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Fusion gene ID: 7385 |
FusionGeneSummary for CLIC4_CCDC28B |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: CLIC4_CCDC28B | Fusion gene ID: 7385 | Hgene | Tgene | Gene symbol | CLIC4 | CCDC28B | Gene ID | 25932 | 79140 |
| Gene name | chloride intracellular channel 4 | coiled-coil domain containing 28B | |
| Synonyms | CLIC4L|H1|MTCLIC|huH1|p64H1 | - | |
| Cytomap | 1p36.11 | 1p35.2 | |
| Type of gene | protein-coding | protein-coding | |
| Description | chloride intracellular channel protein 4chloride intracellular channel 4 likeintracellular chloride ion channel protein p64H1 | coiled-coil domain-containing protein 28B | |
| Modification date | 20180523 | 20180523 | |
| UniProtAcc | Q9Y696 | Q9BUN5 | |
| Ensembl transtripts involved in fusion gene | ENST00000374379, ENST00000497755, | ENST00000373602, ENST00000421922, ENST00000483009, | |
| Fusion gene scores | * DoF score | 9 X 3 X 7=189 | 5 X 3 X 3=45 |
| # samples | 8 | 4 | |
| ** MAII score | log2(8/189*10)=-1.24031432933371 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(4/45*10)=-0.169925001442312 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
| Context | PubMed: CLIC4 [Title/Abstract] AND CCDC28B [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 | CLIC4 | GO:0030336 | negative regulation of cell migration | 12163372 |
| 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 |
| TCGA | RV | LIHC | TCGA-DD-A39V-01A | CLIC4 | chr1 | 25072116 | + | CCDC28B | chr1 | 32667514 | + |
| * 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 |
| 5CDS-5UTR | ENST00000374379 | ENST00000373602 | CLIC4 | chr1 | 25072116 | + | CCDC28B | chr1 | 32667514 | + |
| 5CDS-5UTR | ENST00000374379 | ENST00000421922 | CLIC4 | chr1 | 25072116 | + | CCDC28B | chr1 | 32667514 | + |
| 5CDS-3UTR | ENST00000374379 | ENST00000483009 | CLIC4 | chr1 | 25072116 | + | CCDC28B | chr1 | 32667514 | + |
| 3UTR-5UTR | ENST00000497755 | ENST00000373602 | CLIC4 | chr1 | 25072116 | + | CCDC28B | chr1 | 32667514 | + |
| 3UTR-5UTR | ENST00000497755 | ENST00000421922 | CLIC4 | chr1 | 25072116 | + | CCDC28B | chr1 | 32667514 | + |
| 3UTR-3UTR | ENST00000497755 | ENST00000483009 | CLIC4 | chr1 | 25072116 | + | CCDC28B | chr1 | 32667514 | + |
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FusionProtFeatures for CLIC4_CCDC28B |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| CLIC4 | CCDC28B |
| Can insert into membranes and form poorly selective ionchannels that may also transport chloride ions. Channel activitydepends on the pH. Membrane insertion seems to be redox-regulatedand may occur only under oxydizing conditions. Promotes cell-surface expression of HRH3. Has alternate cellular functions likea potential role in angiogenesis or in maintaining apical-basolateral membrane polarity during mitosis and cytokinesis.Could also promote endothelial cell proliferation and regulateendothelial morphogenesis (tubulogenesis).{ECO:0000269|PubMed:12163372, ECO:0000269|PubMed:14569596,ECO:0000269|PubMed:16176272, ECO:0000269|PubMed:16239224,ECO:0000269|PubMed:18302930, ECO:0000269|PubMed:19247789}. | Involved in ciliogenesis. Regulates cilia length throughits interaction with MAPKAP1/SIN1 but independently of mTORC2complex. Modulates mTORC2 complex assembly and function, possiblyenhances AKT1 phosphorylation. Does not seem to modulate assemblyand function of mTORC1 complex. {ECO:0000269|PubMed:23015189,ECO:0000269|PubMed:23727834}. |
| 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 CLIC4_CCDC28B |
| 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 CLIC4_CCDC28B |
| 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 |
| CLIC4 | CDK2, SPRTN, HNRNPA1, HSP90AB1, REL, CLIC2, CLIC6, CLIC5, TPRN, ACADS, CDA, CSK, EZR, FDPS, HADH, HIBCH, PSMA1, PSMA2, PSMA5, PSMB1, PSMB7, SHC1, SUGT1, TAGLN2, TAGLN3, TPD52, COASY, CRKL, DAG1, DDB1, DNAJC9, HNRNPH2, LSM3, NDRG1, P4HB, PDCD6, PSMA3, PSMB4, RABIF, SEPHS1, ST13, UBA2, NTRK1, ICAM1, TRIM25, G3BP1 | CCDC28B | APP, ATRIP, OSGEP, LAGE3, PRAME, IFT81, HSPA1L, IFT74 |
| - 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 CLIC4_CCDC28B |
| 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 CLIC4_CCDC28B |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
| Hgene | CLIC4 | C0029408 | Degenerative polyarthritis | 1 | CTD_human |
| Hgene | CLIC4 | C0033578 | Prostatic Neoplasms | 1 | CTD_human |
| Hgene | CLIC4 | C0043094 | Weight Gain | 1 | CTD_human |
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