples 57
** MAII scorelog2(5/32*10)=0.643856189774725
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
log2(7/60*10)=0.222392421336448
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0
Context

PubMed: CDKN1A [Title/Abstract] AND CD9 [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
HgeneCDKN1A

GO:0000082

G1/S transition of mitotic cell cycle

10208428

HgeneCDKN1A

GO:0006977

DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest

15149599

HgeneCDKN1A

GO:0007050

cell cycle arrest

15149599

HgeneCDKN1A

GO:0008285

negative regulation of cell proliferation

10208428|15149599

HgeneCDKN1A

GO:0030308

negative regulation of cell growth

10208428

HgeneCDKN1A

GO:0042326

negative regulation of phosphorylation

10208428

HgeneCDKN1A

GO:0045860

positive regulation of protein kinase activity

22869755

TgeneCD9

GO:0007155

cell adhesion

7511626

TgeneCD9

GO:0007342

fusion of sperm to egg plasma membrane involved in single fertilization

14575715

TgeneCD9

GO:0051271

negative regulation of cellular component movement

8478605

TgeneCD9

GO:0090331

negative regulation of platelet aggregation

18541721


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
ChiTaRS3.1HM245393CDKN1Achr6

36646575

+CD9chr12

6334590

+
* 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-3CDSENST00000448526ENST00000382518CDKN1Achr6

36646575

+CD9chr12

6334590

+
intron-3CDSENST00000448526ENST00000009180CDKN1Achr6

36646575

+CD9chr12

6334590

+
intron-5UTRENST00000448526ENST00000382515CDKN1Achr6

36646575

+CD9chr12

6334590

+
intron-3UTRENST00000448526ENST00000481267CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-3CDSENST00000244741ENST00000382518CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-3CDSENST00000244741ENST00000009180CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-5UTRENST00000244741ENST00000382515CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-3UTRENST00000244741ENST00000481267CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-3CDSENST00000405375ENST00000382518CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-3CDSENST00000405375ENST00000009180CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-5UTRENST00000405375ENST00000382515CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-3UTRENST00000405375ENST00000481267CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-3CDSENST00000373711ENST00000382518CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-3CDSENST00000373711ENST00000009180CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-5UTRENST00000373711ENST00000382515CDKN1Achr6

36646575

+CD9chr12

6334590

+
5UTR-3UTRENST00000373711ENST00000481267CDKN1Achr6

36646575

+CD9chr12

6334590

+
3UTR-3CDSENST00000478800ENST00000382518CDKN1Achr6

36646575

+CD9chr12

6334590

+
3UTR-3CDSENST00000478800ENST00000009180CDKN1Achr6

36646575

+CD9chr12

6334590

+
3UTR-5UTRENST00000478800ENST00000382515CDKN1Achr6

36646575

+CD9chr12

6334590

+
3UTR-3UTRENST00000478800ENST00000481267CDKN1Achr6

36646575

+CD9chr12

6334590

+

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FusionProtFeatures for CDKN1A_CD9


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CDKN1A

P38936

CD9

P21926

May be involved in p53/TP53 mediated inhibition ofcellular proliferation in response to DNA damage. Binds to andinhibits cyclin-dependent kinase activity, preventingphosphorylation of critical cyclin-dependent kinase substrates andblocking cell cycle progression. Functions in the nuclearlocalization and assembly of cyclin D-CDK4 complex and promotesits kinase activity towards RB1. At higher stoichiometric ratios,inhibits the kinase activity of the cyclin D-CDK4 complex.Inhibits DNA synthesis by DNA polymerase delta by competing withPOLD3 for PCNA binding (PubMed:11595739).{ECO:0000269|PubMed:11595739, ECO:0000269|PubMed:8242751,ECO:0000269|PubMed:9106657}. Involved in platelet activation and aggregation.Regulates paranodal junction formation. Involved in cell adhesion,cell motility and tumor metastasis. Required for sperm-egg fusion.{ECO:0000269|PubMed:14575715, ECO:0000269|PubMed:7511626,ECO:0000269|PubMed:8478605}.

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 CDKN1A_CD9


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 CDKN1A_CD9


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
CDKN1ATSG101, TEX11, CCND2, CCDC85B, CCND3, PCNA, GADD45A, CHEK1, CDK2, GADD45G, TP53, BCCIP, CCNA2, PARP1, CCNE1, GET4, GNB2L1, HDAC11, RAB1A, CSNK2B, HERC5, MAP3K5, CIZ1, TK1, PIM1, STAT3, CCND1, SET, PSMA3, CUL4A, DDB1, DTL, CDC20, SKP2, CDC27, CCNB1, CDK1, PSME3, HDAC1, CDK4, CDK6, MAPK8, JUN, GAPDH, MGMT, MDM2, HDAC4, HDAC6, HDAC2, E2F1, ESR1, CREBBP, RNF144B, EP300, MDM4, PSMC5, PSMD2, NCOR1, NCOR2, POLR2A, VDR, IKBKG, OPTN, NPM1, SPRED1, ATXN3, ATP6V1A, HMGXB3, CSAD, S100A8, CPNE6, GNB2, EXT2, SDF4, FLAD1, CPNE2, OTUB1, HADHB, WIZ, TAF5L, CCT7, BAG6, UBE2D1, RBM48, GDF9, DEAF1, ZBTB48, ZBTB16, TUBA1A, KLHL23, F13A1, SUMO3, VIM, PDHB, TMSB4X, DDAH2, ADAMTS10, WDR73, ALAS1, TLE1, TRMT2A, ACTB, COPS6, USP4, RPS2, CTSB, A2M, MED31, CENPB, SP110, A1BG, COL4A5, RAI1, ATP5B, DYNC1I1, EEF1A1, FBN3, NPRL2, APLP1, INPP5K, UNC119, CELF3, GNB5, MSH2, LRIF1, ANGPT2, TUBB3, CHGB, ZNF431, PDE4DIP, ACTL6B, PKM, NGFR, DOCK7, QARS, ING5, ZNF135, KMT2B, TUBB2B, FGB, RBBP4, HOXD8, CLEC3B, NRBP1, FAF1, SETDB1, NFE2L2, FKBPL, HSP90AA1, FBXO32, CDKN1B, CCNE2, BRAP, TRRAP, YWHAQ, TP63, CCNA1, RNF126, DAPK3, APP, CDK14, CUL1, VCP, NOV, CEBPA, CASP3, HIST1H1B, TRIM39, MKRN1, CDC45, CDC6, CDC7, CDC5L, CCNB2, GMNN, MCM10, CDK5, RB1, RNF114, VPS51, TNIP2, HNRNPK, TXN, RPL35, BAD, GCKR, HPD, RPL18, SIPA1, NR1H2, TNIP1, TXNDC11, NKD2, CXCL13, CDK3, HSPA5, RBL2, RAVER1, HSPA9, MOGS, USP11, TUBB, UBR4, GIGYF2, IRS4, TBC1D4, HSPA8, LRPPRC, CKS2, PUM1, UBR5, CRTC2, AMOT, ANKRD17, YTHDF1, CLINT1, CPVL, FBXO21, NCL, EIF4EBP3, HSPA2, HNRNPA2B1, MARK2, PPFIBP1, CCNO, SBF1, ABR, RPS16, SNRNP200, PRPF8, CKS1B, HSPA1A, SUPT6H, IGF2BP1, PHKA1, PPFIA1, CAMK2D, PHKG2, CEP290, RPS4X, EPPK1, PDHX, PUF60, RPS25, EFTUD2, UBB, NTN4, SNTB2, RPS9, KRT31, TCF4, TRAF1, IKZF3, TRIM54, LATS2, AKT1, AKT2, SS18, RUSC2, SMAD4, FOXO1, SKP1, SMAD3, KAT2B, TRIM3, ABL1, STUB1, MAPK14, PRKACACD9CD82, KIT, CD63, CD81, ITGB1, IGSF8, ITGA3, CD46, ITGA5, TSPAN4, PTGFRN, CD53, CD19, CD36, SERPINH1, PRKCA, ELAVL1, LGALS3BP, ATP6V1B1, CLN8, VKORC1, ADRB2


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 CDKN1A_CD9


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.0 2018-04-02)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status
HgeneCDKN1AP38936DB01169Arsenic trioxideCyclin-dependent kinase inhibitor 1small moleculeapproved|investigational

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RelatedDiseases for CDKN1A_CD9


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCDKN1AC0007138Carcinoma, Transitional Cell2CTD_human
HgeneCDKN1AC0021841Intestinal Neoplasms2CTD_human
HgeneCDKN1AC0024121Lung Neoplasms2CTD_human
HgeneCDKN1AC0033578Prostatic Neoplasms2CTD_human
HgeneCDKN1AC0005695Bladder Neoplasm1CTD_human
HgeneCDKN1AC0009375Colonic Neoplasms1CTD_human
HgeneCDKN1AC0019693HIV Infections1CTD_human
HgeneCDKN1AC0022658Kidney Diseases1CTD_human
HgeneCDKN1AC0023893Liver Cirrhosis, Experimental1CTD_human
HgeneCDKN1AC0030354Papilloma1CTD_human
HgeneCDKN1AC0035126Reperfusion Injury1CTD_human
HgeneCDKN1AC0038356Stomach Neoplasms1CTD_human
HgeneCDKN1AC0238288Muscular Dystrophy, Facioscapulohumeral1CTD_human
HgeneCDKN1AC0279626Squamous cell carcinoma of esophagus1CTD_human
HgeneCDKN1AC0345967Malignant mesothelioma1CTD_human
TgeneCD9C0007131Non-Small Cell Lung Carcinoma1CTD_human
TgeneCD9C0009404Colorectal Neoplasms1CTD_human
TgeneCD9C0017636Glioblastoma1CTD_human
TgeneCD9C0023467Leukemia, Myelocytic, Acute1CTD_human
TgeneCD9C0023890Liver Cirrhosis1CTD_human
TgeneCD9C0027658Neoplasms, Germ Cell and Embryonal1CTD_human
TgeneCD9C0027746Nerve Degeneration1CTD_human
TgeneCD9C0033578Prostatic Neoplasms1CTD_human