|
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 RPL39L |
Gene summary |
Gene information | Gene symbol | RPL39L | Gene ID | 116832 |
Gene name | ribosomal protein L39 like | |
Synonyms | L39-2|RPL39L1 | |
Cytomap | 3q27.3 | |
Type of gene | protein-coding | |
Description | 60S ribosomal protein L39-like60S ribosomal protein L39-2large ribosomal subunit protein eL39-likeribosomal protein L39-like 1ribosomal protein L39-like protein | |
Modification date | 20200313 | |
UniProtAcc | Q96EH5, | |
Context |
Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
Gene | GO ID | GO term | PubMed ID |
Top |
Gene structures and expression levels for RPL39L |
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. |
Top |
Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for RPL39L |
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_46433 | chr3 | 187120948:187121328:187127999:187128062:187139213:187139484 | 187127999:187128062 |
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 RPL39L |
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 |
ENST00000296277 | 187127999 | 187128062 | 3UTR-3UTR |
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 |
ENST00000296277 | 187127999 | 187128062 | 3UTR-3UTR |
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 |
ENST00000296277 | 187127999 | 187128062 | 3UTR-3UTR |
Top |
Infer the effects of exon skipping event on protein functional features for RPL39L |
p-ENSG00000163923_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 |
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 |
Top |
3'-UTR located exon skipping events that lost miRNA binding sites in RPL39L |
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 |
Mayo | ENST00000296277 | 187127999 | 187128062 | hsa-miR-2682-3p | chr3:187128027-187128034 | 8mer-1a | chr3:187128013-187128034 | 145.00 | -14.76 |
Mayo | ENST00000296277 | 187127999 | 187128062 | hsa-miR-4306 | chr3:187128047-187128054 | 8mer-1a | chr3:187128031-187128054 | 156.00 | -20.28 |
Mayo | ENST00000296277 | 187127999 | 187128062 | hsa-miR-6781-3p | chr3:187128027-187128034 | 8mer-1a | chr3:187128013-187128034 | 145.00 | -14.76 |
Mayo | ENST00000296277 | 187127999 | 187128062 | hsa-miR-185-5p | chr3:187128047-187128054 | 8mer-1a | chr3:187128031-187128054 | 156.00 | -20.28 |
Mayo | ENST00000296277 | 187127999 | 187128062 | hsa-miR-12124 | chr3:187128014-187128021 | 8mer-1a | chr3:187128002-187128021 | 158.00 | -16.40 |
Mayo | ENST00000296277 | 187127999 | 187128062 | hsa-miR-12131 | chr3:187128049-187128056 | 8mer-1a | chr3:187128037-187128056 | 154.00 | -17.11 |
Mayo | ENST00000296277 | 187127999 | 187128062 | hsa-miR-4644 | chr3:187128047-187128054 | 8mer-1a | chr3:187128031-187128054 | 156.00 | -20.28 |
Mayo | ENST00000296277 | 187127999 | 187128062 | hsa-miR-3152-5p | chr3:187128029-187128036 | 8mer-1a | chr3:187128015-187128036 | 147.00 | -11.96 |
MSBB | ENST00000296277 | 187127999 | 187128062 | hsa-miR-2682-3p | chr3:187128027-187128034 | 8mer-1a | chr3:187128013-187128034 | 145.00 | -14.76 |
MSBB | ENST00000296277 | 187127999 | 187128062 | hsa-miR-4306 | chr3:187128047-187128054 | 8mer-1a | chr3:187128031-187128054 | 156.00 | -20.28 |
MSBB | ENST00000296277 | 187127999 | 187128062 | hsa-miR-6781-3p | chr3:187128027-187128034 | 8mer-1a | chr3:187128013-187128034 | 145.00 | -14.76 |
MSBB | ENST00000296277 | 187127999 | 187128062 | hsa-miR-185-5p | chr3:187128047-187128054 | 8mer-1a | chr3:187128031-187128054 | 156.00 | -20.28 |
MSBB | ENST00000296277 | 187127999 | 187128062 | hsa-miR-12124 | chr3:187128014-187128021 | 8mer-1a | chr3:187128002-187128021 | 158.00 | -16.40 |
MSBB | ENST00000296277 | 187127999 | 187128062 | hsa-miR-12131 | chr3:187128049-187128056 | 8mer-1a | chr3:187128037-187128056 | 154.00 | -17.11 |
MSBB | ENST00000296277 | 187127999 | 187128062 | hsa-miR-4644 | chr3:187128047-187128054 | 8mer-1a | chr3:187128031-187128054 | 156.00 | -20.28 |
MSBB | ENST00000296277 | 187127999 | 187128062 | hsa-miR-3152-5p | chr3:187128029-187128036 | 8mer-1a | chr3:187128015-187128036 | 147.00 | -11.96 |
ROSMAP | ENST00000296277 | 187127999 | 187128062 | hsa-miR-2682-3p | chr3:187128027-187128034 | 8mer-1a | chr3:187128013-187128034 | 145.00 | -14.76 |
ROSMAP | ENST00000296277 | 187127999 | 187128062 | hsa-miR-4306 | chr3:187128047-187128054 | 8mer-1a | chr3:187128031-187128054 | 156.00 | -20.28 |
ROSMAP | ENST00000296277 | 187127999 | 187128062 | hsa-miR-6781-3p | chr3:187128027-187128034 | 8mer-1a | chr3:187128013-187128034 | 145.00 | -14.76 |
ROSMAP | ENST00000296277 | 187127999 | 187128062 | hsa-miR-185-5p | chr3:187128047-187128054 | 8mer-1a | chr3:187128031-187128054 | 156.00 | -20.28 |
ROSMAP | ENST00000296277 | 187127999 | 187128062 | hsa-miR-12124 | chr3:187128014-187128021 | 8mer-1a | chr3:187128002-187128021 | 158.00 | -16.40 |
ROSMAP | ENST00000296277 | 187127999 | 187128062 | hsa-miR-12131 | chr3:187128049-187128056 | 8mer-1a | chr3:187128037-187128056 | 154.00 | -17.11 |
ROSMAP | ENST00000296277 | 187127999 | 187128062 | hsa-miR-4644 | chr3:187128047-187128054 | 8mer-1a | chr3:187128031-187128054 | 156.00 | -20.28 |
ROSMAP | ENST00000296277 | 187127999 | 187128062 | hsa-miR-3152-5p | chr3:187128029-187128036 | 8mer-1a | chr3:187128015-187128036 | 147.00 | -11.96 |
Top |
SNVs in the skipped exons for RPL39L |
- 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 RPL39L |
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 RPL39L |
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 RPL39L |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
Top |
RelatedDrugs for RPL39L |
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 RPL39L |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |