|
||||||
|
 | |
| |
| |
| 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 RAB11FIP3 |
 Gene summary |
| Gene information | Gene symbol | RAB11FIP3 | Gene ID | 9727 |
| Gene name | RAB11 family interacting protein 3 | |
| Synonyms | CART1|FIP3-Rab11|Rab11-FIP3 | |
| Cytomap | 16p13.3 | |
| Type of gene | protein-coding | |
| Description | rab11 family-interacting protein 3EF hands-containing Rab-interacting proteinMU-MB-17.148RAB11 family interacting protein 3 (class II)arfophilin-1cytoplasmic adaptor for RAR and TReferin | |
| Modification date | 20200313 | |
| 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 |
| RAB11FIP3 | GO:0032456 | endocytic recycling | 17394487 |
| RAB11FIP3 | GO:0070164 | negative regulation of adiponectin secretion | 24040321 |
Top |
Gene structures and expression levels for RAB11FIP3 |
| 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. |
 |
ENSG00000090565
| 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 | ENST00000450428.5 | RAB11FIP3-205:protein_coding:RAB11FIP3 | 4.819026e+02 | -1.134379e+00 | 3.319311e-10 | 1.751661e-08 |
| TC | DOWN | ENST00000483002.1 | RAB11FIP3-209:retained_intron:RAB11FIP3 | 8.404965e-01 | -1.139250e+00 | 7.890210e-03 | 4.702859e-02 |
| Landscape of isoform expressions across multiple brain tissues between AD and control. |
 |
Top |
Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for RAB11FIP3 |
| 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_115513 | chr16 | 461404:461497:471295:471389:482525:482736 | 471295:471389 |
| exon_skip_161417 | chr16 | 503004:503097:505524:505627:510660:510800 | 505524:505627 |
| exon_skip_207668 | chr16 | 519754:519891:520122:520277:520459:520599 | 520122:520277 |
| exon_skip_216500 | chr16 | 471295:471389:482525:482736:488851:489000 | 482525:482736 |
| exon_skip_277052 | chr16 | 488942:489000:496824:496859:503004:503063 | 496824:496859 |
| exon_skip_293656 | chr16 | 519754:519891:520122:520277:520459:520552 | 520122:520277 |
| exon_skip_293851 | chr16 | 491134:491268:496824:496859:503004:503063 | 496824:496859 |
| exon_skip_5086 | chr16 | 482657:482736:488851:489000:496824:496859 | 488851:489000 |
| exon_skip_73141 | chr16 | 519763:519891:520122:520277:520459:520599 | 520122:520277 |
| exon_skip_93805 | chr16 | 488942:489000:491134:491268:496824:496859 | 491134:491268 |
| 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 |
Top |
Open reading frame (ORF) annotation in the exon skipping event for RAB11FIP3 |
| 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 |
| 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 |
Top |
Infer the effects of exon skipping event on protein functional features for RAB11FIP3 |
p-ENSG00000090565_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 |
Top |
3'-UTR located exon skipping events that lost miRNA binding sites in RAB11FIP3 |
| 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 |
Top |
SNVs in the skipped exons for RAB11FIP3 |
| - 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 |
Top |
AD stage-associated exon skippint events for RAB11FIP3 |
| 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 |
Top |
Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for RAB11FIP3 |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
Top |
Correlation with RNA binding proteins (RBPs) for RAB11FIP3 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | SRSF2 | exon_skip_93805 | 4.209352e-01 | 3.298900e-08 |
| CB | TIA1 | exon_skip_93805 | 5.057675e-01 | 1.045529e-11 |
| CB | MATR3 | exon_skip_93805 | 4.488692e-01 | 2.952786e-09 |
| CB | HNRNPK | exon_skip_93805 | 5.497193e-01 | 6.171146e-14 |
| CB | PCBP2 | exon_skip_93805 | 6.170006e-01 | 4.714939e-18 |
| CB | NUP42 | exon_skip_93805 | 5.014159e-01 | 1.671501e-11 |
| CB | RALYL | exon_skip_93805 | 6.308981e-01 | 4.963486e-19 |
| CB | PTBP3 | exon_skip_93805 | 4.200484e-01 | 3.549067e-08 |
| CB | HNRNPL | exon_skip_93805 | 5.172777e-01 | 2.925787e-12 |
| CB | PABPC1 | exon_skip_93805 | 4.531177e-01 | 2.006158e-09 |
| DLPFC | KHDRBS2 | exon_skip_93805 | 7.537334e-01 | 3.868195e-64 |
| FL | SRSF2 | exon_skip_93805 | 4.856443e-01 | 1.229194e-12 |
| FL | MATR3 | exon_skip_93805 | 4.824462e-01 | 1.808987e-12 |
| FL | HNRNPK | exon_skip_93805 | 4.392407e-01 | 2.301554e-10 |
| FL | KHDRBS3 | exon_skip_93805 | 5.305405e-01 | 3.463782e-15 |
| FL | RBM24 | exon_skip_93805 | 4.656767e-01 | 1.286698e-11 |
| FL | RALYL | exon_skip_93805 | 4.972197e-01 | 2.933770e-13 |
| FL | HNRNPL | exon_skip_93805 | 4.749859e-01 | 4.387442e-12 |
| FL | NOVA1 | exon_skip_93805 | 4.721947e-01 | 6.078495e-12 |
| HCC | TIA1 | exon_skip_93805 | -5.126261e-01 | 1.071196e-19 |
| HCC | IGF2BP2 | exon_skip_93805 | -4.057281e-01 | 3.052907e-12 |
| HCC | TRNAU1AP | exon_skip_93805 | -4.642232e-01 | 5.368097e-16 |
| HCC | RBM47 | exon_skip_93805 | -4.334719e-01 | 6.218840e-14 |
| HCC | KHDRBS3 | exon_skip_93805 | -4.851977e-01 | 1.578226e-17 |
| HCC | PTBP1 | exon_skip_93805 | -6.954860e-01 | 8.694377e-41 |
| HCC | PABPC1 | exon_skip_93805 | -4.440972e-01 | 1.270531e-14 |
| IFG | IGF2BP2 | exon_skip_93805 | -4.400250e-01 | 1.911846e-02 |
| IFG | RBM47 | exon_skip_93805 | -4.391966e-01 | 1.937216e-02 |
| IFG | KHDRBS2 | exon_skip_93805 | 4.700479e-01 | 1.160333e-02 |
| IFG | KHDRBS3 | exon_skip_93805 | 4.033705e-01 | 3.329537e-02 |
| IFG | RALYL | exon_skip_93805 | 4.000642e-01 | 3.490756e-02 |
| IFG | PTBP1 | exon_skip_93805 | -5.500258e-01 | 2.427244e-03 |
| PCC | RALYL | exon_skip_93805 | 4.244737e-01 | 9.034295e-11 |
| PCC | PTBP1 | exon_skip_93805 | -5.900921e-01 | 1.816061e-21 |
| PG | TARDBP | exon_skip_93805 | 4.362108e-01 | 3.802187e-09 |
| PG | SRSF2 | exon_skip_93805 | 4.638947e-01 | 2.721425e-10 |
| PG | TIA1 | exon_skip_93805 | 4.353431e-01 | 4.114310e-09 |
| PG | MATR3 | exon_skip_93805 | 6.151804e-01 | 9.147780e-19 |
| PG | TRNAU1AP | exon_skip_93805 | 4.497003e-01 | 1.083400e-09 |
| PG | HNRNPK | exon_skip_93805 | 4.943293e-01 | 1.126505e-11 |
| PG | KHDRBS2 | exon_skip_93805 | 6.634873e-01 | 1.510744e-22 |
| PG | KHDRBS3 | exon_skip_93805 | 6.942939e-01 | 2.384560e-25 |
| PG | RBM24 | exon_skip_93805 | 6.101907e-01 | 2.067670e-18 |
| PG | NUP42 | exon_skip_93805 | 5.020110e-01 | 4.792704e-12 |
| PG | RALYL | exon_skip_93805 | 6.981362e-01 | 1.007045e-25 |
| PG | HNRNPL | exon_skip_93805 | 5.343948e-01 | 1.022540e-13 |
| PG | NOVA1 | exon_skip_93805 | 6.004235e-01 | 9.794070e-18 |
| STG | IGF2BP2 | exon_skip_93805 | -4.430216e-01 | 2.177131e-05 |
| STG | RALYL | exon_skip_93805 | 4.256970e-01 | 4.873222e-05 |
| TC | SRSF2 | exon_skip_93805 | 5.057655e-01 | 8.993823e-12 |
| TC | MATR3 | exon_skip_93805 | 7.380107e-01 | 8.712878e-29 |
| TC | KHDRBS2 | exon_skip_93805 | 8.477069e-01 | 2.335503e-45 |
| TC | KHDRBS3 | exon_skip_93805 | 7.611078e-01 | 1.635219e-31 |
| TC | RBM24 | exon_skip_93805 | 7.983334e-01 | 1.256143e-36 |
| TC | PPRC1 | exon_skip_93805 | 4.059922e-01 | 1.001893e-07 |
| TC | NUP42 | exon_skip_93805 | 6.955111e-01 | 1.877890e-24 |
| TC | RALYL | exon_skip_93805 | 8.973629e-01 | 5.190787e-58 |
| TC | PTBP1 | exon_skip_93805 | -4.291539e-01 | 1.493690e-08 |
| TC | PTBP3 | exon_skip_93805 | 4.780914e-01 | 1.621994e-10 |
| TC | NOVA1 | exon_skip_93805 | 6.450621e-01 | 3.380928e-20 |
Top |
RelatedDrugs for RAB11FIP3 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
RelatedDiseases for RAB11FIP3 |
| 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)
|