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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:NAV3-E2F7 (FusionGDB2 ID:57359) |
Fusion Gene Summary for NAV3-E2F7 |
Fusion gene summary |
Fusion gene information | Fusion gene name: NAV3-E2F7 | Fusion gene ID: 57359 | Hgene | Tgene | Gene symbol | NAV3 | E2F7 | Gene ID | 89795 | 144455 |
Gene name | neuron navigator 3 | E2F transcription factor 7 | |
Synonyms | POMFIL1|STEERIN3|unc53H3 | - | |
Cytomap | 12q21.2 | 12q21.2 | |
Type of gene | protein-coding | protein-coding | |
Description | neuron navigator 3pore membrane and/or filament interacting like protein 1unc-53 homolog 3 | transcription factor E2F7E2F-7 | |
Modification date | 20200313 | 20200313 | |
UniProtAcc | Q8IVL0 | Q96AV8 | |
Ensembl transtripts involved in fusion gene | ENST00000228327, ENST00000266692, ENST00000397909, ENST00000536525, ENST00000541270, ENST00000552300, | ENST00000322886, ENST00000416496, | |
Fusion gene scores | * DoF score | 17 X 11 X 4=748 | 1 X 1 X 1=1 |
# samples | 15 | 1 | |
** MAII score | log2(15/748*10)=-2.31807576939176 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(1/1*10)=3.32192809488736 | |
Context | PubMed: NAV3 [Title/Abstract] AND E2F7 [Title/Abstract] AND fusion [Title/Abstract] | ||
Most frequent breakpoint | NAV3(78591181)-E2F7(77421918), # samples:1 | ||
Anticipated loss of major functional domain due to fusion event. | NAV3-E2F7 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF. NAV3-E2F7 seems lost the major protein functional domain in Tgene partner, which is a transcription factor due to the frame-shifted 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 |
Tgene | E2F7 | GO:0000122 | negative regulation of transcription by RNA polymerase II | 22802528 |
Tgene | E2F7 | GO:0030330 | DNA damage response, signal transduction by p53 class mediator | 22802528 |
Tgene | E2F7 | GO:0071930 | negative regulation of transcription involved in G1/S transition of mitotic cell cycle | 22802528 |
Fusion gene breakpoints across NAV3 (5'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
Fusion gene breakpoints across E2F7 (3'-gene) * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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 | SARC | TCGA-3B-A9HL-01A | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
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Fusion Gene ORF analysis for NAV3-E2F7 |
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 |
Frame-shift | ENST00000228327 | ENST00000322886 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
Frame-shift | ENST00000228327 | ENST00000416496 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
Frame-shift | ENST00000266692 | ENST00000322886 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
Frame-shift | ENST00000266692 | ENST00000416496 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
Frame-shift | ENST00000397909 | ENST00000322886 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
Frame-shift | ENST00000397909 | ENST00000416496 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
Frame-shift | ENST00000536525 | ENST00000322886 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
Frame-shift | ENST00000536525 | ENST00000416496 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
intron-3CDS | ENST00000541270 | ENST00000322886 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
intron-3CDS | ENST00000541270 | ENST00000416496 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
intron-3CDS | ENST00000552300 | ENST00000322886 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
intron-3CDS | ENST00000552300 | ENST00000416496 | NAV3 | chr12 | 78591181 | + | E2F7 | chr12 | 77421918 | - |
ORFfinder result based on the fusion transcript sequence of in-frame fusion genes. |
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) |
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 |
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Fusion Genomic Features for NAV3-E2F7 |
FusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints. |
Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | 1-p | p (fusion gene breakpoint) |
Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page. |
Distribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page. |
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Fusion Protein Features for NAV3-E2F7 |
Four levels of functional features of fusion genes Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/:78591181/:77421918) - 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. |
Main function of each fusion partner protein. (from UniProt) |
Hgene | Tgene |
NAV3 | E2F7 |
FUNCTION: May regulate IL2 production by T-cells. May be involved in neuron regeneration. {ECO:0000269|PubMed:16166283}. | FUNCTION: Atypical E2F transcription factor that participates in various processes such as angiogenesis, polyploidization of specialized cells and DNA damage response. Mainly acts as a transcription repressor that binds DNA independently of DP proteins and specifically recognizes the E2 recognition site 5'-TTTC[CG]CGC-3'. Directly represses transcription of classical E2F transcription factors such as E2F1. Acts as a regulator of S-phase by recognizing and binding the E2-related site 5'-TTCCCGCC-3' and mediating repression of G1/S-regulated genes. Plays a key role in polyploidization of cells in placenta and liver by regulating the endocycle, probably by repressing genes promoting cytokinesis and antagonizing action of classical E2F proteins (E2F1, E2F2 and/or E2F3). Required for placental development by promoting polyploidization of trophoblast giant cells. Also involved in DNA damage response: up-regulated by p53/TP53 following genotoxic stress and acts as a downstream effector of p53/TP53-dependent repression by mediating repression of indirect p53/TP53 target genes involved in DNA replication. Acts as a promoter of sprouting angiogenesis, possibly by acting as a transcription activator: associates with HIF1A, recognizes and binds the VEGFA promoter, which is different from canonical E2 recognition site, and activates expression of the VEGFA gene. Acts as a negative regulator of keratinocyte differentiation. {ECO:0000269|PubMed:14633988, ECO:0000269|PubMed:15133492, ECO:0000269|PubMed:18202719, ECO:0000269|PubMed:19223542, ECO:0000269|PubMed:21248772, ECO:0000269|PubMed:22802528, ECO:0000269|PubMed:22802529, ECO:0000269|PubMed:22903062}. |
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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Fusion Gene Sequence for NAV3-E2F7 |
For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones. |
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Fusion Gene PPI Analysis for NAV3-E2F7 |
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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Related Drugs for NAV3-E2F7 |
Drugs targeting genes involved in this fusion gene. (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 NAV3-E2F7 |
Diseases associated with fusion partners. (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |