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Translation Factor: GATB (NCBI Gene ID:5188) |
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 Gene Summary |
| Gene Information | Gene Name: GATB | Gene ID: 5188 | Gene Symbol | GATB | Gene ID | 5188 |
| Gene Name | glutamyl-tRNA amidotransferase subunit B | |
| Synonyms | HSPC199|PET112|PET112L | |
| Cytomap | 4q31.3 | |
| Type of Gene | protein-coding | |
| Description | glutamyl-tRNA(Gln) amidotransferase subunit B, mitochondrialPET112 homologcytochrome c oxidase assembly factor PET112 homologcytochrome oxidase assembly factor PET112 homologglu-AdT subunit Bglutamyl-tRNA(Gln) amidotransferase, subunit B | |
| Modification date | 20200313 | |
| UniProtAcc | O75879 | |
| Child GO biological process term(s) under GO:0006412 |
| GO ID | GO term |
| GO:0032543 | Mitochondrial translation |
| 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 | GATB | GO:0070681 | glutaminyl-tRNAGln biosynthesis via transamidation | 19805282 |
| 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 |
| GATB | >1119.25 |
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| We searched PubMed using 'GATB[title] AND translation [title] AND human.' |
| Gene | Title | PMID |
| GATB | . | . |
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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 |
| ENST00000263985 | 152593913 | 152594048 | In-frame |
| ENST00000263985 | 152600964 | 152601043 | Frame-shift |
| ENST00000263985 | 152609781 | 152609915 | Frame-shift |
| ENST00000263985 | 152629139 | 152629253 | In-frame |
| ENST00000263985 | 152637160 | 152637283 | In-frame |
| ENST00000263985 | 152640576 | 152640690 | 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. |
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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 GATB (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 |
| LUAD | GATB | GATC | -3.31212457667297 | 0.000202139908061226 |
| KICH | GATB | NARS | 1.07442061729154 | 0.000249803066253662 |
| KIRP | GATB | EARS2 | 2.04485161641576 | 0.000364991836249828 |
| LUAD | GATB | QRSL1 | -1.44147893876616 | 0.000391133065002894 |
| BRCA | GATB | QARS | -4.19270554058168 | 0.00045278023754438 |
| STAD | GATB | EPRS | -1.48171581324647 | 0.000789262883452143 |
| LUAD | GATB | NARS | -1.22666458579243 | 0.00134906742748461 |
| KIRP | GATB | FAAH | -1.57559639095879 | 0.00138581839854502 |
| THCA | GATB | QARS | -1.4601543520666 | 0.00171161769998529 |
| LUSC | GATB | QRSL1 | -1.56841516878295 | 0.00339826502432084 |
| THCA | GATB | GATC | 1.7309635515299 | 0.00553919070100212 |
| KIRC | GATB | FAAH | -1.10567532236928 | 0.0351010351236666 |
| CHOL | GATB | NARS | -7.86696864946951 | 0.0390625 |
| THCA | GATB | QRSL1 | -3.10847540716222 | 1.02220761620756e-06 |
| PRAD | GATB | DARS2 | -1.56775852251162 | 1.35699423901536e-06 |
| LIHC | GATB | EPRS | -7.10731017811505 | 2.28054594243154e-08 |
| KIRC | GATB | NARS | -2.40040204492647 | 2.49674919862186e-10 |
| LUSC | GATB | EARS2 | -4.79437223180067 | 3.23227619897643e-09 |
| PRAD | GATB | QARS | 1.84374784424986 | 3.33417295851411e-06 |
| LUAD | GATB | EARS2 | -4.660053370012 | 3.79251210274868e-11 |
| BLCA | GATB | EARS2 | -4.74352280775662 | 3.814697265625e-06 |
| COAD | GATB | GATC | 2.11115021298901 | 4.08291816711426e-06 |
| STAD | GATB | EARS2 | -1.69983591205674 | 4.39747236669064e-05 |
| LUAD | GATB | DARS | -10.3544740392178 | 5.31997757053803e-10 |
| HNSC | GATB | FAAH | 1.87868385489889 | 6.0381175899238e-06 |
| LIHC | GATB | NARS | -3.55177423456569 | 7.34047974405276e-07 |
| PRAD | GATB | EPRS | -1.76339127457265 | 9.52775218277559e-05 |
| STAD | GATB | NARS2 | -1.47625969382721 | 9.99853946268559e-05 |
| Protein-protein interactors with this translation factor (BIOGRID-3.4.160) |
| PPI interactors with GATB |
| SLAMF1, LINC01561, GATC, QRSL1, LRP1, TNFSF8, MRPL12, IL13RA2, MUC20, CHMP2A, FH, KCTD10, LARS2, LEO1, MED24, MRPL57, MRPL10, MRPL19, MRPL36, MRPL37, MRPL39, MRPS11, MRPS21, MRPS25, MRPS28, MRPS5, PMPCB, PSMC1, PSMC6, PSMD12, PTCD1, RBFA, SNRPG, TFB1M, MRM1, HSPD1, PDK1, TRMT61B, AURKAIP1, IMMP2L, ACAD9, AUH, C12orf65, C1QBP, C21orf33, C6orf203, MCUR1, CCDC90B, CS, FASTKD5, GFM1, GRSF1, HINT2, ICT1, LONP1, LRPPRC, CCDC109B, MDH2, METTL17, MRPL11, MRPS26, MRRF, MTERF3, MTIF2, MTIF3, MTRF1, MTRF1L, PMPCA, SSBP1, TACO1, TBRG4, TFAM, TMEM70, TRUB2, TSFM, TUFM, VWA8, EXD2, CLPP, INS, HSCB, OGT, AARS2, COX8A, PRKAR1B, MAGEA9, TRAV20, LRRC23, LRRC25, BCL2L12, SCGB2A2, MGARP, C22orf15, MAGEA8, CD1A, MALSU1, ATP5L2, FAM174A, FCGR3B, TMEM9, FTSJ2, IL12RB1, YARS2, SHC2, UQCRFS1, AMACR, RASL10B, CBR4, FAHD1, AK4, C20orf96, MRPS30, |
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| Clinically associated variants from ClinVar. |
| Gene | Chr | Position | RefSeq | VarSeq | RefSeeq | VarType | Pathogenic | Disease | VarInfo |
| GATB | chr4 | 152592191 | T | C | single_nucleotide_variant | Benign | not_provided | SO:0001624|3_prime_UTR_variant | SO:0001624|3_prime_UTR_variant |
| GATB | chr4 | 152592456 | TAGA | T | Deletion | Uncertain_significance | Combined_oxidative_phosphorylation_deficiency_41 | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152592469 | A | ATTAC | Microsatellite | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152601146 | T | G | single_nucleotide_variant | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152609556 | C | A | single_nucleotide_variant | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152609694 | A | G | single_nucleotide_variant | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152609700 | A | C | single_nucleotide_variant | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152609784 | C | T | single_nucleotide_variant | Benign | not_provided | SO:0001819|synonymous_variant | SO:0001819|synonymous_variant |
| GATB | chr4 | 152609920 | TA | T | Deletion | Benign | Combined_oxidative_phosphorylation_deficiency_41|not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152609998 | C | CA | Insertion | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152610117 | T | C | single_nucleotide_variant | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152622533 | T | C | single_nucleotide_variant | Benign | not_provided | SO:0001583|missense_variant | SO:0001583|missense_variant |
| GATB | chr4 | 152624972 | A | G | single_nucleotide_variant | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152625232 | C | CT | Duplication | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152625232 | CT | C | Deletion | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152626515 | TA | T | Deletion | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152629139 | C | T | single_nucleotide_variant | Uncertain_significance | Combined_oxidative_phosphorylation_deficiency_41 | SO:0001575|splice_donor_variant | SO:0001575|splice_donor_variant |
| GATB | chr4 | 152637228 | C | T | single_nucleotide_variant | Benign | not_provided | SO:0001819|synonymous_variant | SO:0001819|synonymous_variant |
| GATB | chr4 | 152638086 | ACT | A | Deletion | Pathogenic | Combined_oxidative_phosphorylation_deficiency_41|Cardiomyopathy,_mitochondrial | SO:0001589|frameshift_variant | SO:0001589|frameshift_variant |
| GATB | chr4 | 152640387 | C | T | single_nucleotide_variant | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152640610 | A | C | single_nucleotide_variant | Pathogenic | Combined_oxidative_phosphorylation_deficiency_41|Cardiomyopathy,_mitochondrial | SO:0001583|missense_variant | SO:0001583|missense_variant |
| GATB | chr4 | 152679722 | A | G | single_nucleotide_variant | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152679816 | A | G | single_nucleotide_variant | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152681952 | A | G | single_nucleotide_variant | Benign | Combined_oxidative_phosphorylation_deficiency_41|not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| GATB | chr4 | 152682046 | G | T | single_nucleotide_variant | Benign | not_provided | SO:0001583|missense_variant | SO:0001583|missense_variant |
| GATB | chr4 | 152682397 | G | A | single_nucleotide_variant | Benign | not_provided |
| 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 GATB * 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 GATB * 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 |
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