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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 PRDX6 |
Gene summary |
Gene information | Gene symbol | PRDX6 | Gene ID | 9588 |
Gene name | peroxiredoxin 6 | |
Synonyms | 1-Cys|AOP2|HEL-S-128m|NSGPx|PRX|aiPLA2|p29 | |
Cytomap | 1q25.1 | |
Type of gene | protein-coding | |
Description | peroxiredoxin-61-Cys PRX1-Cys peroxiredoxin24 kDa proteinacidic calcium-independent phospholipase A2antioxidant protein 2epididymis secretory sperm binding protein Li 128mliver 2D page spot 40non-selenium glutathione peroxidasered blood cells pag | |
Modification date | 20200313 | |
UniProtAcc | P30041, V9HWC7, | |
Context | - 30097850(PRDX6 Inhibits Neurogenesis Through Downregulation of WDFY1-Mediated TLR4 Signal) |
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 PRDX6 |
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. |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for PRDX6 |
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_112478 | chr1 | 173481326:173481482:173485361:173485507:173486255:173486401 | 173485361:173485507 |
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 PRDX6 |
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 |
ENST00000340385 | 173485361 | 173485507 | 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 |
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 |
ENST00000340385 | 173485361 | 173485507 | In-frame |
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Infer the effects of exon skipping event on protein functional features for PRDX6 |
p-ENSG00000117592_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 |
ENST00000340385 | 1768 | 224 | 173485361 | 173485507 | 386 | 531 | 84 | 133 |
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 |
ENST00000340385 | 1768 | 224 | 173485361 | 173485507 | 386 | 531 | 84 | 133 |
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 |
P30041 | 84 | 133 | 102 | 104 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1PRX |
P30041 | 84 | 133 | 117 | 122 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5B6M |
P30041 | 84 | 133 | 124 | 126 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1PRX |
P30041 | 84 | 133 | 128 | 130 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5B6M |
P30041 | 84 | 133 | 133 | 137 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1PRX |
P30041 | 84 | 133 | 2 | 224 | Chain | ID=PRO_0000135102;Note=Peroxiredoxin-6 |
P30041 | 84 | 133 | 5 | 169 | Domain | Note=Thioredoxin;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00691 |
P30041 | 84 | 133 | 76 | 89 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1PRX |
P30041 | 84 | 133 | 109 | 113 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1PRX |
P30041 | 84 | 133 | 89 | 89 | Modified residue | Note=Phosphotyrosine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:15592455;Dbxref=PMID:15592455 |
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 |
P30041 | 84 | 133 | 102 | 104 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1PRX |
P30041 | 84 | 133 | 117 | 122 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5B6M |
P30041 | 84 | 133 | 124 | 126 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1PRX |
P30041 | 84 | 133 | 128 | 130 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5B6M |
P30041 | 84 | 133 | 133 | 137 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1PRX |
P30041 | 84 | 133 | 2 | 224 | Chain | ID=PRO_0000135102;Note=Peroxiredoxin-6 |
P30041 | 84 | 133 | 5 | 169 | Domain | Note=Thioredoxin;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00691 |
P30041 | 84 | 133 | 76 | 89 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1PRX |
P30041 | 84 | 133 | 109 | 113 | Helix | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1PRX |
P30041 | 84 | 133 | 89 | 89 | Modified residue | Note=Phosphotyrosine;Ontology_term=ECO:0000244;evidence=ECO:0000244|PubMed:15592455;Dbxref=PMID:15592455 |
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3'-UTR located exon skipping events that lost miRNA binding sites in PRDX6 |
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 PRDX6 |
- 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 PRDX6 |
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 PRDX6 |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
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Correlation with RNA binding proteins (RBPs) for PRDX6 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for PRDX6 |
Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
P30041 | approved|investigational | DB02325 | Isopropyl alcohol | small molecule | P30041 |
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RelatedDiseases for PRDX6 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |