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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: 6406

FusionGeneSummary for CDC73_KIFAP3

check button Fusion gene summary
Fusion gene informationFusion gene name: CDC73_KIFAP3
Fusion gene ID: 6406
HgeneTgene
Gene symbol

CDC73

KIFAP3

Gene ID

79577

22920

Gene namecell division cycle 73kinesin associated protein 3
SynonymsC1orf28|FIHP|HPTJT|HRPT1|HRPT2|HYXFLA3|KAP-1|KAP-3|KAP3|SMAP|Smg-GDS|dJ190I16.1
Cytomap

1q31.2

1q24.2

Type of geneprotein-codingprotein-coding
DescriptionparafibrominPaf1/RNA polymerase II complex componentcell division cycle 73 Paf1/RNA polymerase II complex component-like proteincell division cycle 73, Paf1/RNA polymerase II complex component, homologcell division cycle protein 73 homologhyperparathkinesin-associated protein 3small G protein GDP dissociation stimulatorsmg GDS-associated protein
Modification date2018052320180519
UniProtAcc

Q6P1J9

Q92845

Ensembl transtripts involved in fusion geneENST00000367435, ENST00000477868, 
ENST00000367765, ENST00000367767, 
ENST00000361580, ENST00000538366, 
ENST00000540905, ENST00000490550, 
Fusion gene scores* DoF score5 X 4 X 5=1006 X 6 X 6=216
# samples 56
** MAII scorelog2(5/100*10)=-1
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
log2(6/216*10)=-1.84799690655495
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CDC73 [Title/Abstract] AND KIFAP3 [Title/Abstract] AND fusion [Title/Abstract]

Functional or gene categories assigned by FusionGDB annotationTumor suppressor gene involved fusion gene, retained protein feature but frameshift.
DDR (DNA damage repair) gene involved fusion gene, in-frame but not retained their domain.
* 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
HgeneCDC73

GO:0008285

negative regulation of cell proliferation

16989776

HgeneCDC73

GO:0010390

histone monoubiquitination

16307923

HgeneCDC73

GO:0030177

positive regulation of Wnt signaling pathway

16630820

HgeneCDC73

GO:0032968

positive regulation of transcription elongation from RNA polymerase II promoter

20178742

HgeneCDC73

GO:0033523

histone H2B ubiquitination

16307923

HgeneCDC73

GO:0045638

negative regulation of myeloid cell differentiation

20541477

HgeneCDC73

GO:0045944

positive regulation of transcription by RNA polymerase II

20178742

HgeneCDC73

GO:2000134

negative regulation of G1/S transition of mitotic cell cycle

16989776


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
TCGALDPRADTCGA-EJ-5518-01ACDC73chr1

193181607

+KIFAP3chr1

170008429

-
* 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
Frame-shiftENST00000367435ENST00000367765CDC73chr1

193181607

+KIFAP3chr1

170008429

-
Frame-shiftENST00000367435ENST00000367767CDC73chr1

193181607

+KIFAP3chr1

170008429

-
Frame-shiftENST00000367435ENST00000361580CDC73chr1

193181607

+KIFAP3chr1

170008429

-
Frame-shiftENST00000367435ENST00000538366CDC73chr1

193181607

+KIFAP3chr1

170008429

-
5CDS-intronENST00000367435ENST00000540905CDC73chr1

193181607

+KIFAP3chr1

170008429

-
5CDS-5UTRENST00000367435ENST00000490550CDC73chr1

193181607

+KIFAP3chr1

170008429

-
intron-3CDSENST00000477868ENST00000367765CDC73chr1

193181607

+KIFAP3chr1

170008429

-
intron-3CDSENST00000477868ENST00000367767CDC73chr1

193181607

+KIFAP3chr1

170008429

-
intron-3CDSENST00000477868ENST00000361580CDC73chr1

193181607

+KIFAP3chr1

170008429

-
intron-3CDSENST00000477868ENST00000538366CDC73chr1

193181607

+KIFAP3chr1

170008429

-
intron-intronENST00000477868ENST00000540905CDC73chr1

193181607

+KIFAP3chr1

170008429

-
intron-5UTRENST00000477868ENST00000490550CDC73chr1

193181607

+KIFAP3chr1

170008429

-

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FusionProtFeatures for CDC73_KIFAP3


check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
CDC73

Q6P1J9

KIFAP3

Q92845

Tumor suppressor probably involved in transcriptionaland post-transcriptional control pathways. May be involved in cellcycle progression through the regulation of cyclin D1/PRAD1expression. Component of the PAF1 complex (PAF1C) which hasmultiple functions during transcription by RNA polymerase II andis implicated in regulation of development and maintenance ofembryonic stem cell pluripotency. PAF1C associates with RNApolymerase II through interaction with POLR2A CTD non-phosphorylated and 'Ser-2'- and 'Ser-5'-phosphorylated forms andis involved in transcriptional elongation, acting bothindepentently and synergistically with TCEA1 and in cooperationwith the DSIF complex and HTATSF1. PAF1C is required fortranscription of Hox and Wnt target genes. PAF1C is involved inhematopoiesis and stimulates transcriptional activity ofKMT2A/MLL1; it promotes leukemogenesis through association withKMT2A/MLL1-rearranged oncoproteins, such as KMT2A/MLL1-MLLT3/AF9and KMT2A/MLL1-MLLT1/ENL. PAF1C is involved in histonemodifications such as ubiquitination of histone H2B andmethylation on histone H3 'Lys-4' (H3K4me3). PAF1C recruits theRNF20/40 E3 ubiquitin-protein ligase complex and the E2 enzymeUBE2A or UBE2B to chromatin which mediate monoubiquitination of'Lys-120' of histone H2B (H2BK120ub1); UB2A/B-mediated H2Bubiquitination is proposed to be coupled to transcription. PAF1Cis involved in mRNA 3' end formation probably through associationwith cleavage and poly(A) factors. In case of infection byinfluenza A strain H3N2, PAF1C associates with viral NS1 protein,thereby regulating gene transcription. Connects PAF1C with thecleavage and polyadenylation specificity factor (CPSF) complex andthe cleavage stimulation factor (CSTF) complex, and with Wntsignaling. Involved in polyadenylation of mRNA precursors.{ECO:0000269|PubMed:15580289, ECO:0000269|PubMed:15632063,ECO:0000269|PubMed:15923622, ECO:0000269|PubMed:16630820,ECO:0000269|PubMed:16989776, ECO:0000269|PubMed:19136632,ECO:0000269|PubMed:19952111, ECO:0000269|PubMed:20178742,ECO:0000269|PubMed:20541477, ECO:0000269|PubMed:21329879}. Involved in tethering the chromosomes to the spindlepole and in chromosome movement. Binds to the tail domain of theKIF3A/KIF3B heterodimer to form a heterotrimeric KIF3 complex andmay regulate the membrane binding of this complex (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.
- 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 CDC73_KIFAP3


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 CDC73_KIFAP3


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
CDC73ANXA6, HSPA4, PITHD1, KCNH2, GC, WWC1, RANBP2, CTR9, LEO1, PAF1, POLR2A, CDK9, MEPCE, KMT2A, CPSF1, CPSF2, CPSF3, RRAGA, CSTF2, KMT2C, ASH2L, RBBP5, CPSF4, CSTF3, TCEA1, RTF1, MCM3AP, DDAH2, HAP1, CEP70, HSF2BP, ITFG1, FAF1, RNF20, RNF40, HSP90AA1, WDR61, HIST1H3A, PTPN11, CTNNB1, SUV39H1, GTF2F1, BCL9L, SOX2, DNMT3A, DNMT3B, ARFGEF2, CHUK, COG3, MYH14, NUP98, MYH9, MYL12A, GPRASP2, CIAO1, AURKB, ALAS1, GOLGA2, TFCP2, MTUS2, VPS37B, TSGA10, FSD2, CCDC155, HIST1H1A, HIST1H1C, NTRK1, AP3B1, AP3D1, AP3S1, SRRM2, NUMA1, TCF7L2, KRAS, XPO1, RAD51, TCEB2, BRPF1, SCAMP3, UQCRQ, IMPACT, MRPS15, CD44, POLR2G, RFX5, SUPT5H, AP4S1, CNTROB, C1orf131, MYC, SNW1, CDC5L, NANOG, HIST2H2BE, HIST3H3, PDIA6, DHRS2, LANCL1, ANP32B, CCT4, CCT2, PAICS, GNA13, CCT8, CFL1, RAB10, YWHAQ, DCD, CLTC, CNN3, MYO3B, RAB40A, CSE1L, DSG1, DSP, EEF1A1, EEF1A2, EEF1D, EEF1G, EEF2, EIF2S1, EIF2S3, ENO1, EPRS, ALB, ALCAM, ALDOA, FKBP4, CCT5, ERP44, FLNA, FLNB, FLNC, EXOC7, G6PD, GAPDH, PHGDH, FBXO3, RAB30, GNA12, SFN, RAB40AL, CCDC88B, ANXA1, ANXA2, HADHA, HK1, HNRNPF, HNRNPK, HSD17B4, DNAJA1, HSPA2, HSPA5, HSPA8, HSPA9, HSPB1, HSP90AB1, HSPD1, TUBB8, ITGB1, JUP, KARS, ARF1, ARF3, ARF4, FLG2, RPSA, LDHA, RAB8A, MIF, POTEE, MSN, MTHFD1, NEFH, NNMT, NUCB2, ATP5A1, PRDX1, ATP5B, PCBP1, PCNA, SAR1B, PFN1, PGD, PKM, PLG, PCBP3, PPA1, PRKDC, PRSS1, PSMC2, PSMD2, RAB1A, RAB2A, RAB5A, RAB5C, RAN, RARS, RNH1, RPL7, RPL11, RPL22, RPLP0, RPN1, RPN2, RPS3, RPS5, RPS10, RPS17, RPS27A, SLC3A2, SNRPA1, TCP1, TFRC, HSP90B1, CCT3, UBA52, UBB, UBC, VCP, VIM, YWHAB, YWHAE, YWHAZ, ACTN4, CALR, SLC7A5, HM13, RAB1B, CANX, CLTCL1, CAPZB, TAGLN2, ACTN1, GBF1, CCT6A, CAND1, CUL1, UBA1, FBXO21, RUVBL2, TULP2, ERMAP, CHEK2, CHEK1, TOP1, TOP2A, TOP3A, DHFR, WEE1, IMPDH1, TUBA1A, NCL, G3BP1, UHRF2, TESKIFAP3APC, SRC, RAP1GDS1, MAP3K10, MAP3K11, SMC3, AR, DISC1, NUDT21, MEST, NIPSNAP3A, RANBP2, VHL, KIF3A, RBFOX1, PEX19, NCF2, NAA10, NTRK1, CEP19, AIM1, COL4A1, DHX15, GBE1, KPNA2, PSMD5, SON, TAF1, TAF4, TAF5, TAF7, SART1, PRPF4, PRPF3, KIF3B, DDX23, GCC2, RUSC2, CEP350, MED24, HMGXB4, IFI30, KIF3C, EFR3A, ORC3, RBM22, MUC13, XAB2, RBM26, FAM192A, BUD13, OSBPL1A, RAP1A, CCNY, ERICH5, GTF2IRD1, PAK2, VAMP3, S100A13, GNAQ, GAP43, VPS25, GNAO1, RAP2A, YES1, IQGAP3, MRPS25, MRPS17, CEP170, SLC9A3R2, INTU


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 CDC73_KIFAP3


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 CDC73_KIFAP3


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCDC73C1840402HYPERPARATHYROIDISM 13CTD_human;ORPHANET;UNIPROT
HgeneCDC73C1704981Hyperparathyroidism-Jaw Tumor Syndrome1CTD_human;ORPHANET;UNIPROT