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| Open reading frame (ORF) annotation in the exon skipping event |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
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Gene summary for SYNC |
 Gene summary |
| Gene information | Gene symbol | SYNC | Gene ID | 81493 |
| Gene name | syncoilin, intermediate filament protein | |
| Synonyms | SYNC1|SYNCOILIN | |
| Cytomap | 1p35.1 | |
| Type of gene | protein-coding | |
| Description | syncoilinintermediate filament protein syncoilinsyncoilin intermediate filament 1syncoilin-1 | |
| Modification date | 20180519 | |
| UniProtAcc | Q9H7C4 | |
| Context | PubMed: SYNC [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 SYNC 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 SYNC |
| Expression levels of gene isoforms across TCGA. |
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| Expression levels of gene isoforms across GTEx. |
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Exon skipping events with PSIs in TCGA for SYNC |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_24633 | 1 | 33145960:33147461:33149610:33149690:33149858:33149983 | 33149610:33149690 | ENSG00000162520.10 | ENST00000409190.3 |
| exon_skip_24640 | 1 | 33145960:33147461:33149858:33149983:33160465:33161645 | 33149858:33149983 | ENSG00000162520.10 | ENST00000373484.3 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for SYNC |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_24633 | 1 | 33145960:33147461:33149610:33149690:33149858:33149983 | 33149610:33149690 | ENSG00000162520.10 | ENST00000409190.3 |
| exon_skip_24640 | 1 | 33145960:33147461:33149858:33149983:33160465:33161645 | 33149858:33149983 | ENSG00000162520.10 | ENST00000373484.3 |
| PSI values of skipped exons in GTEx. |
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| * Skipped exon sequences. |
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Open reading frame (ORF) annotation in the exon skipping event for SYNC |
| 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 |
| ENST00000409190 | 33149610 | 33149690 | 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 |
| ENST00000409190 | 33149610 | 33149690 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for SYNC |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
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| 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 SYNC |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
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| - 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 |
| BLCA | TCGA-G2-A2EF-01 | exon_skip_24640 | 33149859 | 33149983 | 33149943 | 33149943 | Frame_Shift_Del | C | - | p.R425fs |
| STAD | TCGA-VQ-A8P2-01 | exon_skip_24633 | 33149611 | 33149690 | 33149691 | 33149691 | Splice_Site | C | A | . |
| - 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 |
| HCT15_LARGE_INTESTINE | 33149611 | 33149690 | 33149659 | 33149659 | Missense_Mutation | C | T | p.A464T |
| NCIH1666_LUNG | 33149611 | 33149690 | 33149662 | 33149662 | Missense_Mutation | G | C | p.Q463E |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for SYNC |
| 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 SYNC |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for SYNC |
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RelatedDrugs for SYNC |
| 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 SYNC |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
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