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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 LMTK3 |
Gene summary |
Gene information | Gene symbol | LMTK3 | Gene ID | 114783 |
Gene name | lemur tyrosine kinase 3 | |
Synonyms | LMR3|PPP1R101|TYKLM3 | |
Cytomap | 19q13.33 | |
Type of gene | protein-coding | |
Description | serine/threonine-protein kinase LMTK3protein phosphatase 1, regulatory subunit 101 | |
Modification date | 20180519 | |
UniProtAcc | Q96Q04 | |
Context | PubMed: LMTK3 [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 |
LMTK3 | GO:0010923 | negative regulation of phosphatase activity | 19389623 |
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Exon skipping events across known transcript of Ensembl for LMTK3 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 LMTK3 |
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 LMTK3 |
Information of exkip skipping event in TCGA. |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
exon_skip_320289 | 19 | 49013279:49013430:49013715:49013849:49014757:49014870 | 49013715:49013849 | ENSG00000142235.4 | ENST00000270238.3 |
PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for LMTK3 |
Information of exkip skipping event in GTEx |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
exon_skip_320289 | 19 | 49013279:49013430:49013715:49013849:49014757:49014870 | 49013715:49013849 | ENSG00000142235.4 | ENST00000270238.3 |
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 LMTK3 |
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 |
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 |
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Infer the effects of exon skipping event on protein functional features for LMTK3 |
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 LMTK3 |
- 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_320289 | 49013716 | 49013849 | 49013737 | 49013737 | Frame_Shift_Del | T | - | p.K63fs |
LIHC | TCGA-G3-A3CJ-01 | exon_skip_320289 | 49013716 | 49013849 | 49013793 | 49013793 | Frame_Shift_Del | A | - | p.S45fs |
LIHC | TCGA-DD-A1EG-01 | exon_skip_320289 | 49013716 | 49013849 | 49013820 | 49013820 | Frame_Shift_Del | C | - | p.A36fs |
LIHC | TCGA-DD-A1EG-01 | exon_skip_320289 | 49013716 | 49013849 | 49013843 | 49013843 | Frame_Shift_Del | A | - | p.F28fs |
DLBC | TCGA-G8-6907-01 | exon_skip_320289 | 49013716 | 49013849 | 49013809 | 49013809 | Nonsense_Mutation | G | T | p.Y68X |
- 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 |
LN464_CENTRAL_NERVOUS_SYSTEM | 49013716 | 49013849 | 49013826 | 49013826 | Missense_Mutation | G | A | p.P34S |
ACN_AUTONOMIC_GANGLIA | 49013716 | 49013849 | 49013826 | 49013826 | Missense_Mutation | G | A | p.P34S |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for LMTK3 |
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 |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for LMTK3 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for LMTK3 |
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RelatedDrugs for LMTK3 |
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 |
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RelatedDiseases for LMTK3 |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |