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Translation Factor: RACK1 (NCBI Gene ID:10399) |
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 Gene Summary |
| Gene Information | Gene Name: RACK1 | Gene ID: 10399 | Gene Symbol | RACK1 | Gene ID | 10399 |
| Gene Name | receptor for activated C kinase 1 | |
| Synonyms | GNB2L1|Gnb2-rs1|H12.3|HLC-7|PIG21 | |
| Cytomap | 5q35.3 | |
| Type of Gene | protein-coding | |
| Description | receptor of activated protein C kinase 1cell proliferation-inducing gene 21 proteinguanine nucleotide binding protein (G protein), beta polypeptide 2-like 1guanine nucleotide binding protein beta polypeptide 2-like 1guanine nucleotide-binding protein | |
| Modification date | 20200313 | |
| UniProtAcc | P63244 | |
| Child GO biological process term(s) under GO:0006412 |
| GO ID | GO term |
| GO:0017148 | Negative regulation of translation |
| GO:0006417 | Regulation of translation |
| GO:0005840 | Ribosome |
| GO:0006414 | Translational elongation |
| 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 | RACK1 | GO:0001934 | positive regulation of protein phosphorylation | 11312657|17108144 |
| Hgene | RACK1 | GO:0030308 | negative regulation of cell growth | 9584165 |
| Hgene | RACK1 | GO:0030335 | positive regulation of cell migration | 20499158 |
| Hgene | RACK1 | GO:0031334 | positive regulation of protein complex assembly | 20541605 |
| Hgene | RACK1 | GO:0032091 | negative regulation of protein binding | 20541605 |
| Hgene | RACK1 | GO:0032436 | positive regulation of proteasomal ubiquitin-dependent protein catabolic process | 19785988 |
| Hgene | RACK1 | GO:0043065 | positive regulation of apoptotic process | 20541605 |
| Hgene | RACK1 | GO:0043547 | positive regulation of GTPase activity | 20499158 |
| Hgene | RACK1 | GO:0051726 | regulation of cell cycle | 9584165 |
| Hgene | RACK1 | GO:0071333 | cellular response to glucose stimulus | 20103773 |
| Hgene | RACK1 | GO:0071363 | cellular response to growth factor stimulus | 20010870 |
| 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 |
| RACK1 | >1119.25 |
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| We searched PubMed using 'RACK1[title] AND translation [title] AND human.' |
| Gene | Title | PMID |
| RACK1 | Ribosomal protein RACK1 enhances translation of poliovirus and other viral IRESs | 32308198 |
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| 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. |
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| 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 |
| ENST00000512805 | 180664608 | 180664719 | In-frame |
| ENST00000512805 | 180665098 | 180665239 | In-frame |
| ENST00000512805 | 180666066 | 180666177 | In-frame |
| ENST00000512805 | 180666486 | 180666582 | In-frame |
| ENST00000512805 | 180668491 | 180668639 | Frame-shift |
| ENST00000512805 | 180669173 | 180669345 | Frame-shift |
| 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. |
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| Gene expression level across TCGA pancancer |
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| Gene expression level across GTEx pantissue |
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| Expression level of gene isoforms across TCGA pancancer |
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| Expression level of gene isoforms across GTEx pantissue |
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| 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 |
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| 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 |
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| Strongly correlated genes belong to cellular important gene groups with RACK1 (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 |
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| Protein 3D structure Visit iCn3D. |
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| 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)) |
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| 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)) |
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 * 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)) |
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| Cancer type | Translation factor | Interacting protein coding gene | FC | adj.pval |
| KIRC | RACK1 | IGF1R | -1.05572703786759 | 0.000104247926808154 |
| KIRP | RACK1 | RPL18A | -1.51651392808885 | 0.00016188295558095 |
| KICH | RACK1 | RPS27A | 1.75396693785956 | 0.000187873840332031 |
| KIRP | RACK1 | RPS16 | -1.35957043617517 | 0.00019507110118866 |
| COAD | RACK1 | RPS3 | 1.48730375143014 | 0.000411599874496461 |
| KIRP | RACK1 | RPS11 | -1.01861570565103 | 0.00105937570333481 |
| LIHC | RACK1 | RPL8 | -4.84588284974558 | 0.00110314154326131 |
| LUAD | RACK1 | GNB2L1 | -2.23706676970836 | 0.00121089428940613 |
| PRAD | RACK1 | RPL18A | 1.40600175748499 | 0.00205137828390396 |
| KICH | RACK1 | RPL19 | 1.36901182894089 | 0.00250792503356934 |
| KICH | RACK1 | RPS12 | 1.26997381758431 | 0.00308787822723389 |
| CHOL | RACK1 | IGF1R | -3.59054796883589 | 0.00390625 |
| LUAD | RACK1 | RPL19 | -1.31398026615725 | 0.00993159558412698 |
| THCA | RACK1 | RPS16 | -6.16322798156577 | 0.0115764821363307 |
| BLCA | RACK1 | RPS12 | -1.47804673440421 | 0.0204124450683594 |
| BLCA | RACK1 | RPS27A | -1.04747470069188 | 0.0258216857910156 |
| HNSC | RACK1 | RPS3 | -4.73505819095135 | 0.0273726439852453 |
| COAD | RACK1 | RPS11 | 1.35307548998204 | 0.0312207043170929 |
| LUSC | RACK1 | RPL19 | -2.14669889516666 | 0.044366810398747 |
| KIRC | RACK1 | RPL19 | -2.73485271276676 | 1.33980982873695e-10 |
| BRCA | RACK1 | RPS12 | -4.91239327478244 | 1.85340619742495e-09 |
| KIRC | RACK1 | RPL35 | -1.06475238059392 | 2.72286325678163e-08 |
| KIRC | RACK1 | RPL8 | -1.18252459971773 | 5.64962994208288e-07 |
| KIRP | RACK1 | RPL8 | -1.53003692350119 | 6.0301274061203e-05 |
| PRAD | RACK1 | GNB2L1 | 2.22079570419983 | 6.51372327512043e-05 |
| KIRC | RACK1 | RPS16 | -1.66149869889384 | 7.8509870430991e-09 |
| BRCA | RACK1 | RPS27A | -4.28512148200424 | 7.8788217967112e-14 |
| KIRP | RACK1 | RPL35 | -1.52981101975496 | 9.0546440333128e-05 |
| KIRC | RACK1 | RPS3 | -1.29560847926387 | 9.05905681935088e-10 |
| KIRC | RACK1 | RPL18A | -4.43079304960843 | 9.2516163152192e-11 |
| Protein-protein interactors with this translation factor (BIOGRID-3.4.160) |
| PPI interactors with RACK1 |
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| Clinically associated variants from ClinVar. |
| Gene | Chr | Position | RefSeq | VarSeq | RefSeeq | VarType | Pathogenic | Disease | VarInfo |
| RACK1 | chr5 | 180668646 | G | A | single_nucleotide_variant | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| RACK1 | chr5 | 180669275 | C | T | single_nucleotide_variant | Benign | not_provided | SO:0001819|synonymous_variant | SO:0001819|synonymous_variant |
| 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 RACK1 * Click on the image to open the original image in a new window. |
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| Fusion gene breakpoints (product of the structural variants (SVs)) across RACK1 * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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| Fusion genes with this translation factor from FusionGDB2.0. |
| FusionGDB2 ID | Disease | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
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| 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 |
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| Differential gene expression between female and male. (Wilcoxon test, pval<0.05) |
| Cancer type | Translation factor | pval | adj.p |
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| Differential gene expression between young and old age groups (Wilcoxon test, pval<0.05) |
| Cancer type | Translation factor | pval | adj.p |
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| 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 |
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| Diseases associated with this translation factor. (DisGeNet 4.0) |
| Disease ID | Disease Name | # PubMeds | Disease source |
| C0001973 | Alcoholic Intoxication, Chronic | 1 | PSYGENET |
| C0005586 | Bipolar Disorder | 1 | PSYGENET |
| C0007137 | Squamous cell carcinoma | 1 | CTD_human |
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