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Fusion gene ID: 19403 |
FusionGeneSummary for LAMC1_TRIM5 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: LAMC1_TRIM5 | Fusion gene ID: 19403 | Hgene | Tgene | Gene symbol | LAMC1 | TRIM5 | Gene ID | 3915 | 85363 |
| Gene name | laminin subunit gamma 1 | tripartite motif containing 5 | |
| Synonyms | LAMB2 | RNF88|TRIM5alpha | |
| Cytomap | 1q25.3 | 11p15.4 | |
| Type of gene | protein-coding | protein-coding | |
| Description | laminin subunit gamma-1S-LAM gammaS-laminin subunit gammalaminin B2 chainlaminin, gamma 1 (formerly LAMB2)laminin-10 subunit gammalaminin-11 subunit gammalaminin-2 subunit gammalaminin-3 subunit gammalaminin-4 subunit gammalaminin-6 subunit gamm | tripartite motif-containing protein 5RING-type E3 ubiquitin transferase TRIM5ring finger protein 88tripartite motif containing 5 transcript variant iotatripartite motif containing 5 transcript variant kappatripartite motif protein TRIM5 | |
| Modification date | 20180522 | 20180519 | |
| UniProtAcc | P11047 | Q9C035 | |
| Ensembl transtripts involved in fusion gene | ENST00000258341, ENST00000466964, | ENST00000380027, ENST00000396855, ENST00000305836, ENST00000380034, ENST00000396847, ENST00000483835, ENST00000396853, | |
| Fusion gene scores | * DoF score | 6 X 8 X 3=144 | 4 X 4 X 2=32 |
| # samples | 12 | 4 | |
| ** MAII score | log2(12/144*10)=-0.263034405833794 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(4/32*10)=0.321928094887362 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | |
| Context | PubMed: LAMC1 [Title/Abstract] AND TRIM5 [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 | LAMC1 | GO:0007155 | cell adhesion | 15159456 |
| Hgene | LAMC1 | GO:0034446 | substrate adhesion-dependent cell spreading | 16236823 |
| Hgene | LAMC1 | GO:0065003 | protein-containing complex assembly | 15159456 |
| Tgene | TRIM5 | GO:0002218 | activation of innate immune response | 21512573 |
| Tgene | TRIM5 | GO:0006914 | autophagy | 25127057 |
| Tgene | TRIM5 | GO:0043123 | positive regulation of I-kappaB kinase/NF-kappaB signaling | 23077300 |
| Tgene | TRIM5 | GO:0045087 | innate immune response | 18248090 |
| Tgene | TRIM5 | GO:0046597 | negative regulation of viral entry into host cell | 18248090 |
| Tgene | TRIM5 | GO:0070534 | protein K63-linked ubiquitination | 21512573 |
| Tgene | TRIM5 | GO:1902187 | negative regulation of viral release from host cell | 18248090 |
| 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 | BG998082 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| * 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-intron | ENST00000258341 | ENST00000380027 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000258341 | ENST00000396855 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000258341 | ENST00000305836 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000258341 | ENST00000380034 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000258341 | ENST00000396847 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000258341 | ENST00000483835 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000258341 | ENST00000396853 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000466964 | ENST00000380027 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000466964 | ENST00000396855 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000466964 | ENST00000305836 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000466964 | ENST00000380034 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000466964 | ENST00000396847 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000466964 | ENST00000483835 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
| intron-intron | ENST00000466964 | ENST00000396853 | LAMC1 | chr1 | 183042196 | - | TRIM5 | chr11 | 5851834 | + |
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FusionProtFeatures for LAMC1_TRIM5 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| LAMC1 | TRIM5 |
| Binding to cells via a high affinity receptor, lamininis thought to mediate the attachment, migration and organizationof cells into tissues during embryonic development by interactingwith other extracellular matrix components. |
| 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 LAMC1_TRIM5 |
| 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 LAMC1_TRIM5 |
| 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 LAMC1_TRIM5 |
| 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 LAMC1_TRIM5 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | LAMC1 | C0003493 | Aortic Diseases | 1 | CTD_human |
| Hgene | LAMC1 | C0024796 | Marfan Syndrome | 1 | CTD_human |
| Hgene | LAMC1 | C0033578 | Prostatic Neoplasms | 1 | CTD_human |
| Tgene | TRIM5 | C0019693 | HIV Infections | 1 | CTD_human |
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