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Translation Factor: TUT4 (NCBI Gene ID:23318) |
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 Gene Summary |
| Gene Information | Gene Name: TUT4 | Gene ID: 23318 | Gene Symbol | TUT4 | Gene ID | 23318 |
| Gene Name | terminal uridylyl transferase 4 | |
| Synonyms | PAPD3|TENT3A|ZCCHC11 | |
| Cytomap | 1p32.3 | |
| Type of Gene | protein-coding | |
| Description | terminal uridylyltransferase 4PAP associated domain containing 3TUTase 4zinc finger CCHC domain-containing protein 11zinc finger CCHC-type containing 11zinc finger, CCHC domain containing 11 | |
| Modification date | 20200313 | |
| UniProtAcc | Q5TAX3 | |
| 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: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 | TUT4 | GO:0010526 | negative regulation of transposition, RNA-mediated | 30122351 |
| Hgene | TUT4 | GO:0010586 | miRNA metabolic process | 25979828 |
| Hgene | TUT4 | GO:0031054 | pre-miRNA processing | 25979828 |
| Hgene | TUT4 | GO:0031123 | RNA 3'-end processing | 19703396 |
| 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 |
| TUT4 | >1119.25 |
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| We searched PubMed using 'TUT4[title] AND translation [title] AND human.' |
| Gene | Title | PMID |
| TUT4 | . | . |
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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 |
| ENST00000371544 | 52896684 | 52897132 | Frame-shift |
| ENST00000371544 | 52924007 | 52924121 | In-frame |
| ENST00000371544 | 52930741 | 52930845 | Frame-shift |
| ENST00000371544 | 52933852 | 52933939 | In-frame |
| ENST00000371544 | 52947094 | 52947307 | In-frame |
| ENST00000371544 | 52947475 | 52947595 | In-frame |
| ENST00000371544 | 52962677 | 52962855 | Frame-shift |
| ENST00000371544 | 52975267 | 52975384 | In-frame |
| ENST00000371544 | 52991234 | 52992045 | 3UTR-3CDS |
| 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 TUT4 (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 | TUT4 | EIF4A2 | 1.8359785836448 | 0.000162905479402723 |
| LIHC | TUT4 | EIF4A3 | -1.04153136776482 | 0.000244220248656818 |
| KIRC | TUT4 | PAIP1 | -5.71279064132007 | 0.00220467399393826 |
| HNSC | TUT4 | LIN28B | -3.637237905407 | 0.0023768350959738 |
| ESCA | TUT4 | EIF4A3 | -2.29521324800567 | 0.0029296875 |
| CHOL | TUT4 | PABPC1 | -4.56272528815353 | 0.00390625 |
| STAD | TUT4 | EIF4A3 | -1.12631690036833 | 0.00471024587750435 |
| KICH | TUT4 | EIF4G1 | -1.46656081150743 | 0.00612920522689819 |
| CHOL | TUT4 | EIF4A3 | -1.38498420757674 | 0.0078125 |
| KIRP | TUT4 | EIF4A3 | -1.24117912616368 | 0.0132303284481168 |
| BLCA | TUT4 | PABPC1 | 1.31485302792746 | 0.0180816650390625 |
| BLCA | TUT4 | EIF4A3 | 2.06229583387624 | 0.0229873657226562 |
| CHOL | TUT4 | ZCCHC11 | 2.70414463340831 | 0.0390625 |
| ESCA | TUT4 | EIF4A1 | -1.24538073199285 | 0.0419921875 |
| LUAD | TUT4 | EIF4A3 | -6.29327680237469 | 1.10446534121172e-08 |
| BRCA | TUT4 | PAIP1 | 1.33783668607252 | 1.59729685534959e-08 |
| BRCA | TUT4 | EIF4B | -2.16032742029696 | 2.35556737304054e-22 |
| LIHC | TUT4 | PABPC1 | -1.72076961362188 | 2.98009622125841e-06 |
| THCA | TUT4 | ZCCHC11 | -1.02904440345021 | 4.22574981970489e-05 |
| KICH | TUT4 | EIF4A3 | 2.80243879140225 | 5.96046447753906e-08 |
| KICH | TUT4 | EIF4E | 1.61675210562671 | 6.55651092529297e-06 |
| KIRC | TUT4 | EIF4B | 1.14997140510474 | 7.59366366705366e-09 |
| KICH | TUT4 | EIF4A1 | 1.14485583309571 | 8.16583633422851e-06 |
| PRAD | TUT4 | PABPC1 | -2.10200318363476 | 8.55379952759014e-07 |
| LUAD | TUT4 | LIN28B | -1.96723920023194 | 9.56917315705946e-05 |
| Protein-protein interactors with this translation factor (BIOGRID-3.4.160) |
| PPI interactors with TUT4 |
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| Clinically associated variants from ClinVar. |
| Gene | Chr | Position | RefSeq | VarSeq | RefSeeq | VarType | Pathogenic | Disease | VarInfo |
| TUT4 | chr1 | 52927295 | T | A | single_nucleotide_variant | Benign | not_provided | SO:0001627|intron_variant | SO:0001627|intron_variant |
| TUT4 | chr1 | 52927415 | T | C | single_nucleotide_variant | Benign | not_provided | SO:0001819|synonymous_variant | SO:0001819|synonymous_variant |
| TUT4 | chr1 | 52940845 | C | A | single_nucleotide_variant | Benign | not_provided | SO:0001583|missense_variant | SO:0001583|missense_variant |
| TUT4 | chr1 | 52991387 | G | A | single_nucleotide_variant | Benign | not_provided | SO:0001583|missense_variant | SO:0001583|missense_variant |
| TUT4 | chr1 | 52991569 | T | C | 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 TUT4 * 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 TUT4 * 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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