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Open reading frame (ORF) annotation in the exon skipping event | |
3'-UTR located exon skipping events lost miRNA binding sites | |
Splicing Quantitative Trait Loci (sQTLs) in the skipped exons | |
Gene summary for RAB3A |
Gene summary |
Gene information | Gene symbol | RAB3A | Gene ID | 5864 |
Gene name | RAB3A, member RAS oncogene family | |
Synonyms | - | |
Cytomap | 19p13.11 | |
Type of gene | protein-coding | |
Description | ras-related protein Rab-3ARAS-associated protein RAB3A | |
Modification date | 20200313 | |
UniProtAcc | ||
Context | - 28730955(iTRAQ-based Proteomic Analysis of APPSw,Ind Mice Provides Insights into the Early Changes in Alzheimer's Disease) |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
RAB3A | GO:0001778 | plasma membrane repair | 27325790 |
RAB3A | GO:0006887 | exocytosis | 27325790 |
RAB3A | GO:0060478 | acrosomal vesicle exocytosis | 22248876 |
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Gene structures and expression levels for RAB3A |
Skipped exons in the ROSMAP, MSBB, and Mayo 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. |
Differentially expressed gene analysis across multiple brain tissues between AD and control. |
Tissue type | DEG direction | Base mean exp. | log2FC(AD/control) | P-value | Adj. p-value |
Differentially expressed isoform analysis across multiple brain tissues between AD and control. |
Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
CB | DOWN | ENST00000464076.3 | RAB3A-202:protein_coding:RAB3A | 5.114304e+01 | -9.742296e-01 | 2.061793e-06 | 2.772923e-05 |
TC | DOWN | ENST00000464076.3 | RAB3A-202:protein_coding:RAB3A | 1.273967e+02 | -1.594464e+00 | 4.442262e-12 | 1.281048e-09 |
Landscape of isoform expressions across multiple brain tissues between AD and control. |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for RAB3A |
Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
All exon skipping events in AD cohorts. |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
exon_skip_10724 | chr19 | 18196799:18197660:18198725:18198849:18200327:18200438 | 18198725:18198849 |
exon_skip_118360 | chr19 | 18198725:18198849:18200327:18200445:18202513:18202740 | 18200327:18200445 |
exon_skip_150481 | chr19 | 18198725:18198849:18200327:18200445:18202513:18202587 | 18200327:18200445 |
exon_skip_16952 | chr19 | 18200327:18200445:18202513:18202855:18203896:18204012 | 18202513:18202855 |
exon_skip_183282 | chr19 | 18197616:18197660:18198725:18198849:18200327:18200345 | 18198725:18198849 |
exon_skip_207466 | chr19 | 18197640:18197660:18198725:18198849:18200327:18200445 | 18198725:18198849 |
exon_skip_229066 | chr19 | 18196799:18197660:18198725:18198849:18200327:18200445 | 18198725:18198849 |
exon_skip_254004 | chr19 | 18200427:18200445:18202513:18202855:18203896:18204012 | 18202513:18202855 |
exon_skip_283837 | chr19 | 18197619:18197660:18198725:18198849:18200327:18200445 | 18198725:18198849 |
exon_skip_285602 | chr19 | 18200327:18200445:18202513:18202855:18203896:18203928 | 18202513:18202855 |
exon_skip_84072 | chr19 | 18200409:18200445:18202513:18202855:18203896:18203928 | 18202513:18202855 |
Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
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Open reading frame (ORF) annotation in the exon skipping event for RAB3A |
Open reading frame (ORF) of individual exon skipping events in ROSMAP based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000222256 | 18198725 | 18198849 | Frame-shift |
ENST00000222256 | 18200327 | 18200445 | Frame-shift |
Open reading frame (ORF) of individual exon skipping events in MSBB based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000222256 | 18198725 | 18198849 | Frame-shift |
Open reading frame (ORF) of individual exon skipping events in Mayo based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000222256 | 18198725 | 18198849 | Frame-shift |
ENST00000222256 | 18200327 | 18200445 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for RAB3A |
p-ENSG00000105649_img4.png |
Loci of skipped exons in ROSMAP 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 MSBB 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 Mayo 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 ROSMAP. |
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 MSBB. |
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 Mayo. |
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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3'-UTR located exon skipping events that lost miRNA binding sites in RAB3A |
3'-UTR exon skipping evnets lost miRNA binding. |
Tissue type | ENST | Exon skip start | Exon skip end | microRNA | Binding site by TargetScan | Binding type by TargetScan | Bdinding site by miRanda | Score of miRanda | Energy by miRanda |
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SNVs in the skipped exons for RAB3A |
- Differential PSIs between mutated versus non-mutated samples. |
- Depth of Coverage in the skipped exon of the mutated samples. |
- Sashimi plot in the skipped exon of the mutated samples. |
- Non-synonymous mutations located in the skipped exons. |
Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
- 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 |
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AD stage-associated exon skippint events for RAB3A |
Associated exon skipping events with Braak staging or Clinical Dementia Rating (CDR). |
AD stage info | Cohort | Tissue | SE id | Coefficient | P-value | Chromosome | Strand | E1 start | E1 end | Skipped start | Skipped end | E2 start | E2 end |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for RAB3A |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
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Correlation with RNA binding proteins (RBPs) for RAB3A |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for RAB3A |
Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for RAB3A |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |