|
||||||
|
 | |
| |
| |
| |
| |
|
Fusion gene ID: 20325 |
FusionGeneSummary for LSM14A_KNDC1 |
 Fusion gene summary |
| Fusion gene information | Fusion gene name: LSM14A_KNDC1 | Fusion gene ID: 20325 | Hgene | Tgene | Gene symbol | LSM14A | KNDC1 | Gene ID | 26065 | 85442 |
| Gene name | LSM14A, mRNA processing body assembly factor | kinase non-catalytic C-lobe domain containing 1 | |
| Synonyms | C19orf13|FAM61A|RAP55|RAP55A | C10orf23|RASGEF2|Very-KIND|bB439H18.3|v-KIND | |
| Cytomap | 19q13.11 | 10q26.3 | |
| Type of gene | protein-coding | protein-coding | |
| Description | protein LSM14 homolog ALSM14 homolog ALSM14A, SCD6 homolog ARNA-associated protein 55RNA-associated protein 55AalphaSNBPfamily with sequence similarity 61, member AhRAP55hRAP55Aprotein SCD6 homologputative alpha-synuclein-binding protein | kinase non-catalytic C-lobe domain-containing protein 1protein very KINDKIND domain-containing protein 1RasGEF domain family, member 2cerebral protein 9kinase non-catalytic C-lobe domain (KIND) containing 1ras-GEF domain-containing family member 2 | |
| Modification date | 20180519 | 20180523 | |
| UniProtAcc | Q8ND56 | Q76NI1 | |
| Ensembl transtripts involved in fusion gene | ENST00000540746, ENST00000544216, ENST00000433627, | ENST00000304613, ENST00000368572, ENST00000368571, ENST00000530127, | |
| Fusion gene scores | * DoF score | 11 X 7 X 6=462 | 3 X 3 X 2=18 |
| # samples | 11 | 3 | |
| ** MAII score | log2(11/462*10)=-2.0703893278914 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: LSM14A [Title/Abstract] AND KNDC1 [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 | LSM14A | GO:0033962 | cytoplasmic mRNA processing body assembly | 16484376 |
| 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 | CESC | TCGA-C5-A907-01A | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| * 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 |
| Frame-shift | ENST00000540746 | ENST00000304613 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| Frame-shift | ENST00000540746 | ENST00000368572 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| Frame-shift | ENST00000540746 | ENST00000368571 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| 5CDS-intron | ENST00000540746 | ENST00000530127 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| Frame-shift | ENST00000544216 | ENST00000304613 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| Frame-shift | ENST00000544216 | ENST00000368572 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| Frame-shift | ENST00000544216 | ENST00000368571 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| 5CDS-intron | ENST00000544216 | ENST00000530127 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| Frame-shift | ENST00000433627 | ENST00000304613 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| Frame-shift | ENST00000433627 | ENST00000368572 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| Frame-shift | ENST00000433627 | ENST00000368571 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
| 5CDS-intron | ENST00000433627 | ENST00000530127 | LSM14A | chr19 | 34663668 | + | KNDC1 | chr10 | 134996848 | + |
Top |
FusionProtFeatures for LSM14A_KNDC1 |
| Main function of each fusion partner protein. (from UniProt) |
| Hgene | Tgene |
| LSM14A | KNDC1 |
| Essential for formation of P-bodies, cytoplasmicstructures that provide storage sites for non-translating mRNAs.{ECO:0000269|PubMed:16484376, ECO:0000269|PubMed:17074753}. | RAS-Guanine nucleotide exchange factor (GEF) thatcontrols the negative regulation of neuronal dendrite growth bymediating a signaling pathway linking RAS and MAP2 (Bysimilarity). May be involved in cellular senescence(PubMed:24788352). {ECO:0000250|UniProtKB:Q0KK55,ECO:0000269|PubMed:24788352}. |
| 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 |
Top |
FusionGeneSequence for LSM14A_KNDC1 |
| 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). |
Top |
FusionGenePPI for LSM14A_KNDC1 |
| 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 |
| LSM14A | ELAVL1, RAE1, HNRNPDL, SYNCRIP, CIRBP, HNRNPH1, DDX1, HNRNPU, HNRNPL, CSNK2A1, HECW2, TP53, PRMT8, NTRK1, XPO1, AHSA1, SORT1, EGFR, SFPQ, STRAP, G3BP1 | KNDC1 | CUL3, MYC, XPO1 |
| - 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 |
Top |
RelatedDrugs for LSM14A_KNDC1 |
| 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 |
Top |
RelatedDiseases for LSM14A_KNDC1 |
| 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)
|