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![]() | Fusion Gene Summary |
![]() | Fusion Gene ORF analysis |
![]() | Fusion Genomic Features |
![]() | Fusion Protein Features |
![]() | Fusion Gene Sequence |
![]() | Fusion Gene PPI analysis |
![]() | Related Drugs |
![]() | Related Diseases |
Fusion gene:LINC00476-RNF216 (FusionGDB2 ID:HG100128782TG54476) |
Fusion Gene Summary for LINC00476-RNF216 |
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Fusion gene information | Fusion gene name: LINC00476-RNF216 | Fusion gene ID: hg100128782tg54476 | Hgene | Tgene | Gene symbol | LINC00476 | RNF216 | Gene ID | 100128782 | 54476 |
Gene name | long intergenic non-protein coding RNA 476 | ring finger protein 216 | |
Synonyms | C9orf130|NAG11|NAG12 | CAHH|TRIAD3|U7I1|UBCE7IP1|ZIN | |
Cytomap | ('LINC00476')('RNF216') 9q22.32 | 7p22.1 | |
Type of gene | ncRNA | protein-coding | |
Description | nasopharyngeal carcinoma-associated gene 12 | E3 ubiquitin-protein ligase RNF216RING-type E3 ubiquitin transferase RNF216triad domain-containing protein 3ubiquitin-conjugating enzyme 7-interacting protein 1zinc finger protein inhibiting NF-kappa-B | |
Modification date | 20200313 | 20200313 | |
UniProtAcc | . | Q9NWF9 | |
Ensembl transtripts involved in fusion gene | ENST00000429781, | ||
Fusion gene scores | * DoF score | 5 X 6 X 2=60 | 17 X 18 X 11=3366 |
# samples | 5 | 33 | |
** MAII score | log2(5/60*10)=-0.263034405833794 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(33/3366*10)=-3.35049724708413 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
Context | PubMed: LINC00476 [Title/Abstract] AND RNF216 [Title/Abstract] AND fusion [Title/Abstract] | ||
Most frequent breakpoint | LINC00476(98637262)-RNF216(5754821), # samples:1 LINC00476(98638147)-RNF216(5754821), # samples:1 | ||
Anticipated loss of major functional domain due to fusion event. |
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
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Partner | Gene | GO ID | GO term | PubMed ID |
Tgene | RNF216 | GO:0032648 | regulation of interferon-beta production | 19893624 |
Tgene | RNF216 | GO:0043161 | proteasome-mediated ubiquitin-dependent protein catabolic process | 19893624 |
Tgene | RNF216 | GO:0050691 | regulation of defense response to virus by host | 19893624 |
Tgene | RNF216 | GO:0070936 | protein K48-linked ubiquitination | 19893624 |
![]() * 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 | HNSC | TCGA-BA-6870 | LINC00476 | chr9 | 98637262 | - | RNF216 | chr7 | 5754821 | - |
ChimerDB4 | HNSC | TCGA-BA-6870 | LINC00476 | chr9 | 98638147 | - | RNF216 | chr7 | 5754821 | - |
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Fusion Gene ORF analysis for LINC00476-RNF216 |
![]() * 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 |
5UTR-3CDS | ENST00000429781 | ENST00000389902 | LINC00476 | chr9 | 98637262 | - | RNF216 | chr7 | 5754821 | - |
5UTR-3CDS | ENST00000429781 | ENST00000425013 | LINC00476 | chr9 | 98637262 | - | RNF216 | chr7 | 5754821 | - |
5UTR-intron | ENST00000429781 | ENST00000469375 | LINC00476 | chr9 | 98637262 | - | RNF216 | chr7 | 5754821 | - |
intron-3CDS | ENST00000429781 | ENST00000389902 | LINC00476 | chr9 | 98638147 | - | RNF216 | chr7 | 5754821 | - |
intron-3CDS | ENST00000429781 | ENST00000425013 | LINC00476 | chr9 | 98638147 | - | RNF216 | chr7 | 5754821 | - |
intron-intron | ENST00000429781 | ENST00000469375 | LINC00476 | chr9 | 98638147 | - | RNF216 | chr7 | 5754821 | - |
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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) |
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Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
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Fusion Genomic Features for LINC00476-RNF216 |
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Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | 1-p | p (fusion gene breakpoint) |
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Fusion Protein Features for LINC00476-RNF216 |
![]() Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:98637262/:5754821) - 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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Hgene | Tgene |
. | RNF216 |
FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}. | FUNCTION: Isoform 1 acts as an E3 ubiquitin ligase, which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes, and then transfers it to substrates promoting their degradation by the proteasome. Promotes degradation of TRAF3, TLR4 and TLR9. Contributes to the regulation of antiviral responses. Down-regulates activation of NF-kappa-B, IRF3 activation and IFNB production. Isoform 3 inhibits TNF and IL-1 mediated activation of NF-kappa-B. Promotes TNF and RIP mediated apoptosis. {ECO:0000269|PubMed:15107846, ECO:0000269|PubMed:19893624}. |
![]() * 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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Fusion Gene Sequence for LINC00476-RNF216 |
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Fusion Gene PPI Analysis for LINC00476-RNF216 |
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Hgene | Hgene's interactors | Tgene | Tgene's interactors |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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Related Drugs for LINC00476-RNF216 |
![]() (DrugBank Version 5.1.8 2021-05-08) |
Partner | Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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Related Diseases for LINC00476-RNF216 |
![]() (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Tgene | C1859305 | Cerebellar Ataxia and Hypogonadotropic Hypogonadism | 2 | CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT |