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Fusion gene ID: 7703 |
FusionGeneSummary for CNOT1_SMARCAD1 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: CNOT1_SMARCAD1 | Fusion gene ID: 7703 | Hgene | Tgene | Gene symbol | CNOT1 | SMARCAD1 | Gene ID | 23019 | 56916 |
| Gene name | CCR4-NOT transcription complex subunit 1 | SWI/SNF-related, matrix-associated actin-dependent regulator of chromatin, subfamily a, containing DEAD/H box 1 | |
| Synonyms | AD-005|CDC39|NOT1|NOT1H | ADERM|BASNS|ETL1|HEL1 | |
| Cytomap | 16q21 | 4q22.3 | |
| Type of gene | protein-coding | protein-coding | |
| Description | CCR4-NOT transcription complex subunit 1CCR4-associated factor 1NOT1 (negative regulator of transcription 1, yeast) homologadrenal gland protein AD-005negative regulator of transcription subunit 1 homolog | SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A containing DEAD/H box 1ATP-dependent helicase 1 | |
| Modification date | 20180523 | 20180519 | |
| UniProtAcc | A5YKK6 | Q9H4L7 | |
| Ensembl transtripts involved in fusion gene | ENST00000317147, ENST00000569240, ENST00000441024, ENST00000569732, ENST00000245138, | ENST00000457823, ENST00000354268, ENST00000509418, | |
| Fusion gene scores | * DoF score | 14 X 9 X 10=1260 | 3 X 3 X 2=18 |
| # samples | 15 | 3 | |
| ** MAII score | log2(15/1260*10)=-3.0703893278914 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(3/18*10)=0.736965594166206 effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs). DoF>8 and MAII>0 | |
| Context | PubMed: CNOT1 [Title/Abstract] AND SMARCAD1 [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 | CNOT1 | GO:0000122 | negative regulation of transcription by RNA polymerase II | 16778766 |
| Hgene | CNOT1 | GO:0010606 | positive regulation of cytoplasmic mRNA processing body assembly | 21976065 |
| Hgene | CNOT1 | GO:0017148 | negative regulation of translation | 24736845 |
| Hgene | CNOT1 | GO:0033147 | negative regulation of intracellular estrogen receptor signaling pathway | 16778766 |
| Hgene | CNOT1 | GO:0035195 | gene silencing by miRNA | 23172285|24768540 |
| Hgene | CNOT1 | GO:0048387 | negative regulation of retinoic acid receptor signaling pathway | 16778766 |
| Hgene | CNOT1 | GO:0060213 | positive regulation of nuclear-transcribed mRNA poly(A) tail shortening | 23644599 |
| 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 | CN352236 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| * 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 | ENST00000317147 | ENST00000457823 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-3UTR | ENST00000317147 | ENST00000354268 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-intron | ENST00000317147 | ENST00000509418 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-intron | ENST00000569240 | ENST00000457823 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-3UTR | ENST00000569240 | ENST00000354268 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-intron | ENST00000569240 | ENST00000509418 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-intron | ENST00000441024 | ENST00000457823 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-3UTR | ENST00000441024 | ENST00000354268 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-intron | ENST00000441024 | ENST00000509418 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-intron | ENST00000569732 | ENST00000457823 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-3UTR | ENST00000569732 | ENST00000354268 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-intron | ENST00000569732 | ENST00000509418 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-intron | ENST00000245138 | ENST00000457823 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-3UTR | ENST00000245138 | ENST00000354268 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
| intron-intron | ENST00000245138 | ENST00000509418 | CNOT1 | chr16 | 58590821 | - | SMARCAD1 | chr4 | 95212037 | + |
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FusionProtFeatures for CNOT1_SMARCAD1 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| CNOT1 | SMARCAD1 |
| DNA helicase that possesses intrinsic ATP-dependentnucleosome-remodeling activity and is both required for DNA repairand heterochromatin organization. Promotes DNA end resection ofdouble-strand breaks (DSBs) following DNA damage: probably acts byweakening histone DNA interactions in nucleosomes flanking DSBs.Required for the restoration of heterochromatin organization afterreplication. Acts at replication sites to facilitate themaintenance of heterochromatin by directing H3 and H4 histonesdeacetylation, H3 'Lys-9' trimethylation (H3K9me3) and restorationof silencing. {ECO:0000269|PubMed:21549307,ECO:0000269|PubMed:22960744}. |
| 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 CNOT1_SMARCAD1 |
| 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 CNOT1_SMARCAD1 |
| 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 CNOT1_SMARCAD1 |
| 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 CNOT1_SMARCAD1 |
| Diseases associated with fusion partners. (DisGeNet 4.0) |
| Partner | Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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