|
||||||
|
 | |
| |
| |
| 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 PSIP1 |
 Gene summary |
| Gene information | Gene symbol | PSIP1 | Gene ID | 11168 |
| Gene name | PC4 and SFRS1 interacting protein 1 | |
| Synonyms | DFS70|LEDGF|PAIP|PSIP2|p52|p75 | |
| Cytomap | 9p22.3 | |
| Type of gene | protein-coding | |
| Description | PC4 and SFRS1-interacting proteinCLL-associated antigen KW-7dense fine speckles 70 kDa proteinlens epithelium-derived growth factortranscriptional coactivator p52/p75 | |
| 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 |
| PSIP1 | GO:0000395 | mRNA 5'-splice site recognition | 9885563 |
Top |
Gene structures and expression levels for PSIP1 |
| 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. |
 |
ENSG00000164985
| 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 PSIP1 |
| 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_101463 | chr9 | 15486827:15486931:15489986:15490124:15506561:15506637 | 15489986:15490124 |
| exon_skip_102170 | chr9 | 15478477:15478552:15479591:15479687:15486006:15486030 | 15479591:15479687 |
| exon_skip_111467 | chr9 | 15478477:15478552:15479591:15479687:15486006:15486068 | 15479591:15479687 |
| exon_skip_113903 | chr9 | 15469938:15469993:15472632:15472750:15474009:15474201 | 15472632:15472750 |
| exon_skip_145168 | chr9 | 15486882:15486931:15489986:15490124:15506561:15506637 | 15489986:15490124 |
| exon_skip_187551 | chr9 | 15479591:15479687:15486006:15486068:15486827:15486931 | 15486006:15486068 |
| exon_skip_195067 | chr9 | 15469266:15469336:15469938:15469993:15472632:15472750 | 15469938:15469993 |
| exon_skip_198976 | chr9 | 15506561:15506637:15510117:15510329:15510817:15510946 | 15510117:15510329 |
| exon_skip_290470 | chr9 | 15464066:15465580:15466748:15466859:15468630:15468843 | 15466748:15466859 |
| exon_skip_29209 | chr9 | 15506561:15506637:15510117:15510326:15510817:15510946 | 15510117:15510326 |
| 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 PSIP1 |
| 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 |
| ENST00000380738 | 15510117 | 15510326 | 3UTR-3CDS |
| ENST00000380733 | 15466748 | 15466859 | Frame-shift |
| ENST00000380738 | 15466748 | 15466859 | Frame-shift |
| ENST00000380733 | 15479591 | 15479687 | Frame-shift |
| ENST00000380738 | 15479591 | 15479687 | Frame-shift |
| ENST00000380733 | 15489986 | 15490124 | Frame-shift |
| ENST00000380738 | 15489986 | 15490124 | Frame-shift |
| ENST00000380733 | 15486006 | 15486068 | In-frame |
| ENST00000380738 | 15486006 | 15486068 | In-frame |
| 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 |
| ENST00000380738 | 15510117 | 15510326 | 3UTR-3CDS |
| ENST00000380733 | 15479591 | 15479687 | Frame-shift |
| ENST00000380738 | 15479591 | 15479687 | 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 |
| ENST00000380738 | 15510117 | 15510326 | 3UTR-3CDS |
| ENST00000380733 | 15466748 | 15466859 | Frame-shift |
| ENST00000380738 | 15466748 | 15466859 | Frame-shift |
| ENST00000380733 | 15469938 | 15469993 | Frame-shift |
| ENST00000380738 | 15469938 | 15469993 | Frame-shift |
| ENST00000380733 | 15472632 | 15472750 | Frame-shift |
| ENST00000380738 | 15472632 | 15472750 | Frame-shift |
| ENST00000380733 | 15479591 | 15479687 | Frame-shift |
| ENST00000380738 | 15479591 | 15479687 | Frame-shift |
| ENST00000380733 | 15489986 | 15490124 | Frame-shift |
| ENST00000380738 | 15489986 | 15490124 | Frame-shift |
Top |
Infer the effects of exon skipping event on protein functional features for PSIP1 |
p-ENSG00000164985_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 |
| ENST00000380733 | 3408 | 530 | 15486006 | 15486068 | 738 | 799 | 131 | 151 |
| ENST00000380738 | 3381 | 530 | 15486006 | 15486068 | 711 | 772 | 131 | 151 |
| 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 |
| O75475 | 131 | 151 | 1 | 530 | Chain | ID=PRO_0000191708;Note=PC4 and SFRS1-interacting protein |
| O75475 | 131 | 151 | 1 | 530 | Chain | ID=PRO_0000191708;Note=PC4 and SFRS1-interacting protein |
| O75475 | 131 | 151 | 141 | 141 | Modified residue | Note=Phosphothreonine;Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:19690332,ECO:0000244|PubMed:20068231,ECO:0000244|PubMed:21406692;Dbxref=PMID:18669648,PMID:19690332,PMID:20068231,P |
| O75475 | 131 | 151 | 141 | 141 | Modified residue | Note=Phosphothreonine;Ontology_term=ECO:0000244,ECO:0000244,ECO:0000244,ECO:0000244;evidence=ECO:0000244|PubMed:18669648,ECO:0000244|PubMed:19690332,ECO:0000244|PubMed:20068231,ECO:0000244|PubMed:21406692;Dbxref=PMID:18669648,PMID:19690332,PMID:20068231,P |
| O75475 | 131 | 151 | 146 | 156 | Motif | Note=Nuclear localization signal;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:15797927;Dbxref=PMID:15797927 |
| O75475 | 131 | 151 | 146 | 156 | Motif | Note=Nuclear localization signal;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:15797927;Dbxref=PMID:15797927 |
| 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 PSIP1 |
| 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 PSIP1 |
| - 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 PSIP1 |
| 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 PSIP1 |
| 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 PSIP1 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | DAZAP1 | exon_skip_102170 | -5.190147e-01 | 2.404156e-12 |
| CB | CNOT4 | exon_skip_102170 | -5.293346e-01 | 7.314246e-13 |
| CB | TRA2A | exon_skip_102170 | -6.123872e-01 | 9.714598e-18 |
| CB | NUP42 | exon_skip_102170 | 5.147856e-01 | 3.870437e-12 |
Top |
RelatedDrugs for PSIP1 |
| 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 PSIP1 |
| 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)
|