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| Open reading frame (ORF) annotation in the exon skipping event |
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| 3'-UTR located exon skipping events lost miRNA binding sites |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
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Gene summary for ARAF |
 Gene summary |
| Gene information | Gene symbol | ARAF | Gene ID | 369 |
| Gene name | A-Raf proto-oncogene, serine/threonine kinase | |
| Synonyms | A-RAF|ARAF1|PKS2|RAFA1 | |
| Cytomap | Xp11.3 | |
| Type of gene | protein-coding | |
| Description | serine/threonine-protein kinase A-RafA-Raf proto-oncogene serine/threonine-protein kinaseOncogene ARAF1Ras-binding protein DA-Rafproto-oncogene A-Raf-1proto-oncogene Pksv-raf murine sarcoma 3611 viral oncogene homolog 1v-raf murine sarcoma 3611 vir | |
| Modification date | 20200327 | |
| UniProtAcc | ||
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| ARAF | GO:0033138 | positive regulation of peptidyl-serine phosphorylation | 19667065 |
| ARAF | GO:0043066 | negative regulation of apoptotic process | 19667065 |
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Gene structures and expression levels for ARAF |
| 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. |
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ENSG00000078061
| 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. |
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| Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
| STG | UP | ENST00000377045.9 | ARAF-203:protein_coding:ARAF | 4.986416e+01 | 1.235334e+00 | 4.895899e-04 | 2.700416e-02 |
| CB | DOWN | ENST00000545648.2 | SARAF-214:protein_coding:SARAF | 3.123579e+02 | -4.700142e+00 | 1.071829e-18 | 2.761633e-15 |
| CB | DOWN | ENST00000470206.1 | ARAF-205:lncRNA:ARAF | 7.105642e+01 | -1.827019e+00 | 2.516575e-12 | 3.211071e-10 |
| CB | UP | ENST00000518296.5 | SARAF-204:protein_coding:SARAF | 1.223044e+02 | 1.011920e+00 | 3.111067e-12 | 3.810707e-10 |
| TC | DOWN | ENST00000545648.2 | SARAF-214:protein_coding:SARAF | 2.818777e+02 | -3.430915e+00 | 3.805068e-15 | 3.060877e-12 |
| TC | DOWN | ENST00000470206.1 | ARAF-205:lncRNA:ARAF | 2.402679e+01 | -1.991563e+00 | 3.882704e-10 | 6.001003e-08 |
| 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 ARAF |
| Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
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| All exon skipping events in AD cohorts. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
| exon_skip_145381 | chrX | 47565264:47565350:47566639:47566780:47566884:47566911 | 47566639:47566780 |
| exon_skip_267040 | chrX | 47564797:47564899:47564985:47565139:47565252:47565350 | 47564985:47565139 |
| exon_skip_277345 | chrX | 47565252:47565350:47566639:47566780:47566884:47566911 | 47566639:47566780 |
| exon_skip_71540 | chrX | 47566986:47567131:47567230:47567432:47568718:47568894 | 47567230:47567432 |
| 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 ARAF |
| 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 |
| ENST00000377045 | 47564985 | 47565139 | Frame-shift |
| ENST00000377045 | 47566639 | 47566780 | 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 |
| 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 |
| ENST00000377045 | 47566639 | 47566780 | Frame-shift |
| ENST00000377045 | 47567230 | 47567432 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for ARAF |
p-ENSG00000078061_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 ARAF |
| 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 ARAF |
| - 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 ARAF |
| 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 ARAF |
| 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 ARAF |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for ARAF |
| 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 ARAF |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
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