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Fusion gene ID: 39470 |
FusionGeneSummary for TRIM16_TOP3A |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: TRIM16_TOP3A | Fusion gene ID: 39470 | Hgene | Tgene | Gene symbol | TRIM16 | TOP3A | Gene ID | 10626 | 7156 |
| Gene name | tripartite motif containing 16 | DNA topoisomerase III alpha | |
| Synonyms | EBBP | TOP3|ZGRF7 | |
| Cytomap | 17p12 | 17p11.2 | |
| Type of gene | protein-coding | protein-coding | |
| Description | tripartite motif-containing protein 16estrogen-responsive B box protein | DNA topoisomerase 3-alphatopo III-alphatopoisomerase (DNA) III alphazinc finger, GRF-type containing 7 | |
| Modification date | 20180519 | 20180523 | |
| UniProtAcc | O95361 | Q13472 | |
| Ensembl transtripts involved in fusion gene | ENST00000577886, ENST00000416464, ENST00000578237, ENST00000336708, ENST00000579219, ENST00000581224, | ENST00000321105, ENST00000540524, ENST00000542570, ENST00000582230, | |
| Fusion gene scores | * DoF score | 3 X 2 X 3=18 | 4 X 4 X 4=64 |
| # samples | 3 | 4 | |
| ** MAII score | log2(3/18*10)=0.736965594166206 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(4/64*10)=-0.678071905112638 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: TRIM16 [Title/Abstract] AND TOP3A [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) |
| Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Hgene | TRIM16 | GO:0043966 | histone H3 acetylation | 19147277 |
| Hgene | TRIM16 | GO:0043967 | histone H4 acetylation | 16636064 |
| Hgene | TRIM16 | GO:0045618 | positive regulation of keratinocyte differentiation | 11919186 |
| Hgene | TRIM16 | GO:0045893 | positive regulation of transcription, DNA-templated | 16636064|19147277 |
| Hgene | TRIM16 | GO:0048386 | positive regulation of retinoic acid receptor signaling pathway | 16636064 |
| Hgene | TRIM16 | GO:0060416 | response to growth hormone | 11919186 |
| Tgene | TOP3A | GO:0006265 | DNA topological change | 20445207 |
| 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 type | Source | Cancer type | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| TCGA | LD | UCS | TCGA-N8-A4PI-01A | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| * LD: Li Ding group's fusion gene list RV: Roel Verhaak group's fusion gene list ChiTaRs fusion database |
| 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. |
| ORF | Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| intron-3CDS | ENST00000577886 | ENST00000321105 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-intron | ENST00000577886 | ENST00000540524 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-5UTR | ENST00000577886 | ENST00000542570 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-5UTR | ENST00000577886 | ENST00000582230 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-3CDS | ENST00000416464 | ENST00000321105 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-intron | ENST00000416464 | ENST00000540524 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-5UTR | ENST00000416464 | ENST00000542570 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-5UTR | ENST00000416464 | ENST00000582230 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| Frame-shift | ENST00000578237 | ENST00000321105 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| 5CDS-intron | ENST00000578237 | ENST00000540524 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| 5CDS-5UTR | ENST00000578237 | ENST00000542570 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| 5CDS-5UTR | ENST00000578237 | ENST00000582230 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| Frame-shift | ENST00000336708 | ENST00000321105 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| 5CDS-intron | ENST00000336708 | ENST00000540524 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| 5CDS-5UTR | ENST00000336708 | ENST00000542570 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| 5CDS-5UTR | ENST00000336708 | ENST00000582230 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-3CDS | ENST00000579219 | ENST00000321105 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-intron | ENST00000579219 | ENST00000540524 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-5UTR | ENST00000579219 | ENST00000542570 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-5UTR | ENST00000579219 | ENST00000582230 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-3CDS | ENST00000581224 | ENST00000321105 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-intron | ENST00000581224 | ENST00000540524 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-5UTR | ENST00000581224 | ENST00000542570 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
| intron-5UTR | ENST00000581224 | ENST00000582230 | TRIM16 | chr17 | 15554405 | - | TOP3A | chr17 | 18212255 | - |
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FusionProtFeatures for TRIM16_TOP3A |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| TRIM16 | TOP3A |
| May play a role in the regulation of keratinocytedifferentiation. | Releases the supercoiling and torsional tension of DNAintroduced during the DNA replication and transcription bytransiently cleaving and rejoining one strand of the DNA duplex.Introduces a single-strand break via transesterification at atarget site in duplex DNA. The scissile phosphodiester is attackedby the catalytic tyrosine of the enzyme, resulting in theformation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and theexpulsion of a 3'-OH DNA strand. The free DNA strand thenundergoes passage around the unbroken strand thus removing DNAsupercoils. Finally, in the religation step, the DNA 3'-OH attacksthe covalent intermediate to expel the active-site tyrosine andrestore the DNA phosphodiester backbone. Essential component ofthe RMI complex, a complex that plays an important role in theprocessing of homologous recombination intermediates to limit DNAcrossover formation in cells. Has DNA decatenation activity.{ECO:0000269|PubMed:20445207, ECO:0000269|PubMed:8622991}. |
| Retention 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 . * 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. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
| - In-frame and not-retained protein feature among the 13 regional features. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
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FusionGeneSequence for TRIM16_TOP3A |
| 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 TRIM16_TOP3A |
| Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in . |
| Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160) |
| Hgene | Hgene's interactors | Tgene | Tgene's interactors |
| TRIM16 | VIM, E2F1, TERF1, TINF2, ACD, POT1, APP, HSP90AB2P, CLUH, MCM7, TOMM34, MOV10, NXF1, TRIM16L, OPTN, LGALS2, LGALS3, ULK1, CUL4A, BECN1, ATG16L1, CUL5, DEPTOR, RRAGB, RRAGD, TFEB, PPP3CB | TOP3A | BLM, FANCA, RECQL5, APITD1, FANCM, RMI1, RPA1, FANCG, RAD21, TERF2, LSM11, MIB1, RPA3, RPA2, C17orf70, ECHDC2, LIG3, MRM1, RMI2, OXLD1, DCUN1D4, TTF2, NTRK1, CEP162, CCDC69, SDHB, C4orf26, MARCKSL1, ATP5D, COX7A2, BPNT1, YBEY, MRPL21, NIT1, METTL2A, SLX1A, THEM4, MECP2, TMEM70, CHEK1, BRCA2, WEE1, PALB2, RAD17, LLGL1, MSH2, NF1, RPS11, CDC73, CDC6, MAP3K4, TTN, FH, FANCD2 |
| - Retained PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost PPIs in in-frame fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
| - Retained PPIs, but lost function due to frame-shift fusion. |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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RelatedDrugs for TRIM16_TOP3A |
| Drugs targeting genes involved in this fusion gene. (DrugBank Version 5.1.0 2018-04-02) |
| Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for TRIM16_TOP3A |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
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