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Fusion Protein:COX6B1-LIG1 |
Fusion Protein Summary |
 Fusion gene summary |
| Fusion partner gene information | Fusion gene name: COX6B1-LIG1 | FusionPDB ID: 18816 | FusionGDB2.0 ID: 18816 | Hgene | Tgene | Gene symbol | COX6B1 | LIG1 | Gene ID | 1340 | 26018 |
| Gene name | cytochrome c oxidase subunit 6B1 | leucine rich repeats and immunoglobulin like domains 1 | |
| Synonyms | COX6B|COXG|COXVIb1 | LIG-1|LIG1 | |
| Cytomap | 19q13.12 | 3p14.1 | |
| Type of gene | protein-coding | protein-coding | |
| Description | cytochrome c oxidase subunit 6B1COX VIb-1cytochrome c oxidase subunit VIb polypeptide 1 (ubiquitous) | leucine-rich repeats and immunoglobulin-like domains protein 1leucine-rich repeat protein LRIG1ortholog of mouse integral membrane glycoprotein LIG-1 | |
| Modification date | 20200313 | 20200320 | |
| UniProtAcc | P14854 | P18858 | |
| Ensembl transtripts involved in fusion gene | ENST ids | ENST00000246554, ENST00000392201, ENST00000592141, | ENST00000599165, ENST00000263274, ENST00000427526, ENST00000536218, |
| Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0) | * DoF score | 11 X 9 X 6=594 | 6 X 6 X 5=180 |
| # samples | 12 | 6 | |
| ** MAII score | log2(12/594*10)=-2.30742852519225 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(6/180*10)=-1.58496250072116 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context (manual curation of fusion genes in FusionPDB) | PubMed: COX6B1 [Title/Abstract] AND LIG1 [Title/Abstract] AND fusion [Title/Abstract] | ||
| Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0) | COX6B1(36145573)-LIG1(48626575), # samples:1 | ||
| Anticipated loss of major functional domain due to fusion event. | COX6B1-LIG1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. COX6B1-LIG1 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. COX6B1-LIG1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. COX6B1-LIG1 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. | ||
| * 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 |
| Fusion gene breakpoints across COX6B1 (5'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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| Fusion gene breakpoints across LIG1 (3'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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Fusion Gene Sample Information |
| Fusion gene information from FusionGDB2.0. |
| Fusion gene information from two resources (ChiTars 5.0 and ChimerDB 4.0) * 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. |
| Source | Disease | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
| ChimerDB4 | UCS | TCGA-NG-A4VW | COX6B1 | chr19 | 36145573 | + | LIG1 | chr19 | 48626575 | - |
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Fusion ORF Analysis |
| Fusion information from ORFfinder translation from full-length transcript sequence from FusionPDB. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | Seq length (transcript) | BP loci (transcript) | Predicted start (transcript) | Predicted stop (transcript) | Seq length (amino acids) |
| ENST00000246554 | COX6B1 | chr19 | 36145573 | + | ENST00000263274 | LIG1 | chr19 | 48626575 | - | 1359 | 399 | 114 | 1154 | 346 |
| ENST00000246554 | COX6B1 | chr19 | 36145573 | + | ENST00000536218 | LIG1 | chr19 | 48626575 | - | 1354 | 399 | 114 | 1154 | 346 |
| ENST00000246554 | COX6B1 | chr19 | 36145573 | + | ENST00000427526 | LIG1 | chr19 | 48626575 | - | 1354 | 399 | 114 | 1154 | 346 |
| ENST00000592141 | COX6B1 | chr19 | 36145573 | + | ENST00000263274 | LIG1 | chr19 | 48626575 | - | 1432 | 472 | 148 | 1227 | 359 |
| ENST00000592141 | COX6B1 | chr19 | 36145573 | + | ENST00000536218 | LIG1 | chr19 | 48626575 | - | 1427 | 472 | 148 | 1227 | 359 |
| ENST00000592141 | COX6B1 | chr19 | 36145573 | + | ENST00000427526 | LIG1 | chr19 | 48626575 | - | 1427 | 472 | 148 | 1227 | 359 |
| ENST00000392201 | COX6B1 | chr19 | 36145573 | + | ENST00000263274 | LIG1 | chr19 | 48626575 | - | 1262 | 302 | 11 | 1057 | 348 |
| ENST00000392201 | COX6B1 | chr19 | 36145573 | + | ENST00000536218 | LIG1 | chr19 | 48626575 | - | 1257 | 302 | 11 | 1057 | 348 |
| ENST00000392201 | COX6B1 | chr19 | 36145573 | + | ENST00000427526 | LIG1 | chr19 | 48626575 | - | 1257 | 302 | 11 | 1057 | 348 |
| DeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated. |
| Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
| ENST00000246554 | ENST00000263274 | COX6B1 | chr19 | 36145573 | + | LIG1 | chr19 | 48626575 | - | 0.006642434 | 0.9933576 |
| ENST00000246554 | ENST00000536218 | COX6B1 | chr19 | 36145573 | + | LIG1 | chr19 | 48626575 | - | 0.006423384 | 0.9935766 |
| ENST00000246554 | ENST00000427526 | COX6B1 | chr19 | 36145573 | + | LIG1 | chr19 | 48626575 | - | 0.006423384 | 0.9935766 |
| ENST00000592141 | ENST00000263274 | COX6B1 | chr19 | 36145573 | + | LIG1 | chr19 | 48626575 | - | 0.008681991 | 0.991318 |
| ENST00000592141 | ENST00000536218 | COX6B1 | chr19 | 36145573 | + | LIG1 | chr19 | 48626575 | - | 0.008533706 | 0.9914663 |
| ENST00000592141 | ENST00000427526 | COX6B1 | chr19 | 36145573 | + | LIG1 | chr19 | 48626575 | - | 0.008533706 | 0.9914663 |
| ENST00000392201 | ENST00000263274 | COX6B1 | chr19 | 36145573 | + | LIG1 | chr19 | 48626575 | - | 0.013381606 | 0.98661834 |
| ENST00000392201 | ENST00000536218 | COX6B1 | chr19 | 36145573 | + | LIG1 | chr19 | 48626575 | - | 0.012963039 | 0.98703694 |
| ENST00000392201 | ENST00000427526 | COX6B1 | chr19 | 36145573 | + | LIG1 | chr19 | 48626575 | - | 0.012963039 | 0.98703694 |
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Fusion Amino Acid Sequences |
| For individual full-length fusion transcript sequence from FusionPDB, we ran ORFfinder and chose the longest ORF among the all predicted ones. |
| >FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP >18816_18816_1_COX6B1-LIG1_COX6B1_chr19_36145573_ENST00000246554_LIG1_chr19_48626575_ENST00000263274_length(amino acids)=346AA_BP=95 MSDCGVFAEGHIELQVESGVPLGFSTMAEDMETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQSL CPTSWSLVREPLSRRRQLLRENFVETEGEFVFATSLDTKDIEQIAEFLEQSVKDSCEGLMVKTLDVDATYEIAKRSHNWLKLKKDYLDGV GDTLDLVVIGAYLGRGKRAGRYGGFLLASYDEDSEELQAICKLGTGFSDEELEEHHQSLKALVLPSPRPYVRIDGAVIPDHWLDPSAVWE -------------------------------------------------------------- >18816_18816_2_COX6B1-LIG1_COX6B1_chr19_36145573_ENST00000246554_LIG1_chr19_48626575_ENST00000427526_length(amino acids)=346AA_BP=95 MSDCGVFAEGHIELQVESGVPLGFSTMAEDMETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQSL CPTSWSLVREPLSRRRQLLRENFVETEGEFVFATSLDTKDIEQIAEFLEQSVKDSCEGLMVKTLDVDATYEIAKRSHNWLKLKKDYLDGV GDTLDLVVIGAYLGRGKRAGRYGGFLLASYDEDSEELQAICKLGTGFSDEELEEHHQSLKALVLPSPRPYVRIDGAVIPDHWLDPSAVWE -------------------------------------------------------------- >18816_18816_3_COX6B1-LIG1_COX6B1_chr19_36145573_ENST00000246554_LIG1_chr19_48626575_ENST00000536218_length(amino acids)=346AA_BP=95 MSDCGVFAEGHIELQVESGVPLGFSTMAEDMETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQSL CPTSWSLVREPLSRRRQLLRENFVETEGEFVFATSLDTKDIEQIAEFLEQSVKDSCEGLMVKTLDVDATYEIAKRSHNWLKLKKDYLDGV GDTLDLVVIGAYLGRGKRAGRYGGFLLASYDEDSEELQAICKLGTGFSDEELEEHHQSLKALVLPSPRPYVRIDGAVIPDHWLDPSAVWE -------------------------------------------------------------- >18816_18816_4_COX6B1-LIG1_COX6B1_chr19_36145573_ENST00000392201_LIG1_chr19_48626575_ENST00000263274_length(amino acids)=348AA_BP=97 MDVGGAAASSPMHPHPQIPGRDLAGFSTMAEDMETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQ SLCPTSWSLVREPLSRRRQLLRENFVETEGEFVFATSLDTKDIEQIAEFLEQSVKDSCEGLMVKTLDVDATYEIAKRSHNWLKLKKDYLD GVGDTLDLVVIGAYLGRGKRAGRYGGFLLASYDEDSEELQAICKLGTGFSDEELEEHHQSLKALVLPSPRPYVRIDGAVIPDHWLDPSAV -------------------------------------------------------------- >18816_18816_5_COX6B1-LIG1_COX6B1_chr19_36145573_ENST00000392201_LIG1_chr19_48626575_ENST00000427526_length(amino acids)=348AA_BP=97 MDVGGAAASSPMHPHPQIPGRDLAGFSTMAEDMETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQ SLCPTSWSLVREPLSRRRQLLRENFVETEGEFVFATSLDTKDIEQIAEFLEQSVKDSCEGLMVKTLDVDATYEIAKRSHNWLKLKKDYLD GVGDTLDLVVIGAYLGRGKRAGRYGGFLLASYDEDSEELQAICKLGTGFSDEELEEHHQSLKALVLPSPRPYVRIDGAVIPDHWLDPSAV -------------------------------------------------------------- >18816_18816_6_COX6B1-LIG1_COX6B1_chr19_36145573_ENST00000392201_LIG1_chr19_48626575_ENST00000536218_length(amino acids)=348AA_BP=97 MDVGGAAASSPMHPHPQIPGRDLAGFSTMAEDMETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDISVCEWYQRVYQ SLCPTSWSLVREPLSRRRQLLRENFVETEGEFVFATSLDTKDIEQIAEFLEQSVKDSCEGLMVKTLDVDATYEIAKRSHNWLKLKKDYLD GVGDTLDLVVIGAYLGRGKRAGRYGGFLLASYDEDSEELQAICKLGTGFSDEELEEHHQSLKALVLPSPRPYVRIDGAVIPDHWLDPSAV -------------------------------------------------------------- >18816_18816_7_COX6B1-LIG1_COX6B1_chr19_36145573_ENST00000592141_LIG1_chr19_48626575_ENST00000263274_length(amino acids)=359AA_BP=108 MPGPQPGSRVSSPSSLLDVGGAAASSPMHPHPQIPGFSTMAEDMETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDI SVCEWYQRVYQSLCPTSWSLVREPLSRRRQLLRENFVETEGEFVFATSLDTKDIEQIAEFLEQSVKDSCEGLMVKTLDVDATYEIAKRSH NWLKLKKDYLDGVGDTLDLVVIGAYLGRGKRAGRYGGFLLASYDEDSEELQAICKLGTGFSDEELEEHHQSLKALVLPSPRPYVRIDGAV -------------------------------------------------------------- >18816_18816_8_COX6B1-LIG1_COX6B1_chr19_36145573_ENST00000592141_LIG1_chr19_48626575_ENST00000427526_length(amino acids)=359AA_BP=108 MPGPQPGSRVSSPSSLLDVGGAAASSPMHPHPQIPGFSTMAEDMETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDI SVCEWYQRVYQSLCPTSWSLVREPLSRRRQLLRENFVETEGEFVFATSLDTKDIEQIAEFLEQSVKDSCEGLMVKTLDVDATYEIAKRSH NWLKLKKDYLDGVGDTLDLVVIGAYLGRGKRAGRYGGFLLASYDEDSEELQAICKLGTGFSDEELEEHHQSLKALVLPSPRPYVRIDGAV -------------------------------------------------------------- >18816_18816_9_COX6B1-LIG1_COX6B1_chr19_36145573_ENST00000592141_LIG1_chr19_48626575_ENST00000536218_length(amino acids)=359AA_BP=108 MPGPQPGSRVSSPSSLLDVGGAAASSPMHPHPQIPGFSTMAEDMETKIKNYKTAPFDSRFPNQNQTRNCWQNYLDFHRCQKAMTAKGGDI SVCEWYQRVYQSLCPTSWSLVREPLSRRRQLLRENFVETEGEFVFATSLDTKDIEQIAEFLEQSVKDSCEGLMVKTLDVDATYEIAKRSH NWLKLKKDYLDGVGDTLDLVVIGAYLGRGKRAGRYGGFLLASYDEDSEELQAICKLGTGFSDEELEEHHQSLKALVLPSPRPYVRIDGAV -------------------------------------------------------------- |
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Fusion Protein Functional Features |
| Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr19:36145573/chr19:48626575) - FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels. - How to search 1. Put your fusion gene symbol. 2. Press the tab key until there will be shown the breakpoint information filled. 4. Go down and press 'Search' tab twice. 4. Go down to have the hyperlink of the search result. 5. Click the hyperlink. 6. See the FGviewer result for your fusion gene. |
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| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| COX6B1 | LIG1 |
| FUNCTION: Component of the cytochrome c oxidase, the last enzyme in the mitochondrial electron transport chain which drives oxidative phosphorylation. The respiratory chain contains 3 multisubunit complexes succinate dehydrogenase (complex II, CII), ubiquinol-cytochrome c oxidoreductase (cytochrome b-c1 complex, complex III, CIII) and cytochrome c oxidase (complex IV, CIV), that cooperate to transfer electrons derived from NADH and succinate to molecular oxygen, creating an electrochemical gradient over the inner membrane that drives transmembrane transport and the ATP synthase. Cytochrome c oxidase is the component of the respiratory chain that catalyzes the reduction of oxygen to water. Electrons originating from reduced cytochrome c in the intermembrane space (IMS) are transferred via the dinuclear copper A center (CU(A)) of subunit 2 and heme A of subunit 1 to the active site in subunit 1, a binuclear center (BNC) formed by heme A3 and copper B (CU(B)). The BNC reduces molecular oxygen to 2 water molecules using 4 electrons from cytochrome c in the IMS and 4 protons from the mitochondrial matrix. {ECO:0000250|UniProtKB:Q01519}. | FUNCTION: DNA ligase that seals nicks in double-stranded DNA during DNA replication, DNA recombination and DNA repair. |
| 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. |
| - 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 |
| Hgene | COX6B1 | chr19:36145573 | chr19:48626575 | ENST00000246554 | + | 3 | 4 | 30_40 | 69.0 | 87.0 | Motif | Cx9C motif |
| Hgene | COX6B1 | chr19:36145573 | chr19:48626575 | ENST00000246554 | + | 3 | 4 | 54_65 | 69.0 | 87.0 | Motif | Cx10C motif |
| Hgene | COX6B1 | chr19:36145573 | chr19:48626575 | ENST00000392201 | + | 3 | 4 | 30_40 | 69.0 | 87.0 | Motif | Cx9C motif |
| Hgene | COX6B1 | chr19:36145573 | chr19:48626575 | ENST00000392201 | + | 3 | 4 | 54_65 | 69.0 | 87.0 | Motif | Cx10C motif |
| Hgene | COX6B1 | chr19:36145573 | chr19:48626575 | ENST00000592141 | + | 3 | 4 | 30_40 | 69.0 | 87.0 | Motif | Cx9C motif |
| Hgene | COX6B1 | chr19:36145573 | chr19:48626575 | ENST00000592141 | + | 3 | 4 | 54_65 | 69.0 | 87.0 | Motif | Cx10C motif |
| - 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 |
| Hgene | COX6B1 | chr19:36145573 | chr19:48626575 | ENST00000246554 | + | 3 | 4 | 27_73 | 69.0 | 87.0 | Domain | CHCH |
| Hgene | COX6B1 | chr19:36145573 | chr19:48626575 | ENST00000392201 | + | 3 | 4 | 27_73 | 69.0 | 87.0 | Domain | CHCH |
| Hgene | COX6B1 | chr19:36145573 | chr19:48626575 | ENST00000592141 | + | 3 | 4 | 27_73 | 69.0 | 87.0 | Domain | CHCH |
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Fusion Protein-Protein Interaction |
| 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 from validated records (BIOGRID-3.4.160) |
| Gene | PPI interactors |
| Protein-protein interactors based on sequence similarity (STRING) |
| Gene | STRING network |
| COX6B1 | |
| LIG1 |
| - Retained interactions in fusion protein (protein functional feature from UniProt). |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
| - Lost interactions due to fusion (protein functional feature from UniProt). |
| Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
| Tgene | LIG1 | chr19:36145573 | chr19:48626575 | ENST00000263274 | 20 | 28 | 449_458 | 668.0 | 920.0 | target DNA | |
| Tgene | LIG1 | chr19:36145573 | chr19:48626575 | ENST00000263274 | 20 | 28 | 642_644 | 668.0 | 920.0 | target DNA |
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Related Drugs to COX6B1-LIG1 |
| Drugs used for this fusion-positive patient. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Drug | Source | PMID |
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Related Diseases to COX6B1-LIG1 |
| Diseases that have this fusion gene. (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
| Hgene | Tgene | Disease | Source | PMID |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
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