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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 RAB28 |
 Gene summary |
| Gene information | Gene symbol | RAB28 | Gene ID | 9364 |
| Gene name | RAB28, member RAS oncogene family | |
| Synonyms | CORD18 | |
| Cytomap | 4p15.33 | |
| Type of gene | protein-coding | |
| Description | ras-related protein Rab-28 | |
| Modification date | 20180526 | |
| UniProtAcc | P51157 | |
| Context | PubMed: RAB28 [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 |
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Exon skipping events across known transcript of Ensembl for RAB28 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 RAB28 |
| 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 RAB28 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_428552 | 4 | 13362977:13363257:13371494:13371589:13378168:13378246 | 13371494:13371589 | ENSG00000157869.10 | ENST00000511649.1 |
| exon_skip_428559 | 4 | 13370124:13370274:13371494:13371589:13378168:13378228 | 13371494:13371589 | ENSG00000157869.10 | ENST00000288723.4 |
| exon_skip_428561 | 4 | 13370124:13370274:13373418:13373491:13378168:13378228 | 13373418:13373491 | ENSG00000157869.10 | ENST00000504644.1,ENST00000338176.4 |
| exon_skip_428563 | 4 | 13370124:13370274:13378168:13378246:13383114:13383218 | 13378168:13378246 | ENSG00000157869.10 | ENST00000508274.1,ENST00000330852.5 |
| exon_skip_428567 | 4 | 13378168:13378246:13383114:13383218:13462322:13462452 | 13383114:13383218 | ENSG00000157869.10 | ENST00000288723.4,ENST00000511649.1,ENST00000338176.4,ENST00000330852.5 |
| exon_skip_428570 | 4 | 13383114:13383218:13462322:13462452:13475941:13475946 | 13462322:13462452 | ENSG00000157869.10 | ENST00000288723.4,ENST00000338176.4,ENST00000330852.5 |
| exon_skip_428572 | 4 | 13383114:13383218:13475941:13476030:13481053:13481150 | 13475941:13476030 | ENSG00000157869.10 | ENST00000508274.1 |
| exon_skip_428576 | 4 | 13462322:13462452:13475941:13476030:13481053:13481150 | 13475941:13476030 | ENSG00000157869.10 | ENST00000288723.4,ENST00000338176.4,ENST00000330852.5 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for RAB28 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_428552 | 4 | 13362977:13363257:13371494:13371589:13378168:13378246 | 13371494:13371589 | ENSG00000157869.10 | ENST00000511649.1 |
| exon_skip_428559 | 4 | 13370124:13370274:13371494:13371589:13378168:13378228 | 13371494:13371589 | ENSG00000157869.10 | ENST00000288723.4 |
| exon_skip_428561 | 4 | 13370124:13370274:13373418:13373491:13378168:13378228 | 13373418:13373491 | ENSG00000157869.10 | ENST00000338176.4,ENST00000504644.1 |
| exon_skip_428563 | 4 | 13370124:13370274:13378168:13378246:13383114:13383218 | 13378168:13378246 | ENSG00000157869.10 | ENST00000508274.1,ENST00000330852.5 |
| exon_skip_428567 | 4 | 13378168:13378246:13383114:13383218:13462322:13462452 | 13383114:13383218 | ENSG00000157869.10 | ENST00000511649.1,ENST00000330852.5,ENST00000288723.4,ENST00000338176.4 |
| exon_skip_428570 | 4 | 13383114:13383218:13462322:13462452:13475941:13475946 | 13462322:13462452 | ENSG00000157869.10 | ENST00000330852.5,ENST00000288723.4,ENST00000338176.4 |
| exon_skip_428572 | 4 | 13383114:13383218:13475941:13476030:13481053:13481150 | 13475941:13476030 | ENSG00000157869.10 | ENST00000508274.1 |
| exon_skip_428576 | 4 | 13462322:13462452:13475941:13476030:13481053:13481150 | 13475941:13476030 | ENSG00000157869.10 | ENST00000330852.5,ENST00000288723.4,ENST00000338176.4 |
| 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 RAB28 |
| 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 |
| ENST00000330852 | 13383114 | 13383218 | Frame-shift |
| ENST00000330852 | 13462322 | 13462452 | Frame-shift |
| ENST00000330852 | 13475941 | 13476030 | Frame-shift |
| ENST00000330852 | 13378168 | 13378246 | 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 |
| ENST00000330852 | 13383114 | 13383218 | Frame-shift |
| ENST00000330852 | 13462322 | 13462452 | Frame-shift |
| ENST00000330852 | 13475941 | 13476030 | Frame-shift |
| ENST00000330852 | 13378168 | 13378246 | In-frame |
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Infer the effects of exon skipping event on protein functional features for RAB28 |
| 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 |
| ENST00000330852 | 1732 | 221 | 13378168 | 13378246 | 711 | 788 | 165 | 191 |
| 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 |
| ENST00000330852 | 1732 | 221 | 13378168 | 13378246 | 711 | 788 | 165 | 191 |
| 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 |
| P51157 | 165 | 191 | 2 | 218 | Chain | ID=PRO_0000121227;Note=Ras-related protein Rab-28 |
| P51157 | 165 | 191 | 166 | 177 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2HXS |
| 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 |
| P51157 | 165 | 191 | 2 | 218 | Chain | ID=PRO_0000121227;Note=Ras-related protein Rab-28 |
| P51157 | 165 | 191 | 166 | 177 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2HXS |
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SNVs in the skipped exons for RAB28 |
| - 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 |
| LIHC | TCGA-DD-A39Y-01 | exon_skip_428570 | 13462323 | 13462452 | 13462424 | 13462424 | Frame_Shift_Del | T | - | p.N97fs |
| KIRC | TCGA-AS-3778-01 | exon_skip_428563 | 13378169 | 13378246 | 13378197 | 13378197 | Nonsense_Mutation | A | T | p.L182* |
| UCEC | TCGA-BS-A0UV-01 | exon_skip_428570 | 13462323 | 13462452 | 13462378 | 13462378 | Nonsense_Mutation | C | A | p.E35* |
| UCEC | TCGA-AP-A051-01 | exon_skip_428570 | 13462323 | 13462452 | 13462440 | 13462440 | Nonsense_Mutation | C | T | p.W6* |
| UCEC | TCGA-BS-A0UV-01 | exon_skip_428552 exon_skip_428559 | 13371495 | 13371589 | 13371494 | 13371494 | Splice_Site | C | A | e7+1 |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
 | Sample: TCGA-BS-A0UV-01 |
| Cancer type: UCEC | |
| ESID: exon_skip_428570 | |
| Skipped exon start: 13462323 | |
| Skipped exon end: 13462452 | |
| Mutation start: 13462378 | |
| Mutation end: 13462378 | |
| Mutation type: Nonsense_Mutation | |
| Reference seq: C | |
| Mutation seq: A | |
| AAchange: p.E35* | |
| Sample: TCGA-BS-A0UV-01 |
| Cancer type: UCEC | |
| ESID: exon_skip_428559 | |
| Skipped exon start: 13371495 | |
| Skipped exon end: 13371589 | |
| Mutation start: 13371494 | |
| Mutation end: 13371494 | |
| Mutation type: Splice_Site | |
| Reference seq: C | |
| Mutation seq: A | |
| AAchange: e7+1 | |
exon_skip_121518_UCEC_TCGA-BS-A0UV-01.png | |
exon_skip_331787_UCEC_TCGA-BS-A0UV-01.png | |
exon_skip_336814_UCEC_TCGA-BS-A0UV-01.png | |
exon_skip_376191_UCEC_TCGA-BS-A0UV-01.png | |
exon_skip_428559_UCEC_TCGA-BS-A0UV-01.png | |
exon_skip_434353_UCEC_TCGA-BS-A0UV-01.png | |
exon_skip_442836_UCEC_TCGA-BS-A0UV-01.png | |
exon_skip_474328_UCEC_TCGA-BS-A0UV-01.png | |
exon_skip_517296_UCEC_TCGA-BS-A0UV-01.png | |
exon_skip_59253_UCEC_TCGA-BS-A0UV-01.png | |
exon_skip_99140_UCEC_TCGA-BS-A0UV-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 |
| NCIH1876_LUNG | 13378169 | 13378246 | 13378236 | 13378236 | Missense_Mutation | C | A | p.C169F |
| NCIH1876_LUNG | 13378169 | 13378246 | 13378236 | 13378237 | Missense_Mutation | CA | AT | p.C169I |
| NCIH1876_LUNG | 13378169 | 13378246 | 13378237 | 13378237 | Missense_Mutation | A | T | p.C169S |
| NCIH2110_LUNG | 13383115 | 13383218 | 13383174 | 13383174 | Missense_Mutation | G | A | p.R146W |
| TE441T_SOFT_TISSUE | 13383115 | 13383218 | 13383174 | 13383174 | Missense_Mutation | G | A | p.R146W |
| HEC251_ENDOMETRIUM | 13383115 | 13383218 | 13383200 | 13383200 | Missense_Mutation | C | T | p.R137Q |
| MFE319_ENDOMETRIUM | 13462323 | 13462452 | 13462344 | 13462344 | Missense_Mutation | C | G | p.V124L |
| SKOV3_OVARY | 13462323 | 13462452 | 13462373 | 13462373 | Missense_Mutation | A | G | p.V114A |
| DEL_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 13462323 | 13462452 | 13462408 | 13462408 | Missense_Mutation | C | A | p.E102D |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 13462323 | 13462452 | 13462449 | 13462449 | Missense_Mutation | C | T | p.V89I |
| NCIH740_LUNG | 13475942 | 13476030 | 13476003 | 13476003 | Missense_Mutation | C | G | p.W67S |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 13475942 | 13476030 | 13476007 | 13476007 | Missense_Mutation | T | C | p.I66V |
| D247MG_CENTRAL_NERVOUS_SYSTEM | 13378169 | 13378246 | 13378170 | 13378170 | Splice_Site | T | C | p.Q191R |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for RAB28 |
| 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 RAB28 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for RAB28 |
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RelatedDrugs for RAB28 |
| 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 RAB28 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
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