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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 GLIS3 |
Gene summary |
Gene information | Gene symbol | GLIS3 | Gene ID | 169792 |
Gene name | GLIS family zinc finger 3 | |
Synonyms | NDH|ZNF515 | |
Cytomap | 9p24.2 | |
Type of gene | protein-coding | |
Description | zinc finger protein GLIS3GLI-similar 3OK/KNS-cl.4zinc finger protein 515 | |
Modification date | 20200313 | |
UniProtAcc | A0A0S2Z649, A0A0S2Z689, A0A0S2Z6Q5, | |
Context | - 28911974(Molecular genetics of the transcription factor GLIS3 identifies its dual function in beta cells and neurons) |
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 GLIS3 |
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 |
STG | UP | ENST00000467497.6 | GLIS3-208:retained_intron:GLIS3 | 9.215360e+00 | 9.141050e-01 | 3.113768e-04 | 2.108902e-02 |
PG | UP | ENST00000491889.5 | GLIS3-217:nonsense_mediated_decay:GLIS3 | 1.278014e+01 | 9.147304e-01 | 8.801535e-05 | 2.498229e-03 |
PG | UP | ENST00000381971.8 | GLIS3-202:protein_coding:GLIS3 | 9.262871e+01 | 1.015090e+00 | 3.283023e-03 | 3.395661e-02 |
CB | UP | ENST00000491889.5 | GLIS3-217:nonsense_mediated_decay:GLIS3 | 4.540890e+00 | 1.028073e+00 | 1.320712e-03 | 6.525755e-03 |
TC | UP | ENST00000491889.5 | GLIS3-217:nonsense_mediated_decay:GLIS3 | 6.429014e+00 | 1.069211e+00 | 2.900235e-06 | 9.629400e-05 |
TC | UP | ENST00000381971.8 | GLIS3-202:protein_coding:GLIS3 | 1.607549e+02 | 8.976313e-01 | 1.229728e-05 | 3.051162e-04 |
TC | UP | ENST00000490709.1 | GLIS3-216:lncRNA:GLIS3 | 3.314115e+00 | 8.129897e-01 | 1.695905e-03 | 1.478058e-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 GLIS3 |
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_148322 | chr9 | 4125734:4125941:4286038:4286523:4299421:4299594 | 4286038:4286523 |
exon_skip_181502 | chr9 | 3932360:3932470:3932795:3932918:3937028:3937189 | 3932795:3932918 |
exon_skip_215797 | chr9 | 3827683:3828408:3829310:3829492:3856009:3856184 | 3829310:3829492 |
exon_skip_251765 | chr9 | 4118745:4118881:4286038:4286523:4299421:4299594 | 4286038:4286523 |
exon_skip_44286 | chr9 | 4118745:4118881:4125734:4125941:4286038:4286523 | 4125734:4125941 |
exon_skip_60392 | chr9 | 3856009:3856184:3879427:3879595:3898691:3898835 | 3879427:3879595 |
exon_skip_7597 | chr9 | 4118745:4118881:4125734:4125941:4144839:4145193 | 4125734:4125941 |
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 GLIS3 |
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 |
ENST00000324333 | 3829310 | 3829492 | 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 |
ENST00000324333 | 3879427 | 3879595 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for GLIS3 |
p-ENSG00000107249_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 |
ENST00000324333 | 6684 | 775 | 3829310 | 3829492 | 2203 | 2384 | 669 | 730 |
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 |
Q8NEA6 | 669 | 730 | 1 | 775 | Chain | ID=PRO_0000047211;Note=Zinc finger protein GLIS3 |
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 GLIS3 |
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 GLIS3 |
- 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 GLIS3 |
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 GLIS3 |
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 GLIS3 |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
PCC | PTBP1 | exon_skip_181502 | -4.186223e-01 | 4.503419e-09 |
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RelatedDrugs for GLIS3 |
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 GLIS3 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |