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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 RP9P |
 Gene summary |
| Gene information | Gene symbol | RP9P | Gene ID | 441212 |
| Gene name | RP9 pseudogene | |
| Synonyms | - | |
| Cytomap | 7p14.3 | |
| Type of gene | pseudo | |
| Description | PNAS-13retinitis pigmentosa 9 pseudogene | |
| 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 |
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Gene structures and expression levels for RP9P |
| 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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ENSG00000205763
| 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 |
| CB | DOWN | ENST00000450133.5 | RP9P-202:transcribed_unprocessed_pseudogene:RP9P | 2.093250e+01 | -1.301753e+00 | 1.007272e-02 | 3.497045e-02 |
| 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 RP9P |
| 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_118688 | chr7 | 32918316:32918372:32921339:32921430:32930078:32930108 | 32921339:32921430 |
| exon_skip_151207 | chr7 | 32930078:32930108:32933814:32933896:32942870:32943038 | 32933814:32933896 |
| exon_skip_157303 | chr7 | 32917501:32917542:32918311:32918372:32921339:32921430 | 32918311:32918372 |
| exon_skip_21295 | chr7 | 32916815:32917542:32918311:32918372:32921339:32921430 | 32918311:32918372 |
| exon_skip_40259 | chr7 | 32918311:32918372:32921339:32921430:32930078:32930108 | 32921339:32921430 |
| exon_skip_6291 | chr7 | 32921339:32921430:32928562:32928691:32930078:32930108 | 32928562:32928691 |
| exon_skip_68639 | chr7 | 32921339:32921430:32930078:32930108:32933814:32933896 | 32930078:32930108 |
| exon_skip_81045 | chr7 | 32921415:32921430:32930078:32930108:32933814:32933896 | 32930078:32930108 |
| 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 RP9P |
| 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 |
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Infer the effects of exon skipping event on protein functional features for RP9P |
| 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 RP9P |
| 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 RP9P |
| - 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 RP9P |
| 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 RP9P |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
| TC | exon_skip_21295 | rs12701264 | chr7:32925428 | 7.445034e-05 | 1.291513e-02 |
| TC | exon_skip_21295 | rs1376303 | chr7:32915653 | 2.855769e-04 | 3.770057e-02 |
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Correlation with RNA binding proteins (RBPs) for RP9P |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | FUBP1 | exon_skip_21295 | -4.113910e-01 | 7.165702e-08 |
| CB | NUP42 | exon_skip_21295 | 4.377813e-01 | 7.900345e-09 |
| DLPFC | RBM3 | exon_skip_157303 | 5.331037e-01 | 3.590844e-19 |
| PCC | RBM3 | exon_skip_21295 | 5.203103e-01 | 3.571623e-16 |
| TC | RBM3 | exon_skip_21295 | 5.087194e-01 | 6.502723e-12 |
| TC | KHDRBS2 | exon_skip_21295 | 4.539801e-01 | 1.646562e-09 |
| TC | NUP42 | exon_skip_21295 | 4.155651e-01 | 4.642353e-08 |
| TC | NOVA1 | exon_skip_21295 | 5.034333e-01 | 1.159315e-11 |
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RelatedDrugs for RP9P |
| 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 RP9P |
| 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)
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