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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 RAB3D |
 Gene summary |
| Gene information | Gene symbol | RAB3D | Gene ID | 9545 |
| Gene name | RAB3D, member RAS oncogene family | |
| Synonyms | D2-2|GOV|RAB16|RAD3D | |
| Cytomap | 19p13.2 | |
| Type of gene | protein-coding | |
| Description | ras-related protein Rab-3DRab3D upregulated with myeloid differentiationglioblastoma overexpressed | |
| Modification date | 20180526 | |
| UniProtAcc | O95716 | |
| Context | PubMed: RAB3D [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 |
| RAB3D | GO:0045453 | bone resorption | 21262767 |
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Exon skipping events across known transcript of Ensembl for RAB3D 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 RAB3D |
| 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 RAB3D |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_315114 | 19 | 11446122:11446247:11446340:11446459:11447847:11448136 | 11446340:11446459 | ENSG00000105514.3 | ENST00000222120.3,ENST00000589655.1 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for RAB3D |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_315114 | 19 | 11446122:11446247:11446340:11446459:11447847:11448136 | 11446340:11446459 | ENSG00000105514.3 | ENST00000222120.3,ENST00000589655.1 |
| 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 RAB3D |
| 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 |
| ENST00000222120 | 11446340 | 11446459 | Frame-shift |
| ENST00000589655 | 11446340 | 11446459 | 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 |
| ENST00000222120 | 11446340 | 11446459 | Frame-shift |
| ENST00000589655 | 11446340 | 11446459 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for RAB3D |
| 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 |
| 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 |
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SNVs in the skipped exons for RAB3D |
| - 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. |
| - 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 |
| - 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 |
| 639V_URINARY_TRACT | 11446341 | 11446459 | 11446375 | 11446375 | Missense_Mutation | C | T | p.A105T |
| HCC1833_LUNG | 11446341 | 11446459 | 11446407 | 11446407 | Missense_Mutation | C | A | p.G94V |
| MDAMB134VI_BREAST | 11446341 | 11446459 | 11446456 | 11446456 | Missense_Mutation | T | C | p.T78A |
| SNUC2B_LARGE_INTESTINE | 11446341 | 11446459 | 11446341 | 11446341 | Splice_Site | C | A | p.W116L |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for RAB3D |
| 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 RAB3D |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for RAB3D |
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RelatedDrugs for RAB3D |
| 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 RAB3D |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
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