|
||||||
|
Translation Factor: MRPL58 (NCBI Gene ID:3396) |
|
 Gene Summary |
| Gene Information | Gene Name: MRPL58 | Gene ID: 3396 | Gene Symbol | MRPL58 | Gene ID | 3396 |
| Gene Name | mitochondrial ribosomal protein L58 | |
| Synonyms | DS-1|DS1|ICT1|MRP-L58 | |
| Cytomap | 17q25.1 | |
| Type of Gene | protein-coding | |
| Description | peptidyl-tRNA hydrolase ICT1, mitochondrial39S ribosomal protein L58, mitochondrialdigestion substraction 1immature colon carcinoma transcript 1 proteinmitochondrial large ribosomal subunit protein ICT1mitochondrial large ribosomal subunit protein mL | |
| Modification date | 20200313 | |
| UniProtAcc | Q14197 | |
| Child GO biological process term(s) under GO:0006412 |
| GO ID | GO term |
| GO:0006417 | Regulation of translation |
| GO:0006415 | Translational termination |
| GO:0032543 | Mitochondrial translation |
| GO:0008135 | Translation factor activity, RNA binding |
| GO:0005840 | Ribosome |
| GO:0006412 | Translation |
| Gene ontology of translaction factor with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Partner | Gene | GO ID | GO term | PubMed ID |
| Hgene | MRPL58 | GO:0070126 | mitochondrial translational termination | 20186120 |
| Inferred gene age of translation factor. |
| Gene | Inferred gene age group among (0 - 67.6], (67.6 - 355.7], (355.7 - 733], (733 - 1119.25], >1119.25 |
| MRPL58 | >1119.25 |
Top |
|
| We searched PubMed using 'MRPL58[title] AND translation [title] AND human.' |
| Gene | Title | PMID |
| MRPL58 | . | . |
Top |
|
| Skipped exons in TCGA and GTEx based on Ensembl gene isoform structure. * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. For more annotations, please visit our ExonSkipDB. |
 |
| Open reading frame (ORF) analsis of exon skipping events 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. |
| ENST | Exon skip start (DNA) | Exon Skip end (DNA) | ORF |
| ENST00000301585 | 73013172 | 73013209 | Frame-shift |
| ENST00000301585 | 73015794 | 73015854 | In-frame |
| Exon skipping position in the amino acid sequence. |
| ENST | Exon skip start (DNA) | Exon Skip end (DNA) | Len(transcript seq) | Exon skip start (mRNA) | Exon Skip end (mRNA) | Len(amino acid seq) | Exon skip start (AA) | Exon Skip end (AA) |
| Potentially (partially) lost protein functional features of UniProt. |
| UniProtAcc | Exon skip start (AA) | Exon Skip end (AA) | Function feature start (AA) | Function feature end (AA) | Functional feature type | Functional feature desc. |
Top |
|
| Gene expression level across TCGA pancancer |
 |
| Gene expression level across GTEx pantissue |
 |
| Expression level of gene isoforms across TCGA pancancer |
 |
| Expression level of gene isoforms across GTEx pantissue |
 |
| Cancer(tissue) type-specific expression level of Translation factor using z-score distriution |
| Differential expression between tumor and matched normal (in the cancer types with more than 10 matched samples) |
| Cancer type | Translation factor | FC | adj.pval |
Top |
|
| Translation factor expression regulation through miRNA binding |
| Cancer type | Gene | miRNA | TargetScan binding score (Context++ score percentile) | Coefficient | Pvalue |
| Translation factor expression regulation through methylation in the promoter of Translation factor |
| Cancer type | Gene | methyl group b | methyl group a | DEG pval | avg methyl in b | avg methyl in a | avg exp in b | avg exp in a |
| Translation factor expression regulation through methylation in the gene body of Translation factor (positive regulation) |
| Cancer type | Gene | methyl group b | methyl group a | DEG pval | avg methyl in b | avg methyl in a | avg exp in b | avg exp in a |
| Translation factor expression regulation through copy number variation of Translation factor |
| Cancer type | Gene | Coefficient | Pvalue |
Top |
|
| Strongly correlated genes belong to cellular important gene groups with MRPL58 (coefficient>0.8, pval<0.05, node color based on FC between tumor and matched normal). Significantly associated important genes in the individual cancer types. * Cell metabolism gene: cell metabolism genes from REACTOME (black edge), IUPHAR: drug target genes from IUPHAR (blue edge), Kinase: human kinase genes (brown edge), CGC: cancer gene census genes (orange edge), TSG: tumor suppresor genes (purple edge), Epifactor: epigenetic factors (light blue edge), TF: transcription factors (green) |
| Cancer type | Gene group | Translation factor | Correlated gene | Coefficient | Pvalue |
Top |
|
| Protein 3D structure Visit iCn3D. |
Top |
|
| Protein-protein interaction networks * Overlap between up-regulated DEGs (log2FC<-1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P)) |
 |
| Overlap between down-regulated DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P)) |
 |
 * Edge colors based on TCGA cancer types. |
| * Overlap between DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network per cancer (center: Translation factor, node: DEGs, node color: log2FC, edges: weighted by -log2(adj.P)) |
 |
| Cancer type | Translation factor | Interacting protein coding gene | FC | adj.pval |
| KIRC | MRPL58 | MRPL20 | 1.48585631024503 | 0.000111704804180407 |
| LUAD | MRPL58 | MRPL20 | -3.00071204707904 | 0.000452706327224566 |
| LIHC | MRPL58 | MRPL13 | 1.54402472107614 | 0.000655351190157038 |
| BRCA | MRPL58 | MRPL20 | -1.74379528461375 | 0.000756034430433012 |
| LUSC | MRPL58 | MRPL39 | -3.50411737429004 | 0.000985010025625636 |
| COAD | MRPL58 | MRPL41 | -2.99561502382389 | 0.00144392251968384 |
| KIRP | MRPL58 | MRPL19 | -1.9689242575519 | 0.00179363833740354 |
| BLCA | MRPL58 | MRPL27 | -4.19270554058168 | 0.00202178955078125 |
| CHOL | MRPL58 | MRPL3 | -2.68429255990621 | 0.00390625 |
| CHOL | MRPL58 | MRPL41 | -4.96379377542225 | 0.00390625 |
| BLCA | MRPL58 | MRPL39 | 1.69896851960452 | 0.00391769409179688 |
| LUAD | MRPL58 | MRPL39 | -1.1049452981592 | 0.00471395891927286 |
| ESCA | MRPL58 | MRPL3 | -4.97897094908275 | 0.0048828125 |
| THCA | MRPL58 | MRPL41 | -3.88188543554269 | 0.00492925389458784 |
| KICH | MRPL58 | MRPL19 | -2.18550705564541 | 0.00672554969787598 |
| ESCA | MRPL58 | MRPL13 | -1.07746088474995 | 0.0068359375 |
| PRAD | MRPL58 | ICT1 | -1.54848444909352 | 0.00907723161841939 |
| ESCA | MRPL58 | MRPL12 | -1.00174970895481 | 0.009765625 |
| CHOL | MRPL58 | MRPL12 | -3.63130566135659 | 0.01171875 |
| KIRP | MRPL58 | MRPL18 | -1.49224438277127 | 0.0118026207201183 |
| THCA | MRPL58 | MRPL18 | -2.83131063035405 | 0.0128804367490613 |
| LIHC | MRPL58 | MRPL20 | -1.08735154161025 | 0.0158079482509981 |
| STAD | MRPL58 | MRPL12 | -2.48538214070711 | 0.020511694252491 |
| COAD | MRPL58 | MRPL39 | -1.15285953291756 | 0.0357243716716767 |
| CHOL | MRPL58 | MRPL19 | -2.09295650388558 | 0.0390625 |
| BRCA | MRPL58 | MRPL27 | -1.5584165725499 | 1.16393956539382e-08 |
| LUSC | MRPL58 | MRPL21 | -4.98277643789037 | 1.45947399043856e-08 |
| LUAD | MRPL58 | MRPL12 | -3.43280900900763 | 1.96929418449732e-09 |
| KIRC | MRPL58 | MRPL3 | 1.69955762234244 | 1.97132191719422e-08 |
| BRCA | MRPL58 | ICT1 | -4.17488220449664 | 2.73719348917167e-14 |
| LUAD | MRPL58 | MRPL27 | -1.39404329671842 | 3.44055922076328e-05 |
| LUSC | MRPL58 | MRPL27 | -1.81809468729316 | 3.90393047420304e-06 |
| LIHC | MRPL58 | MRPL39 | -1.65461683386216 | 3.95799979560965e-08 |
| PRAD | MRPL58 | MRPL41 | 1.31179686307216 | 4.41809300064344e-05 |
| BRCA | MRPL58 | MRPL18 | -1.1445647709721 | 4.61730872887034e-06 |
| LUAD | MRPL58 | MRPL21 | -1.86897497221853 | 6.16191557420719e-07 |
| LUSC | MRPL58 | ICT1 | -3.23093376049456 | 6.60526357089358e-07 |
| BRCA | MRPL58 | MRPL21 | -1.5345447607194 | 7.40794680786486e-08 |
| KICH | MRPL58 | MRPL41 | 1.05103651319563 | 7.49826431274414e-05 |
| LUAD | MRPL58 | MRPL18 | -1.92894750255174 | 8.38528706842242e-05 |
| Protein-protein interactors with this translation factor (BIOGRID-3.4.160) |
| PPI interactors with MRPL58 |
Top |
|
| Clinically associated variants from ClinVar. |
| Gene | Chr | Position | RefSeq | VarSeq | RefSeeq | VarType | Pathogenic | Disease | VarInfo |
| nsSNVs with sample frequency (size of circle) from TCGA 33 cancers. |
| SNVs and Indels |
| Gene | Cancer type | Chromosome | Start | End | RefSeeq | MutSeq | Mutation type | AAchange | # samples |
| Copy number variation (CNV) of MRPL58 * Click on the image to open the original image in a new window. |
 |
| Fusion gene breakpoints (product of the structural variants (SVs)) across MRPL58 * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
 |
| Fusion genes with this translation factor from FusionGDB2.0. |
| FusionGDB2 ID | Disease | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
Top |
|
| Kaplan-Meier plots with logrank tests of overall survival (OS) |
| Cancer type | Translation factor | Coefficent | Hazard ratio | Wald test pval | Likelihool ratio pval | Logrank test pval | # samples |
Top |
|
| Differential gene expression between female and male. (Wilcoxon test, pval<0.05) |
| Cancer type | Translation factor | pval | adj.p |
Top |
|
| Differential gene expression between young and old age groups (Wilcoxon test, pval<0.05) |
| Cancer type | Translation factor | pval | adj.p |
Top |
|
| Drugs targeting genes involved in this translation factor. (DrugBank Version 5.1.8 2021-05-08) |
| UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
|
| Diseases associated with this translation factor. (DisGeNet 4.0) |
| Disease ID | Disease Name | # PubMeds | Disease source |
Copyright 2021-Present -The University of Texas Health Science Center at Houston (UTHealth)
Web File Viewing | Emergency Information |Campus Carry|Site Policies