|
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 PDE4B |
Gene summary |
Gene information | Gene symbol | PDE4B | Gene ID | 5142 |
Gene name | phosphodiesterase 4B | |
Synonyms | DPDE4|PDEIVB | |
Cytomap | 1p31.3 | |
Type of gene | protein-coding | |
Description | cAMP-specific 3',5'-cyclic phosphodiesterase 4Bdunce-like phosphodiesterase E4phosphodiesterase 4B, cAMP-specific (phosphodiesterase E4 dunce homolog, Drosophila) | |
Modification date | 20200313 | |
UniProtAcc | E9PJ03, | |
Context | - 28956331(Phosphodiesterase-4B as a Therapeutic Target for Cognitive Impairment and Obesity-Related Metabolic Diseases) |
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 PDE4B |
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 PDE4B |
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_128429 | chr1 | 66257793:66257863:66266038:66266087:66332508:66332590 | 66266038:66266087 |
exon_skip_157959 | chr1 | 65992736:65993142:66247460:66247654:66257647:66257683 | 66247460:66247654 |
exon_skip_232156 | chr1 | 66361615:66361793:66363168:66363266:66363407:66363498 | 66363168:66363266 |
exon_skip_288543 | chr1 | 66257647:66257683:66257793:66257863:66266038:66266087 | 66257793:66257863 |
exon_skip_41635 | chr1 | 65913245:65913356:65918597:65918835:66247460:66247544 | 65918597:65918835 |
exon_skip_52178 | chr1 | 65792895:65793248:65913245:65913356:65918597:65918835 | 65913245:65913356 |
exon_skip_59972 | chr1 | 65992736:65993142:66048825:66048890:66247460:66247544 | 66048825:66048890 |
exon_skip_62640 | chr1 | 66266038:66266087:66332508:66332620:66355527:66355620 | 66332508:66332620 |
exon_skip_77163 | chr1 | 66332511:66332620:66355527:66355620:66361615:66361793 | 66355527:66355620 |
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 PDE4B |
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 |
ENST00000329654 | 65918597 | 65918835 | Frame-shift |
ENST00000329654 | 66266038 | 66266087 | 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 |
ENST00000329654 | 65918597 | 65918835 | Frame-shift |
ENST00000329654 | 66266038 | 66266087 | 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 |
ENST00000329654 | 66257793 | 66257863 | Frame-shift |
ENST00000329654 | 66266038 | 66266087 | Frame-shift |
ENST00000329654 | 66332508 | 66332620 | Frame-shift |
ENST00000329654 | 66355527 | 66355620 | Frame-shift |
ENST00000329654 | 66363168 | 66363266 | In-frame |
Top |
Infer the effects of exon skipping event on protein functional features for PDE4B |
p-ENSG00000184588_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 |
ENST00000329654 | 4015 | 736 | 66363168 | 66363266 | 1209 | 1306 | 340 | 373 |
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 |
Q07343 | 340 | 373 | 1 | 736 | Chain | ID=PRO_0000198809;Note=cAMP-specific 3'%2C5'-cyclic phosphodiesterase 4B |
Q07343 | 340 | 373 | 330 | 659 | Domain | Note=PDEase;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU01192 |
Q07343 | 340 | 373 | 335 | 342 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4KP6 |
Q07343 | 340 | 373 | 352 | 358 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4KP6 |
Q07343 | 340 | 373 | 363 | 374 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4KP6 |
Q07343 | 340 | 373 | 343 | 346 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:4KP6 |
Q07343 | 340 | 373 | 359 | 361 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1RO6 |
Top |
3'-UTR located exon skipping events that lost miRNA binding sites in PDE4B |
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 PDE4B |
- 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 PDE4B |
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 PDE4B |
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 PDE4B |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
Top |
RelatedDrugs for PDE4B |
Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Q07343 | approved | DB00201 | Caffeine | small molecule | Q07343 |
Q07343 | approved | DB00277 | Theophylline | small molecule | Q07343 |
Q07343 | approved | DB00651 | Dyphylline | small molecule | Q07343 |
Q07343 | approved|investigational | DB00806 | Pentoxifylline | small molecule | Q07343 |
Q07343 | approved|investigational | DB01088 | Iloprost | small molecule | Q07343 |
Q07343 | approved|investigational | DB01113 | Papaverine | small molecule | Q07343 |
Q07343 | approved | DB01427 | Amrinone | small molecule | Q07343 |
Q07343 | approved | DB01656 | Roflumilast | small molecule | Q07343 |
Q07343 | approved|investigational | DB05219 | Crisaborole | small molecule | Q07343 |
Q07343 | approved|investigational | DB05676 | Apremilast | small molecule | Q07343 |
Top |
RelatedDiseases for PDE4B |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |