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Fusion gene ID: 15493 |
FusionGeneSummary for GRSF1_COL3A1 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: GRSF1_COL3A1 | Fusion gene ID: 15493 | Hgene | Tgene | Gene symbol | GRSF1 | COL3A1 | Gene ID | 2926 | 1281 |
| Gene name | G-rich RNA sequence binding factor 1 | collagen type III alpha 1 chain | |
| Synonyms | - | EDS4A|EDSVASC | |
| Cytomap | 4q13.3 | 2q32.2 | |
| Type of gene | protein-coding | protein-coding | |
| Description | G-rich sequence factor 1GRSF-1 | collagen alpha-1(III) chainEhlers-Danlos syndrome type IV, autosomal dominantalpha-1 type III collagenalpha1 (III) collagencollagen, fetalcollagen, type III, alpha 1 | |
| Modification date | 20180519 | 20180523 | |
| UniProtAcc | Q12849 | P02461 | |
| Ensembl transtripts involved in fusion gene | ENST00000254799, ENST00000439371, ENST00000502323, ENST00000545193, ENST00000508091, | ENST00000304636, ENST00000317840, | |
| Fusion gene scores | * DoF score | 4 X 4 X 2=32 | 13 X 17 X 4=884 |
| # samples | 4 | 17 | |
| ** MAII score | log2(4/32*10)=0.321928094887362 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | log2(17/884*10)=-2.37851162325373 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: GRSF1 [Title/Abstract] AND COL3A1 [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 |
| Tgene | COL3A1 | GO:0007160 | cell-matrix adhesion | 16912226 |
| Tgene | COL3A1 | GO:0007179 | transforming growth factor beta receptor signaling pathway | 16360482 |
| Tgene | COL3A1 | GO:0009314 | response to radiation | 14736764 |
| Tgene | COL3A1 | GO:0018149 | peptide cross-linking | 16754721 |
| Tgene | COL3A1 | GO:0034097 | response to cytokine | 9076960|16360482 |
| Tgene | COL3A1 | GO:0042060 | wound healing | 1466622 |
| 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 | AW081998 | GRSF1 | chr4 | 71686580 | + | COL3A1 | chr2 | 189857667 | - |
| * 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 | ENST00000254799 | ENST00000304636 | GRSF1 | chr4 | 71686580 | + | COL3A1 | chr2 | 189857667 | - |
| intron-intron | ENST00000254799 | ENST00000317840 | GRSF1 | chr4 | 71686580 | + | COL3A1 | chr2 | 189857667 | - |
| intron-intron | ENST00000439371 | ENST00000304636 | GRSF1 | chr4 | 71686580 | + | COL3A1 | chr2 | 189857667 | - |
| intron-intron | ENST00000439371 | ENST00000317840 | GRSF1 | chr4 | 71686580 | + | COL3A1 | chr2 | 189857667 | - |
| intron-intron | ENST00000502323 | ENST00000304636 | GRSF1 | chr4 | 71686580 | + | COL3A1 | chr2 | 189857667 | - |
| intron-intron | ENST00000502323 | ENST00000317840 | GRSF1 | chr4 | 71686580 | + | COL3A1 | chr2 | 189857667 | - |
| intron-intron | ENST00000545193 | ENST00000304636 | GRSF1 | chr4 | 71686580 | + | COL3A1 | chr2 | 189857667 | - |
| intron-intron | ENST00000545193 | ENST00000317840 | GRSF1 | chr4 | 71686580 | + | COL3A1 | chr2 | 189857667 | - |
| intron-intron | ENST00000508091 | ENST00000304636 | GRSF1 | chr4 | 71686580 | + | COL3A1 | chr2 | 189857667 | - |
| intron-intron | ENST00000508091 | ENST00000317840 | GRSF1 | chr4 | 71686580 | + | COL3A1 | chr2 | 189857667 | - |
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FusionProtFeatures for GRSF1_COL3A1 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| GRSF1 | COL3A1 |
| Regulator of post-transcriptional mitochondrial geneexpression, required for assembly of the mitochondrial ribosomeand for recruitment of mRNA and lncRNA. Binds RNAs containing the14 base G-rich element. Preferentially binds RNAs transcribed fromthree contiguous genes on the light strand of mtDNA, the ND6 mRNA,and the long non-coding RNAs for MT-CYB and MT-ND5, each of whichcontains multiple consensus binding sequences.{ECO:0000269|PubMed:23473033, ECO:0000269|PubMed:23473034}. |
| 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 GRSF1_COL3A1 |
| 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 GRSF1_COL3A1 |
| 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 GRSF1_COL3A1 |
| 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 |
| Tgene | COL3A1 | P02461 | DB00048 | Collagenase clostridium histolyticum | Collagen alpha-1(III) chain | biotech | approved|investigational |
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RelatedDiseases for GRSF1_COL3A1 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Tgene | COL3A1 | C0268338 | Ehlers-Danlos Syndrome, Type IV | 23 | ORPHANET;UNIPROT |
| Tgene | COL3A1 | C0023890 | Liver Cirrhosis | 5 | CTD_human |
| Tgene | COL3A1 | C0023893 | Liver Cirrhosis, Experimental | 2 | CTD_human |
| Tgene | COL3A1 | C1853365 | AORTIC ANEURYSM, FAMILIAL ABDOMINAL 1 | 2 | ORPHANET;UNIPROT |
| Tgene | COL3A1 | C0003504 | Aortic Valve Insufficiency | 1 | CTD_human |
| Tgene | COL3A1 | C0015695 | Fatty Liver | 1 | CTD_human |
| Tgene | COL3A1 | C0016059 | Fibrosis | 1 | CTD_human |
| Tgene | COL3A1 | C0020443 | Hypercholesterolemia | 1 | CTD_human |
| Tgene | COL3A1 | C0020456 | Hyperglycemia | 1 | CTD_human |
| Tgene | COL3A1 | C0020459 | Hyperinsulinism | 1 | CTD_human |
| Tgene | COL3A1 | C0020538 | Hypertensive disease | 1 | CTD_human |
| Tgene | COL3A1 | C0022548 | Keloid | 1 | CTD_human |
| Tgene | COL3A1 | C0023891 | Liver Cirrhosis, Alcoholic | 1 | CTD_human |
| Tgene | COL3A1 | C0023895 | Liver diseases | 1 | CTD_human |
| Tgene | COL3A1 | C0034069 | Pulmonary Fibrosis | 1 | CTD_human |
| Tgene | COL3A1 | C0036341 | Schizophrenia | 1 | CTD_human |
| Tgene | COL3A1 | C0041956 | Ureteral obstruction | 1 | CTD_human |
| Tgene | COL3A1 | C0149721 | Left Ventricular Hypertrophy | 1 | CTD_human |
| Tgene | COL3A1 | C0238288 | Muscular Dystrophy, Facioscapulohumeral | 1 | CTD_human |
| Tgene | COL3A1 | C0268337 | Ehlers-Danlos syndrome, type 3 (disorder) | 1 | CTD_human;UNIPROT |
| Tgene | COL3A1 | C0553980 | Endomyocardial Fibrosis | 1 | CTD_human |
| Tgene | COL3A1 | C4277682 | Chemical and Drug Induced Liver Injury | 1 | CTD_human |
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