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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 ICMT |
Gene summary |
Gene information | Gene symbol | ICMT | Gene ID | 23463 |
Gene name | isoprenylcysteine carboxyl methyltransferase | |
Synonyms | HSTE14|MST098|MSTP098|PCCMT|PCMT|PPMT | |
Cytomap | 1p36.31 | |
Type of gene | protein-coding | |
Description | protein-S-isoprenylcysteine O-methyltransferaseprenylated protein carboxyl methyltransferaseprenylcysteine carboxyl methyltransferase | |
Modification date | 20180519 | |
UniProtAcc | O60725 | |
Context | PubMed: ICMT [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 |
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Exon skipping events across known transcript of Ensembl for ICMT 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 ICMT |
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 ICMT |
Information of exkip skipping event in TCGA. |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
exon_skip_21239 | 1 | 6284658:6285322:6291961:6292179:6293533:6293703 | 6291961:6292179 | ENSG00000116237.11 | ENST00000489498.1,ENST00000343813.5 |
exon_skip_21241 | 1 | 6284658:6285322:6291961:6292179:6294945:6295030 | 6291961:6292179 | ENSG00000116237.11 | ENST00000474756.1 |
exon_skip_21245 | 1 | 6291961:6292179:6293533:6293703:6294464:6294571 | 6293533:6293703 | ENSG00000116237.11 | ENST00000489498.1 |
exon_skip_21246 | 1 | 6291961:6292179:6293533:6293703:6294945:6295030 | 6293533:6293703 | ENSG00000116237.11 | ENST00000343813.5 |
exon_skip_21251 | 1 | 6291961:6292179:6294945:6295034:6295776:6296000 | 6294945:6295034 | ENSG00000116237.11 | ENST00000474756.1 |
exon_skip_21252 | 1 | 6293568:6293703:6294464:6294571:6294945:6295030 | 6294464:6294571 | ENSG00000116237.11 | ENST00000489498.1 |
PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for ICMT |
Information of exkip skipping event in GTEx |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
exon_skip_21239 | 1 | 6284658:6285322:6291961:6292179:6293533:6293703 | 6291961:6292179 | ENSG00000116237.11 | ENST00000343813.5,ENST00000489498.1 |
exon_skip_21241 | 1 | 6284658:6285322:6291961:6292179:6294945:6295030 | 6291961:6292179 | ENSG00000116237.11 | ENST00000474756.1 |
exon_skip_21245 | 1 | 6291961:6292179:6293533:6293703:6294464:6294571 | 6293533:6293703 | ENSG00000116237.11 | ENST00000489498.1 |
exon_skip_21246 | 1 | 6291961:6292179:6293533:6293703:6294945:6295030 | 6293533:6293703 | ENSG00000116237.11 | ENST00000343813.5 |
exon_skip_21251 | 1 | 6291961:6292179:6294945:6295034:6295776:6296000 | 6294945:6295034 | ENSG00000116237.11 | ENST00000474756.1 |
exon_skip_21252 | 1 | 6293568:6293703:6294464:6294571:6294945:6295030 | 6294464:6294571 | ENSG00000116237.11 | ENST00000489498.1 |
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 ICMT |
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 |
ENST00000343813 | 6291961 | 6292179 | Frame-shift |
ENST00000343813 | 6293533 | 6293703 | 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 |
ENST00000343813 | 6291961 | 6292179 | Frame-shift |
ENST00000343813 | 6293533 | 6293703 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for ICMT |
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 ICMT |
- 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-A39Y-01 | exon_skip_21241 exon_skip_21239 | 6291962 | 6292179 | 6292055 | 6292055 | Frame_Shift_Del | T | - | p.K193fs |
THCA | TCGA-DJ-A2Q0-01 | exon_skip_21241 exon_skip_21239 | 6291962 | 6292179 | 6291980 | 6291980 | Nonsense_Mutation | G | T | p.Y218* |
THCA | TCGA-DJ-A2Q0-01 | exon_skip_21241 exon_skip_21239 | 6291962 | 6292179 | 6291980 | 6291980 | Nonsense_Mutation | G | T | p.Y218X |
LIHC | TCGA-EP-A2KA-01 | exon_skip_21241 exon_skip_21239 | 6291962 | 6292179 | 6292060 | 6292060 | Nonsense_Mutation | C | A | p.E192* |
- 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 |
KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 6291962 | 6292179 | 6292008 | 6292008 | Missense_Mutation | C | T | p.R209Q |
HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 6291962 | 6292179 | 6292021 | 6292021 | Missense_Mutation | A | G | p.Y205H |
SNU1040_LARGE_INTESTINE | 6293534 | 6293703 | 6293588 | 6293588 | Missense_Mutation | C | T | p.V134I |
SW1783_CENTRAL_NERVOUS_SYSTEM | 6293534 | 6293703 | 6293656 | 6293656 | Missense_Mutation | G | A | p.T111I |
NCIH446_LUNG | 6293534 | 6293703 | 6293671 | 6293671 | Missense_Mutation | G | C | p.S106C |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for ICMT |
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 ICMT |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for ICMT |
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RelatedDrugs for ICMT |
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 ICMT |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |