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Fusion gene ID: 19913 |
FusionGeneSummary for LMO7_HLTF |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: LMO7_HLTF | Fusion gene ID: 19913 | Hgene | Tgene | Gene symbol | LMO7 | HLTF | Gene ID | 4008 | 6596 |
| Gene name | LIM domain 7 | helicase like transcription factor | |
| Synonyms | FBX20|FBXO20|LMO7b|LOMP | HIP116|HIP116A|HLTF1|RNF80|SMARCA3|SNF2L3|ZBU1 | |
| Cytomap | 13q22.2 | 3q24 | |
| Type of gene | protein-coding | protein-coding | |
| Description | LIM domain only protein 7F-box only protein 20F-box protein Fbx20LIM domain only 7 proteinLMO-7zinc-finger domain-containing protein | helicase-like transcription factorDNA-binding protein/plasminogen activator inhibitor-1 regulatorRING finger protein 80RING-type E3 ubiquitin transferase HLTFSNF2-like 3SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfa | |
| Modification date | 20180522 | 20180519 | |
| UniProtAcc | Q8WWI1 | Q14527 | |
| Ensembl transtripts involved in fusion gene | ENST00000341547, ENST00000357063, ENST00000377534, ENST00000321797, ENST00000526202, ENST00000465261, ENST00000605961, | ENST00000465259, ENST00000310053, ENST00000392912, ENST00000494055, ENST00000481663, | |
| Fusion gene scores | * DoF score | 7 X 6 X 4=168 | 3 X 3 X 3=27 |
| # samples | 9 | 3 | |
| ** MAII score | log2(9/168*10)=-0.900464326449086 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(3/27*10)=0.15200309344505 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | |
| Context | PubMed: LMO7 [Title/Abstract] AND HLTF [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 | LMO7 | GO:0045944 | positive regulation of transcription by RNA polymerase II | 17067998 |
| 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 |
| ChiTaRS3.1 | Z46606 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| * 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 |
| 5CDS-intron | ENST00000341547 | ENST00000465259 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000341547 | ENST00000310053 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000341547 | ENST00000392912 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-5UTR | ENST00000341547 | ENST00000494055 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000341547 | ENST00000481663 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000357063 | ENST00000465259 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000357063 | ENST00000310053 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000357063 | ENST00000392912 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-5UTR | ENST00000357063 | ENST00000494055 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000357063 | ENST00000481663 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000377534 | ENST00000465259 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000377534 | ENST00000310053 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000377534 | ENST00000392912 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-5UTR | ENST00000377534 | ENST00000494055 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000377534 | ENST00000481663 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000321797 | ENST00000465259 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000321797 | ENST00000310053 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000321797 | ENST00000392912 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-5UTR | ENST00000321797 | ENST00000494055 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000321797 | ENST00000481663 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000526202 | ENST00000465259 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000526202 | ENST00000310053 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000526202 | ENST00000392912 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-5UTR | ENST00000526202 | ENST00000494055 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000526202 | ENST00000481663 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000465261 | ENST00000465259 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000465261 | ENST00000310053 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000465261 | ENST00000392912 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-5UTR | ENST00000465261 | ENST00000494055 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| 5CDS-intron | ENST00000465261 | ENST00000481663 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| intron-intron | ENST00000605961 | ENST00000465259 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| intron-intron | ENST00000605961 | ENST00000310053 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| intron-intron | ENST00000605961 | ENST00000392912 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| intron-5UTR | ENST00000605961 | ENST00000494055 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
| intron-intron | ENST00000605961 | ENST00000481663 | LMO7 | chr13 | 76423309 | - | HLTF | chr3 | 148804317 | - |
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FusionProtFeatures for LMO7_HLTF |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| LMO7 | HLTF |
| Has both helicase and E3 ubiquitin ligase activities.Possesses intrinsic ATP-dependent nucleosome-remodeling activity;This activity may be required for transcriptional activation orrepression of specific target promoters (By similarity). These mayinclude the SERPINE1 and HIV-1 promoters and the SV40 enhancer, towhich this protein can bind directly. Plays a role in error-freepostreplication repair (PRR) of damaged DNA and maintains genomicstability through acting as a ubiquitin ligase for 'Lys-63'-linkedpolyubiquitination of chromatin-bound PCNA. {ECO:0000250,ECO:0000269|PubMed:10391891, ECO:0000269|PubMed:18316726,ECO:0000269|PubMed:18719106, ECO:0000269|PubMed:7876228,ECO:0000269|PubMed:8672239, ECO:0000269|PubMed:9126292}. |
| 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 LMO7_HLTF |
| 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 LMO7_HLTF |
| 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 |
| - 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 LMO7_HLTF |
| 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 LMO7_HLTF |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Tgene | HLTF | C0022665 | Kidney Neoplasm | 1 | CTD_human |
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