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| Open reading frame (ORF) annotation in the exon skipping event |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
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Gene summary for TRIM21 |
 Gene summary |
| Gene information | Gene symbol | TRIM21 | Gene ID | 6737 |
| Gene name | tripartite motif containing 21 | |
| Synonyms | RNF81|RO52|Ro/SSA|SSA|SSA1 | |
| Cytomap | 11p15.4 | |
| Type of gene | protein-coding | |
| Description | E3 ubiquitin-protein ligase TRIM2152 kDa Ro protein52 kDa ribonucleoprotein autoantigen Ro/SS-ARING finger protein 81RING-type E3 ubiquitin transferase TRIM21SS-ASicca syndrome antigen ASjogren syndrome antigen A1 (52kDa, ribonucleoprotein autoanti | |
| Modification date | 20180522 | |
| UniProtAcc | P19474 | |
| Context | PubMed: TRIM21 [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract] - Title (PMID) |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| TRIM21 | GO:0000209 | protein polyubiquitination | 16297862 |
| TRIM21 | GO:0006513 | protein monoubiquitination | 16297862|19675099 |
| TRIM21 | GO:0016567 | protein ubiquitination | 16472766|16880511|18845142 |
| TRIM21 | GO:0032088 | negative regulation of NF-kappaB transcription factor activity | 19675099 |
| TRIM21 | GO:0032897 | negative regulation of viral transcription | 18248090 |
| TRIM21 | GO:0034341 | response to interferon-gamma | 26347139 |
| TRIM21 | GO:0045087 | innate immune response | 18248090 |
| TRIM21 | GO:0051091 | positive regulation of DNA binding transcription factor activity | 23077300 |
| TRIM21 | GO:0051865 | protein autoubiquitination | 16880511 |
| TRIM21 | GO:0070206 | protein trimerization | 17156811 |
| TRIM21 | GO:1902187 | negative regulation of viral release from host cell | 18248090 |
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Exon skipping events across known transcript of Ensembl for TRIM21 from UCSC genome browser |
| 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. |
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Gene isoform structures and expression levels for TRIM21 |
| Expression levels of gene isoforms across TCGA. |
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| Expression levels of gene isoforms across GTEx. |
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Exon skipping events with PSIs in TCGA for TRIM21 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_68247 | 11 | 4406907:4407083:4407386:4407487:4408197:4408220 | 4407386:4407487 | ENSG00000132109.8 | ENST00000254436.7 |
| exon_skip_68249 | 11 | 4408197:4408220:4409529:4409760:4410883:4410979 | 4409529:4409760 | ENSG00000132109.8 | ENST00000254436.7 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for TRIM21 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_68247 | 11 | 4406907:4407083:4407386:4407487:4408197:4408220 | 4407386:4407487 | ENSG00000132109.8 | ENST00000254436.7 |
| exon_skip_68249 | 11 | 4408197:4408220:4409529:4409760:4410883:4410979 | 4409529:4409760 | ENSG00000132109.8 | ENST00000254436.7 |
| PSI values of skipped exons in GTEx. |
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| * Skipped exon sequences. |
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Open reading frame (ORF) annotation in the exon skipping event for TRIM21 |
| Open reading frame (ORF) of individual exon skipping events in TCGA based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000254436 | 4407386 | 4407487 | Frame-shift |
| ENST00000254436 | 4409529 | 4409760 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in GTEx based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000254436 | 4407386 | 4407487 | Frame-shift |
| ENST00000254436 | 4409529 | 4409760 | In-frame |
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Infer the effects of exon skipping event on protein functional features for TRIM21 |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
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| Loci of skipped exons in TCGA across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000254436 | 1941 | 475 | 4409529 | 4409760 | 618 | 848 | 168 | 245 |
| Loci of skipped exons in GTEx across genomic, transcript, and protein sequence levels of In-frame cases. |
| ENST | Length of mRNA | Length of AA seq. | Genomic start | Genomic end | mRNA start | mRNA end | AA start | AA end |
| ENST00000254436 | 1941 | 475 | 4409529 | 4409760 | 618 | 848 | 168 | 245 |
| Lost protein functional features of individual exon skipping events in TCGA. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| P19474 | 168 | 245 | 169 | 245 | Alternative sequence | ID=VSP_039627;Note=In isoform 2. Missing;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| P19474 | 168 | 245 | 1 | 475 | Chain | ID=PRO_0000056115;Note=E3 ubiquitin-protein ligase TRIM21 |
| P19474 | 168 | 245 | 128 | 238 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| P19474 | 168 | 245 | 231 | 231 | Natural variant | ID=VAR_013751;Note=E->K;Dbxref=dbSNP:rs2554934 |
| P19474 | 168 | 245 | 189 | 189 | Sequence conflict | Note=L->P;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| P19474 | 168 | 245 | 216 | 216 | Sequence conflict | Note=A->T;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Lost protein functional features of individual exon skipping events in GTEx. |
| UniProt acc. | Start of exon skipping (AA) | End of exon skipping (AA) | Protein feature start (AA) | Protein feature end (AA) | Category of protein feature | Description of feature |
| P19474 | 168 | 245 | 169 | 245 | Alternative sequence | ID=VSP_039627;Note=In isoform 2. Missing;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| P19474 | 168 | 245 | 1 | 475 | Chain | ID=PRO_0000056115;Note=E3 ubiquitin-protein ligase TRIM21 |
| P19474 | 168 | 245 | 128 | 238 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| P19474 | 168 | 245 | 231 | 231 | Natural variant | ID=VAR_013751;Note=E->K;Dbxref=dbSNP:rs2554934 |
| P19474 | 168 | 245 | 189 | 189 | Sequence conflict | Note=L->P;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| P19474 | 168 | 245 | 216 | 216 | Sequence conflict | Note=A->T;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
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SNVs in the skipped exons for TRIM21 |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
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| - Differential PSIs between mutated versus non-mutated samples. |
TRIM21_HNSC_exon_skip_68249_psi_boxplot.png |
| - Non-synonymous mutations located in the skipped exons in TCGA. |
| Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| GBM | TCGA-14-3476-01 | exon_skip_68249 | 4409530 | 4409760 | 4409705 | 4409705 | Frame_Shift_Del | T | - | p.N187fs |
| HNSC | TCGA-CV-7242-01 | exon_skip_68249 | 4409530 | 4409760 | 4409705 | 4409705 | Frame_Shift_Del | T | - | p.N187fs |
| ACC | TCGA-OR-A5LB-01 | exon_skip_68249 | 4409530 | 4409760 | 4409704 | 4409705 | Frame_Shift_Ins | - | T | p.I187fs |
| ACC | TCGA-OR-A5LB-01 | exon_skip_68249 | 4409530 | 4409760 | 4409704 | 4409705 | Frame_Shift_Ins | - | T | p.N187fs |
| UCEC | TCGA-AX-A05Z-01 | exon_skip_68249 | 4409530 | 4409760 | 4409565 | 4409565 | Nonsense_Mutation | G | A | p.R234* |
| UCEC | TCGA-D1-A17Q-01 | exon_skip_68249 | 4409530 | 4409760 | 4409565 | 4409565 | Nonsense_Mutation | G | A | p.R234* |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
 | Sample: TCGA-CV-7242-01 |
| Cancer type: HNSC | |
| ESID: exon_skip_68249 | |
| Skipped exon start: 4409530 | |
| Skipped exon end: 4409760 | |
| Mutation start: 4409705 | |
| Mutation end: 4409705 | |
| Mutation type: Frame_Shift_Del | |
| Reference seq: T | |
| Mutation seq: - | |
| AAchange: p.N187fs | |
exon_skip_68249_HNSC_TCGA-CV-7242-01.png | |
| - Non-synonymous mutations located in the skipped exons in CCLE. |
| Sample | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| HEL9217_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 4409530 | 4409760 | 4409704 | 4409705 | Frame_Shift_Ins | - | T | p.N187fs |
| MORCPR_LUNG | 4409530 | 4409760 | 4409704 | 4409705 | Frame_Shift_Ins | - | T | p.N187fs |
| NCIH1299_LUNG | 4409530 | 4409760 | 4409704 | 4409705 | Frame_Shift_Ins | - | T | p.N187fs |
| SW1710_URINARY_TRACT | 4409530 | 4409760 | 4409704 | 4409705 | Frame_Shift_Ins | - | T | p.N187fs |
| UO31_KIDNEY | 4409530 | 4409760 | 4409704 | 4409705 | Frame_Shift_Ins | - | T | p.N187fs |
| TE9_OESOPHAGUS | 4407387 | 4407487 | 4407406 | 4407406 | Missense_Mutation | C | G | p.K280N |
| NCIH2081_LUNG | 4407387 | 4407487 | 4407416 | 4407416 | Missense_Mutation | C | T | p.G277E |
| KYSE410_OESOPHAGUS | 4409530 | 4409760 | 4409624 | 4409624 | Missense_Mutation | T | A | p.K214I |
| OCUBM_BREAST | 4409530 | 4409760 | 4409655 | 4409655 | Missense_Mutation | C | G | p.E204Q |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for TRIM21 |
| sQTL information located at the skipped exons. |
| Exon skip ID | Chromosome | Three exons | Skippped exon | ENST | Cancer type | SNP id | Location | DNA change (ref/var) | P-value |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for TRIM21 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for TRIM21 |
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RelatedDrugs for TRIM21 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for TRIM21 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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