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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 TRAPPC2L |
 Gene summary |
| Gene information | Gene symbol | TRAPPC2L | Gene ID | 51693 |
| Gene name | trafficking protein particle complex 2 like | |
| Synonyms | HSPC176 | |
| Cytomap | 16q24.3 | |
| Type of gene | protein-coding | |
| Description | trafficking protein particle complex subunit 2-like proteinhematopoietic stem/progenitor cells 176 | |
| Modification date | 20180522 | |
| UniProtAcc | Q9UL33 | |
| Context | PubMed: TRAPPC2L [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 |
| TRAPPC2L | GO:0051259 | protein complex oligomerization | 21525244 |
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Exon skipping events across known transcript of Ensembl for TRAPPC2L 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 TRAPPC2L |
| 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 TRAPPC2L |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_139384 | 16 | 88923575:88923591:88925026:88925197:88926300:88926380 | 88925026:88925197 | ENSG00000167515.6 | ENST00000567312.1 |
| exon_skip_139390 | 16 | 88925049:88925197:88925752:88925851:88925980:88926158 | 88925752:88925851 | ENSG00000167515.6 | ENST00000564365.1 |
| exon_skip_139393 | 16 | 88925049:88925197:88925752:88926158:88926300:88926380 | 88925752:88926158 | ENSG00000167515.6 | ENST00000564404.1,ENST00000565205.1 |
| exon_skip_139395 | 16 | 88925049:88925197:88925980:88926158:88926300:88926380 | 88925980:88926158 | ENSG00000167515.6 | ENST00000561840.1 |
| exon_skip_139401 | 16 | 88925752:88925851:88925980:88926158:88926300:88926380 | 88925980:88926158 | ENSG00000167515.6 | ENST00000564365.1 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for TRAPPC2L |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_139390 | 16 | 88925049:88925197:88925752:88925851:88925980:88926158 | 88925752:88925851 | ENSG00000167515.6 | ENST00000564365.1 |
| exon_skip_139393 | 16 | 88925049:88925197:88925752:88926158:88926300:88926380 | 88925752:88926158 | ENSG00000167515.6 | ENST00000565205.1,ENST00000564404.1 |
| exon_skip_139395 | 16 | 88925049:88925197:88925980:88926158:88926300:88926380 | 88925980:88926158 | ENSG00000167515.6 | ENST00000561840.1 |
| exon_skip_139401 | 16 | 88925752:88925851:88925980:88926158:88926300:88926380 | 88925980:88926158 | ENSG00000167515.6 | ENST00000564365.1 |
| 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 TRAPPC2L |
| 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 TRAPPC2L |
| 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 TRAPPC2L |
| - 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. |
TRAPPC2L_BRCA_exon_skip_139393_psi_boxplot.png |
TRAPPC2L_HNSC_exon_skip_139384_psi_boxplot.png |
| - 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 |
| HNSC | TCGA-BA-5152-01 | exon_skip_139384 | 88925027 | 88925197 | 88925146 | 88925146 | Nonsense_Mutation | C | A | p.S12* |
| BRCA | TCGA-A2-A0YD-01 | exon_skip_139393 | 88925753 | 88926158 | 88926159 | 88926159 | Splice_Site | G | A | e3+1 |
| BRCA | TCGA-A2-A0YD-01 | exon_skip_139401 exon_skip_139395 | 88925981 | 88926158 | 88926159 | 88926159 | Splice_Site | G | A | e3+1 |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
 | Sample: TCGA-A2-A0YD-01 |
| Cancer type: BRCA | |
| ESID: exon_skip_139395 | |
| Skipped exon start: 88925981 | |
| Skipped exon end: 88926158 | |
| Mutation start: 88926159 | |
| Mutation end: 88926159 | |
| Mutation type: Splice_Site | |
| Reference seq: G | |
| Mutation seq: A | |
| AAchange: e3+1 | |
| Sample: TCGA-A2-A0YD-01 |
| Cancer type: BRCA | |
| ESID: exon_skip_139393 | |
| Skipped exon start: 88925753 | |
| Skipped exon end: 88926158 | |
| Mutation start: 88926159 | |
| Mutation end: 88926159 | |
| Mutation type: Splice_Site | |
| Reference seq: G | |
| Mutation seq: A | |
| AAchange: e3+1 | |
exon_skip_139393_BRCA_TCGA-A2-A0YD-01.png | |
exon_skip_139395_BRCA_TCGA-A2-A0YD-01.png | |
 | Sample: TCGA-A2-A0YD-01 |
| Cancer type: BRCA | |
| ESID: exon_skip_139395 | |
| Skipped exon start: 88925981 | |
| Skipped exon end: 88926158 | |
| Mutation start: 88926159 | |
| Mutation end: 88926159 | |
| Mutation type: Splice_Site | |
| Reference seq: G | |
| Mutation seq: A | |
| AAchange: e3+1 | |
| Sample: TCGA-A2-A0YD-01 |
| Cancer type: BRCA | |
| ESID: exon_skip_139393 | |
| Skipped exon start: 88925753 | |
| Skipped exon end: 88926158 | |
| Mutation start: 88926159 | |
| Mutation end: 88926159 | |
| Mutation type: Splice_Site | |
| Reference seq: G | |
| Mutation seq: A | |
| AAchange: e3+1 | |
| exon_skip_139393_BRCA_TCGA-A2-A0YD-01.png | |
| exon_skip_139395_BRCA_TCGA-A2-A0YD-01.png | |
 | Sample: TCGA-BA-5152-01 |
| Cancer type: HNSC | |
| ESID: exon_skip_139384 | |
| Skipped exon start: 88925027 | |
| Skipped exon end: 88925197 | |
| Mutation start: 88925146 | |
| Mutation end: 88925146 | |
| Mutation type: Nonsense_Mutation | |
| Reference seq: C | |
| Mutation seq: A | |
| AAchange: p.S12* | |
exon_skip_139384_HNSC_TCGA-BA-5152-01.png | |
| - 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 |
| SJSA1_BONE | 88925027 | 88925197 | 88925051 | 88925051 | Frame_Shift_Del | A | - | p.T20fs |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for TRAPPC2L |
| 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 |
| exon_skip_139401 | 16 | 88925752:88925851:88925980:88926158:88926300:88926380 | 88925980:88926158 | ENST00000564365.1 | KIRP | rs3784873 | chr16:88925989 | C/T | 1.46e-04 |
| exon_skip_139401 | 16 | 88925752:88925851:88925980:88926158:88926300:88926380 | 88925980:88926158 | ENST00000564365.1 | PRAD | rs3784873 | chr16:88925989 | C/T | 2.30e-03 |
| exon_skip_139393 | 16 | 88925049:88925197:88925752:88926158:88926300:88926380 | 88925752:88926158 | ENST00000564404.1,ENST00000565205.1 | KIRP | rs3784873 | chr16:88925989 | C/T | 1.46e-04 |
| exon_skip_139393 | 16 | 88925049:88925197:88925752:88926158:88926300:88926380 | 88925752:88926158 | ENST00000564404.1,ENST00000565205.1 | PRAD | rs3784873 | chr16:88925989 | C/T | 2.30e-03 |
| exon_skip_139395 | 16 | 88925049:88925197:88925980:88926158:88926300:88926380 | 88925980:88926158 | ENST00000561840.1 | KIRP | rs3784873 | chr16:88925989 | C/T | 1.46e-04 |
| exon_skip_139395 | 16 | 88925049:88925197:88925980:88926158:88926300:88926380 | 88925980:88926158 | ENST00000561840.1 | PRAD | rs3784873 | chr16:88925989 | C/T | 2.30e-03 |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for TRAPPC2L |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for TRAPPC2L |
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RelatedDrugs for TRAPPC2L |
| 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 TRAPPC2L |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
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