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| Open reading frame (ORF) annotation in the exon skipping event |
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| 3'-UTR located exon skipping events lost miRNA binding sites |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
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Gene summary for TRAPPC2 |
 Gene summary |
| Gene information | Gene symbol | TRAPPC2 | Gene ID | 6399 |
| Gene name | trafficking protein particle complex 2 | |
| Synonyms | MIP2A|SEDL|SEDT|TRAPPC2P1|TRS20|ZNF547L|hYP38334 | |
| Cytomap | Xp22.2 | |
| Type of gene | protein-coding | |
| Description | trafficking protein particle complex subunit 2sedlin | |
| Modification date | 20200313 | |
| UniProtAcc | ||
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| TRAPPC2 | GO:0006355 | regulation of transcription, DNA-templated | 11134351 |
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Gene structures and expression levels for TRAPPC2 |
| 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. |
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ENSG00000196459
| 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. |
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| Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
| CB | UP | ENST00000519885.5 | TRAPPC2-208:protein_coding:TRAPPC2 | 3.127954e+00 | 1.500611e+00 | 2.808557e-03 | 1.221898e-02 |
| Landscape of isoform expressions across multiple brain tissues between AD and control. |
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Exon skipping events with PSIs in ROSMAP, MSBB, and Mayo for TRAPPC2 |
| Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
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| All exon skipping events in AD cohorts. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
| exon_skip_120062 | chrX | 13720428:13720497:13734044:13734185:13734525:13734545 | 13734044:13734185 |
| exon_skip_129 | chrX | 13719871:13719982:13720428:13720497:13734044:13734185 | 13720428:13720497 |
| exon_skip_144542 | chrX | 13719871:13719982:13720428:13720497:13734044:13734166 | 13720428:13720497 |
| exon_skip_149919 | chrX | 13719871:13719982:13734044:13734185:13734525:13734545 | 13734044:13734185 |
| exon_skip_154758 | chrX | 13719871:13719982:13734050:13734185:13734525:13734545 | 13734050:13734185 |
| 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 |
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Open reading frame (ORF) annotation in the exon skipping event for TRAPPC2 |
| 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 |
| ENST00000380579 | 13734044 | 13734185 | 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 |
| ENST00000380579 | 13734044 | 13734185 | 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 |
| ENST00000380579 | 13734044 | 13734185 | 3UTR-3UTR |
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Infer the effects of exon skipping event on protein functional features for TRAPPC2 |
p-ENSG00000196459_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 |
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3'-UTR located exon skipping events that lost miRNA binding sites in TRAPPC2 |
| 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 | ENST00000380579 | 13734044 | 13734185 | hsa-miR-6079 | chrX:13734117-13734124 | 8mer-1a | chrX:13734110-13734131 | 148.00 | -21.80 |
| Mayo | ENST00000380579 | 13734044 | 13734185 | hsa-miR-488-5p | chrX:13734140-13734147 | 8mer-1a | chrX:13734127-13734147 | 154.00 | -13.36 |
| Mayo | ENST00000380579 | 13734044 | 13734185 | hsa-miR-4504 | chrX:13734159-13734166 | 8mer-1a | chrX:13734153-13734175 | 155.00 | -30.30 |
| Mayo | ENST00000380579 | 13734044 | 13734185 | hsa-miR-3909 | chrX:13734124-13734131 | 8mer-1a | chrX:13734110-13734131 | 148.00 | -21.80 |
| Mayo | ENST00000380579 | 13734044 | 13734185 | hsa-miR-6828-5p | chrX:13734116-13734123 | 8mer-1a | chrX:13734102-13734123 | 159.00 | -23.42 |
| Mayo | ENST00000380579 | 13734044 | 13734185 | hsa-miR-6852-3p | chrX:13734124-13734131 | 8mer-1a | chrX:13734110-13734131 | 148.00 | -21.80 |
| MSBB | ENST00000380579 | 13734044 | 13734185 | hsa-miR-6079 | chrX:13734117-13734124 | 8mer-1a | chrX:13734110-13734131 | 148.00 | -21.80 |
| MSBB | ENST00000380579 | 13734044 | 13734185 | hsa-miR-488-5p | chrX:13734140-13734147 | 8mer-1a | chrX:13734127-13734147 | 154.00 | -13.36 |
| MSBB | ENST00000380579 | 13734044 | 13734185 | hsa-miR-4504 | chrX:13734159-13734166 | 8mer-1a | chrX:13734153-13734175 | 155.00 | -30.30 |
| MSBB | ENST00000380579 | 13734044 | 13734185 | hsa-miR-3909 | chrX:13734124-13734131 | 8mer-1a | chrX:13734110-13734131 | 148.00 | -21.80 |
| MSBB | ENST00000380579 | 13734044 | 13734185 | hsa-miR-6828-5p | chrX:13734116-13734123 | 8mer-1a | chrX:13734102-13734123 | 159.00 | -23.42 |
| MSBB | ENST00000380579 | 13734044 | 13734185 | hsa-miR-6852-3p | chrX:13734124-13734131 | 8mer-1a | chrX:13734110-13734131 | 148.00 | -21.80 |
| ROSMAP | ENST00000380579 | 13734044 | 13734185 | hsa-miR-6079 | chrX:13734117-13734124 | 8mer-1a | chrX:13734110-13734131 | 148.00 | -21.80 |
| ROSMAP | ENST00000380579 | 13734044 | 13734185 | hsa-miR-488-5p | chrX:13734140-13734147 | 8mer-1a | chrX:13734127-13734147 | 154.00 | -13.36 |
| ROSMAP | ENST00000380579 | 13734044 | 13734185 | hsa-miR-4504 | chrX:13734159-13734166 | 8mer-1a | chrX:13734153-13734175 | 155.00 | -30.30 |
| ROSMAP | ENST00000380579 | 13734044 | 13734185 | hsa-miR-3909 | chrX:13734124-13734131 | 8mer-1a | chrX:13734110-13734131 | 148.00 | -21.80 |
| ROSMAP | ENST00000380579 | 13734044 | 13734185 | hsa-miR-6828-5p | chrX:13734116-13734123 | 8mer-1a | chrX:13734102-13734123 | 159.00 | -23.42 |
| ROSMAP | ENST00000380579 | 13734044 | 13734185 | hsa-miR-6852-3p | chrX:13734124-13734131 | 8mer-1a | chrX:13734110-13734131 | 148.00 | -21.80 |
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SNVs in the skipped exons for TRAPPC2 |
| - 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 |
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AD stage-associated exon skippint events for TRAPPC2 |
| 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 |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for TRAPPC2 |
| sQTL information located at the skipped exons. |
| Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
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Correlation with RNA binding proteins (RBPs) for TRAPPC2 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | NUP42 | exon_skip_149919 | 4.588452e-01 | 2.446065e-09 |
| IFG | PCBP2 | exon_skip_149919 | 4.636742e-01 | 1.956596e-02 |
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RelatedDrugs for TRAPPC2 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
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RelatedDiseases for TRAPPC2 |
| 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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