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Open reading frame (ORF) annotation in the exon skipping event | |
Splicing Quantitative Trait Loci (sQTLs) in the skipped exons | |
Splicing Quantitative Trait Methylation (sQTM) in the skipped exon | |
Gene summary for GPX3 |
Gene summary |
Gene information | Gene symbol | GPX3 | Gene ID | 2878 |
Gene name | glutathione peroxidase 3 | |
Synonyms | GPx-P|GSHPx-3|GSHPx-P | |
Cytomap | 5q33.1 | |
Type of gene | protein-coding | |
Description | glutathione peroxidase 3GPx-3extracellular glutathione peroxidaseglutathione peroxidase 3 (plasma)plasma glutathione peroxidase | |
Modification date | 20180519 | |
UniProtAcc | P22352 | |
Context | PubMed: GPX3 [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract] - Title (PMID) |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
GPX3 | GO:0051289 | protein homotetramerization | 3693360 |
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Exon skipping events across known transcript of Ensembl for GPX3 from UCSC genome browser |
Skipped exons in TCGA and GTEx 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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Gene isoform structures and expression levels for GPX3 |
Expression levels of gene isoforms across TCGA. |
Expression levels of gene isoforms across GTEx. |
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Exon skipping events with PSIs in TCGA for GPX3 |
Information of exkip skipping event in TCGA. |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
exon_skip_438867 | 5 | 150400166:150400302:150400388:150400415:150404900:150405053 | 150400388:150400415 | ENSG00000211445.7 | ENST00000521650.1 |
exon_skip_438873 | 5 | 150400166:150400302:150400388:150400814:150404900:150405053 | 150400388:150400814 | ENSG00000211445.7 | ENST00000519214.1 |
exon_skip_438891 | 5 | 150400166:150400302:150406460:150406578:150406992:150407022 | 150406460:150406578 | ENSG00000211445.7 | ENST00000517973.1 |
exon_skip_438911 | 5 | 150404904:150405054:150406460:150406578:150406992:150407022 | 150406460:150406578 | ENSG00000211445.7 | ENST00000388825.4,ENST00000521650.1 |
exon_skip_438915 | 5 | 150406526:150406578:150406992:150407092:150407469:150407727 | 150406992:150407092 | ENSG00000211445.7 | ENST00000388825.4,ENST00000517973.1 |
PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for GPX3 |
Information of exkip skipping event in GTEx |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
exon_skip_438867 | 5 | 150400166:150400302:150400388:150400415:150404900:150405053 | 150400388:150400415 | ENSG00000211445.7 | ENST00000521650.1 |
exon_skip_438873 | 5 | 150400166:150400302:150400388:150400814:150404900:150405053 | 150400388:150400814 | ENSG00000211445.7 | ENST00000519214.1 |
exon_skip_438891 | 5 | 150400166:150400302:150406460:150406578:150406992:150407022 | 150406460:150406578 | ENSG00000211445.7 | ENST00000517973.1 |
exon_skip_438911 | 5 | 150404904:150405054:150406460:150406578:150406992:150407022 | 150406460:150406578 | ENSG00000211445.7 | ENST00000388825.4,ENST00000521650.1 |
exon_skip_438915 | 5 | 150406526:150406578:150406992:150407092:150407469:150407727 | 150406992:150407092 | ENSG00000211445.7 | ENST00000388825.4,ENST00000517973.1 |
PSI values of skipped exons in GTEx. |
* Skipped exon sequences. |
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Open reading frame (ORF) annotation in the exon skipping event for GPX3 |
Open reading frame (ORF) of individual exon skipping events in TCGA based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000388825 | 150406460 | 150406578 | Frame-shift |
ENST00000388825 | 150406992 | 150407092 | Frame-shift |
Open reading frame (ORF) of individual exon skipping events in GTEx based on the Ensembl gene structure combined from isoforms. |
ENST | Start of skipped exon | End of skipped exon | ORF |
ENST00000388825 | 150406460 | 150406578 | Frame-shift |
ENST00000388825 | 150406992 | 150407092 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for GPX3 |
Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
Loci of skipped exons in TCGA 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 GTEx 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 TCGA. |
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 GTEx. |
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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SNVs in the skipped exons for GPX3 |
- Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
- Differential PSIs between mutated versus non-mutated samples. |
- Non-synonymous mutations located in the skipped exons in TCGA. |
Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
LIHC | TCGA-DD-A3A0-01 | exon_skip_438915 | 150406993 | 150407092 | 150407042 | 150407042 | Frame_Shift_Del | A | - | p.K137fs |
LIHC | TCGA-DD-A1EG-01 | exon_skip_438915 | 150406993 | 150407092 | 150407045 | 150407045 | Frame_Shift_Del | G | - | p.G138fs |
BLCA | TCGA-BL-A3JM-01 | exon_skip_438915 | 150406993 | 150407092 | 150407000 | 150407000 | Nonsense_Mutation | C | T | p.R123* |
- Depth of coverage in the three exons composing exon skipping event |
Depth of coverage in three exons | Mutation description |
- 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 |
FADU_UPPER_AERODIGESTIVE_TRACT | 150406461 | 150406578 | 150406496 | 150406496 | Missense_Mutation | G | A | p.G93S |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for GPX3 |
sQTL information located at the skipped exons. |
Exon skip ID | Chromosome | Three exons | Skippped exon | ENST | Cancer type | SNP id | Location | DNA change (ref/var) | P-value |
exon_skip_438873 | 5 | 150400166:150400302:150400388:150400814:150404900:150405053 | 150400388:150400814 | ENST00000519214.1 | LGG | rs870406 | chr5:150400601 | G/A | 6.23e-04 |
exon_skip_438873 | 5 | 150400166:150400302:150400388:150400814:150404900:150405053 | 150400388:150400814 | ENST00000519214.1 | LUAD | rs870406 | chr5:150400601 | G/A | 4.26e-07 |
exon_skip_438873 | 5 | 150400166:150400302:150400388:150400814:150404900:150405053 | 150400388:150400814 | ENST00000519214.1 | LIHC | rs870406 | chr5:150400601 | G/A | 7.95e-07 |
exon_skip_438873 | 5 | 150400166:150400302:150400388:150400814:150404900:150405053 | 150400388:150400814 | ENST00000519214.1 | PCPG | rs870406 | chr5:150400601 | G/A | 2.06e-06 |
exon_skip_438873 | 5 | 150400166:150400302:150400388:150400814:150404900:150405053 | 150400388:150400814 | ENST00000519214.1 | PRAD | rs870406 | chr5:150400601 | G/A | 6.80e-07 |
exon_skip_438873 | 5 | 150400166:150400302:150400388:150400814:150404900:150405053 | 150400388:150400814 | ENST00000519214.1 | SARC | rs870406 | chr5:150400601 | G/A | 1.01e-03 |
exon_skip_438873 | 5 | 150400166:150400302:150400388:150400814:150404900:150405053 | 150400388:150400814 | ENST00000519214.1 | TGCT | rs870406 | chr5:150400601 | G/A | 3.36e-04 |
exon_skip_438873 | 5 | 150400166:150400302:150400388:150400814:150404900:150405053 | 150400388:150400814 | ENST00000519214.1 | THCA | rs870406 | chr5:150400601 | G/A | 2.63e-17 |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for GPX3 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for GPX3 |
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RelatedDrugs for GPX3 |
Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
P22352 | DB00143 | Glutathione | Glutathione peroxidase 3 | small molecule | approved|investigational|nutraceutical |
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RelatedDiseases for GPX3 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |
GPX3 | C0014175 | Endometriosis | 2 | CTD_human |
GPX3 | C0024121 | Lung Neoplasms | 2 | CTD_human |
GPX3 | C0028754 | Obesity | 2 | CTD_human |
GPX3 | C0001418 | Adenocarcinoma | 1 | CTD_human |
GPX3 | C0015624 | Fanconi Syndrome | 1 | CTD_human |
GPX3 | C0021655 | Insulin Resistance | 1 | CTD_human |
GPX3 | C0023903 | Liver neoplasms | 1 | CTD_human |
GPX3 | C0033578 | Prostatic Neoplasms | 1 | CTD_human |
GPX3 | C0524851 | Neurodegenerative Disorders | 1 | CTD_human |