|
||||||
|
 | |
| |
| |
| |
| Open reading frame (ORF) annotation in the exon skipping event |
| |
| |
| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
| |
|
Gene summary for TROVE2 |
 Gene summary |
| Gene information | Gene symbol | TROVE2 | Gene ID | 6738 |
| Gene name | TROVE domain family member 2 | |
| Synonyms | RO60|RORNP|SSA2 | |
| Cytomap | 1q31.2 | |
| Type of gene | protein-coding | |
| Description | 60 kDa SS-A/Ro ribonucleoprotein60 kDa ribonucleoprotein RoSjogren syndrome antigen A2 (60kD, ribonucleoprotein autoantigen SS-A/Ro)gastric cancer multi-drug resistance proteinsjoegren syndrome type A antigen | |
| Modification date | 20180519 | |
| UniProtAcc | P10155 | |
| Context | PubMed: TROVE2 [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 |
Top |
Exon skipping events across known transcript of Ensembl for TROVE2 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. |
 |
Top |
Gene isoform structures and expression levels for TROVE2 |
| Expression levels of gene isoforms across TCGA. |
 |
| Expression levels of gene isoforms across GTEx. |
 |
Top |
Exon skipping events with PSIs in TCGA for TROVE2 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_14959 | 1 | 193028788:193028906:193029003:193029352:193038163:193038309 | 193029003:193029352 | ENSG00000116747.8 | ENST00000506303.1 |
| exon_skip_14962 | 1 | 193028788:193028906:193038163:193038311:193044949:193045020 | 193038163:193038311 | ENSG00000116747.8 | ENST00000415442.2 |
| exon_skip_14966 | 1 | 193028788:193028906:193044949:193045170:193045630:193045777 | 193044949:193045170 | ENSG00000116747.8 | ENST00000432079.1 |
| exon_skip_14969 | 1 | 193029186:193029352:193038163:193038764:193044949:193045020 | 193038163:193038764 | ENSG00000116747.8 | ENST00000367445.3,ENST00000367444.3,ENST00000416058.2,ENST00000367446.3,ENST00000367443.1 |
| exon_skip_14974 | 1 | 193038361:193038764:193039683:193039749:193044949:193045020 | 193039683:193039749 | ENSG00000116747.8 | ENST00000512587.1 |
| exon_skip_14975 | 1 | 193038361:193038764:193044949:193045170:193045630:193045777 | 193044949:193045170 | ENSG00000116747.8 | ENST00000400968.2,ENST00000367445.3,ENST00000367444.3,ENST00000367441.1,ENST00000416058.2,ENST00000367446.3,ENST00000367443.1 |
| exon_skip_14976 | 1 | 193053708:193053787:193054118:193054170:193060780:193060907 | 193054118:193054170 | ENSG00000116747.8 | ENST00000367443.1 |
| PSI values of skipped exons in TCGA. |
 |
Top |
Exon skipping events with PSIs in GTEx for TROVE2 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_14959 | 1 | 193028788:193028906:193029003:193029352:193038163:193038309 | 193029003:193029352 | ENSG00000116747.8 | ENST00000506303.1 |
| exon_skip_14962 | 1 | 193028788:193028906:193038163:193038311:193044949:193045020 | 193038163:193038311 | ENSG00000116747.8 | ENST00000415442.2 |
| exon_skip_14966 | 1 | 193028788:193028906:193044949:193045170:193045630:193045777 | 193044949:193045170 | ENSG00000116747.8 | ENST00000432079.1 |
| exon_skip_14969 | 1 | 193029186:193029352:193038163:193038764:193044949:193045020 | 193038163:193038764 | ENSG00000116747.8 | ENST00000416058.2,ENST00000367446.3,ENST00000367443.1,ENST00000367445.3,ENST00000367444.3 |
| exon_skip_14974 | 1 | 193038361:193038764:193039683:193039749:193044949:193045020 | 193039683:193039749 | ENSG00000116747.8 | ENST00000512587.1 |
| exon_skip_14975 | 1 | 193038361:193038764:193044949:193045170:193045630:193045777 | 193044949:193045170 | ENSG00000116747.8 | ENST00000400968.2,ENST00000416058.2,ENST00000367446.3,ENST00000367443.1,ENST00000367445.3,ENST00000367444.3,ENST00000367441.1 |
| exon_skip_14976 | 1 | 193053708:193053787:193054118:193054170:193060780:193060907 | 193054118:193054170 | ENSG00000116747.8 | ENST00000367443.1 |
| PSI values of skipped exons in GTEx. |
 |
| * Skipped exon sequences. |
Top |
Open reading frame (ORF) annotation in the exon skipping event for TROVE2 |
| 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 |
| ENST00000367446 | 193038163 | 193038764 | 5CDS-5UTR |
| ENST00000367441 | 193044949 | 193045170 | Frame-shift |
| ENST00000367446 | 193044949 | 193045170 | Frame-shift |
| ENST00000400968 | 193044949 | 193045170 | Frame-shift |
| 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 |
| ENST00000367446 | 193038163 | 193038764 | 5CDS-5UTR |
| ENST00000367441 | 193044949 | 193045170 | Frame-shift |
| ENST00000367446 | 193044949 | 193045170 | Frame-shift |
| ENST00000400968 | 193044949 | 193045170 | Frame-shift |
Top |
Infer the effects of exon skipping event on protein functional features for TROVE2 |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
 |
| 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 |
| 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 |
| 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 |
| 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 |
Top |
SNVs in the skipped exons for TROVE2 |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
 |
| - Differential PSIs between mutated versus non-mutated samples. |
| - 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 |
| LUAD | TCGA-17-Z027-01 | exon_skip_14969 | 193038164 | 193038764 | 193038460 | 193038461 | Frame_Shift_Ins | - | CTCT | p.L93fs |
| BRCA | TCGA-EW-A1PH-01 | exon_skip_14976 | 193054119 | 193054170 | 193054120 | 193054121 | Frame_Shift_Ins | - | A | p.T515fs |
| STAD | TCGA-R5-A7ZF-01 | exon_skip_14966 exon_skip_14975 | 193044950 | 193045170 | 193045046 | 193045046 | Nonsense_Mutation | T | G | p.L226* |
| STAD | TCGA-R5-A7ZF-01 | exon_skip_14966 exon_skip_14975 | 193044950 | 193045170 | 193045046 | 193045046 | Nonsense_Mutation | T | G | p.L226X |
| UCEC | TCGA-BS-A0UF-01 | exon_skip_14966 exon_skip_14975 | 193044950 | 193045170 | 193045117 | 193045117 | Nonsense_Mutation | G | T | p.E250* |
| ESCA | TCGA-IG-A6QS-01 | exon_skip_14966 exon_skip_14975 | 193044950 | 193045170 | 193045171 | 193045171 | Splice_Site | G | T | . |
| ESCA | TCGA-IG-A6QS-01 | exon_skip_14966 exon_skip_14975 | 193044950 | 193045170 | 193045171 | 193045171 | Splice_Site | G | T | e2+1 |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
| - 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 |
| MV411_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 193038164 | 193038311 | 193038192 | 193038192 | Frame_Shift_Del | A | - | p.E3fs |
| MV411_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 193038164 | 193038764 | 193038192 | 193038192 | Frame_Shift_Del | A | - | p.E3fs |
| KCL22_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 193038164 | 193038311 | 193038288 | 193038288 | Missense_Mutation | G | A | p.R35Q |
| KCL22_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 193038164 | 193038764 | 193038288 | 193038288 | Missense_Mutation | G | A | p.R35Q |
| HEC1B_ENDOMETRIUM | 193038164 | 193038311 | 193038305 | 193038305 | Missense_Mutation | T | C | p.S41P |
| HEC1B_ENDOMETRIUM | 193038164 | 193038764 | 193038305 | 193038305 | Missense_Mutation | T | C | p.S41P |
| HCC1195_LUNG | 193038164 | 193038311 | 193038315 | 193038315 | Missense_Mutation | G | C | p.G44A |
| HCC1195_LUNG | 193038164 | 193038764 | 193038315 | 193038315 | Missense_Mutation | G | C | p.G44A |
| CL34_LARGE_INTESTINE | 193038164 | 193038764 | 193038492 | 193038492 | Missense_Mutation | C | T | p.S103F |
| HPBALL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 193038164 | 193038764 | 193038513 | 193038513 | Missense_Mutation | C | A | p.A110E |
| HEC251_ENDOMETRIUM | 193038164 | 193038764 | 193038542 | 193038542 | Missense_Mutation | C | T | p.R120C |
| SKUT1_SOFT_TISSUE | 193038164 | 193038764 | 193038543 | 193038543 | Missense_Mutation | G | A | p.R120H |
| SUPHD1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 193038164 | 193038764 | 193038557 | 193038557 | Missense_Mutation | C | T | p.L125F |
| SISO_CERVIX | 193038164 | 193038764 | 193038630 | 193038630 | Missense_Mutation | G | A | p.R149Q |
| CMLT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 193038164 | 193038764 | 193038630 | 193038630 | Missense_Mutation | G | A | p.R149Q |
| GRST_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 193038164 | 193038764 | 193038630 | 193038630 | Missense_Mutation | G | A | p.R149Q |
| HT115_LARGE_INTESTINE | 193038164 | 193038764 | 193038689 | 193038689 | Missense_Mutation | A | G | p.T169A |
| SNU1040_LARGE_INTESTINE | 193038164 | 193038764 | 193038698 | 193038698 | Missense_Mutation | A | G | p.K172E |
| SNU1040_LARGE_INTESTINE | 193044950 | 193045170 | 193045078 | 193045078 | Missense_Mutation | C | T | p.R237C |
| MC116_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 193038164 | 193038764 | 193038590 | 193038590 | Nonsense_Mutation | A | T | p.K136* |
Top |
Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for TROVE2 |
| 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 |
Top |
Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for TROVE2 |
Top |
Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for TROVE2 |
Top |
RelatedDrugs for TROVE2 |
| 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 |
Top |
RelatedDiseases for TROVE2 |
| 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)
|