|
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 XPO4 |
Gene summary |
Gene information | Gene symbol | XPO4 | Gene ID | 64328 |
Gene name | exportin 4 | |
Synonyms | exp4 | |
Cytomap | 13q12.11 | |
Type of gene | protein-coding | |
Description | exportin-4 | |
Modification date | 20200313 | |
UniProtAcc | ||
Context | - 29587458(Towards an Integrative Understanding of tRNA Aminoacylation-Diet-Host-Gut Microbiome Interactions in Neurodegeneration) |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
Top |
Gene structures and expression levels for XPO4 |
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 |
Landscape of isoform expressions across multiple brain tissues between AD and control. |
Top |
Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for XPO4 |
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_107731 | chr13 | 20777330:20783919:20786965:20787057:20787481:20787595 | 20786965:20787057 |
exon_skip_126823 | chr13 | 20800831:20800990:20807457:20807634:20808436:20808581 | 20807457:20807634 |
exon_skip_174674 | chr13 | 20800831:20800990:20807457:20807634:20808436:20808573 | 20807457:20807634 |
exon_skip_190750 | chr13 | 20787481:20787598:20788486:20788616:20790462:20790580 | 20788486:20788616 |
exon_skip_259435 | chr13 | 20862717:20862858:20868596:20868701:20902670:20902747 | 20868596:20868701 |
exon_skip_272831 | chr13 | 20843770:20843886:20855627:20855765:20862717:20862858 | 20855627:20855765 |
exon_skip_279095 | chr13 | 20862969:20863123:20868596:20868701:20902670:20902747 | 20868596:20868701 |
exon_skip_59434 | chr13 | 20862717:20862858:20862969:20863123:20868596:20868701 | 20862969:20863123 |
exon_skip_76615 | chr13 | 20790462:20790580:20796076:20796256:20796764:20797057 | 20796076:20796256 |
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 XPO4 |
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 |
ENST00000255305 | 20807457 | 20807634 | Frame-shift |
ENST00000255305 | 20855627 | 20855765 | 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 |
ENST00000255305 | 20807457 | 20807634 | Frame-shift |
ENST00000255305 | 20855627 | 20855765 | 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 |
ENST00000255305 | 20788486 | 20788616 | Frame-shift |
ENST00000255305 | 20796076 | 20796256 | Frame-shift |
ENST00000255305 | 20807457 | 20807634 | Frame-shift |
ENST00000255305 | 20855627 | 20855765 | Frame-shift |
ENST00000255305 | 20786965 | 20787057 | In-frame |
Top |
Infer the effects of exon skipping event on protein functional features for XPO4 |
p-ENSG00000132953_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 |
ENST00000255305 | 9938 | 1151 | 20786965 | 20787057 | 3238 | 3329 | 1055 | 1085 |
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 |
Q9C0E2 | 1055 | 1085 | 1 | 1151 | Chain | ID=PRO_0000204711;Note=Exportin-4 |
Top |
3'-UTR located exon skipping events that lost miRNA binding sites in XPO4 |
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 XPO4 |
- 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 XPO4 |
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 XPO4 |
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 XPO4 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | RBM6 | exon_skip_174674 | -6.503876e-01 | 8.442065e-15 |
CB | CNOT4 | exon_skip_174674 | -5.218282e-01 | 3.631962e-09 |
CB | TRA2A | exon_skip_174674 | -6.006438e-01 | 2.547123e-12 |
CB | HNRNPF | exon_skip_174674 | -4.404328e-01 | 1.176276e-06 |
IFG | A1CF | exon_skip_272831 | -4.193099e-01 | 2.946839e-02 |
IFG | NUP42 | exon_skip_59434 | 4.351494e-01 | 3.796535e-02 |
Top |
RelatedDrugs for XPO4 |
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 XPO4 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |