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Open reading frame (ORF) annotation in the exon skipping event | |
3'-UTR located exon skipping events lost miRNA binding sites | |
Splicing Quantitative Trait Loci (sQTLs) in the skipped exons | |
Gene summary for TFG |
Gene summary |
Gene information | Gene symbol | TFG | Gene ID | 10342 |
Gene name | trafficking from ER to golgi regulator | |
Synonyms | HMSNP|SPG57|TF6|TRKT3 | |
Cytomap | 3q12.2 | |
Type of gene | protein-coding | |
Description | protein TFGTRK-fusedTRK-fused gene proteinTRKT3 oncogene | |
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 |
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Gene structures and expression levels for TFG |
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. |
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. |
Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
CB | DOWN | ENST00000476228.5 | TFG-204:protein_coding:TFG | 2.845610e+02 | -1.688226e+00 | 4.951375e-04 | 2.855829e-03 |
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 TFG |
Landscape of individual exon skipping event across AD tissues and controls (PSI heatmap). |
All exon skipping events in AD cohorts. |
Exon skip ID | chr | Exons involved in exon skipping | Skipped exon |
exon_skip_109009 | chr3 | 100709472:100709721:100710971:100711068:100713643:100713869 | 100710971:100711068 |
exon_skip_125497 | chr3 | 100744833:100744931:100747414:100747454:100748149:100748158 | 100747414:100747454 |
exon_skip_132400 | chr3 | 100744833:100744931:100747414:100747454:100748149:100748312 | 100747414:100747454 |
exon_skip_135893 | chr3 | 100744833:100744931:100747414:100747454:100748149:100748531 | 100747414:100747454 |
exon_skip_258626 | chr3 | 100744838:100744931:100747414:100747454:100748149:100748531 | 100747414:100747454 |
exon_skip_33689 | chr3 | 100709606:100709721:100710971:100711068:100713643:100713869 | 100710971:100711068 |
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 TFG |
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 |
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 |
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 |
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Infer the effects of exon skipping event on protein functional features for TFG |
p-ENSG00000114354_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 TFG |
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 |
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SNVs in the skipped exons for TFG |
- 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 TFG |
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 TFG |
sQTL information located at the skipped exons. |
Tissue type | Exon skip ID | SNP id | Location | P-value | FDR |
PCC | exon_skip_258626 | rs9873555 | chr3:100777836 | 3.729726e-04 | 4.832932e-02 |
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Correlation with RNA binding proteins (RBPs) for TFG |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
CB | SRSF2 | exon_skip_258626 | 4.979280e-01 | 2.423112e-11 |
CB | RALYL | exon_skip_258626 | 4.710346e-01 | 3.703201e-10 |
CB | SRSF9 | exon_skip_258626 | 4.803277e-01 | 1.482340e-10 |
DLPFC | SRSF2 | exon_skip_132400 | 5.788333e-01 | 5.883973e-23 |
DLPFC | MBNL1 | exon_skip_132400 | 4.955463e-01 | 2.440953e-16 |
DLPFC | RALYL | exon_skip_132400 | 6.847895e-01 | 1.070783e-34 |
DLPFC | SRSF9 | exon_skip_132400 | 5.382090e-01 | 1.684977e-19 |
DLPFC | SRSF5 | exon_skip_132400 | 5.616571e-01 | 1.946481e-21 |
PCC | RALYL | exon_skip_258626 | 4.324360e-01 | 3.659882e-11 |
TC | SRSF2 | exon_skip_125497 | 5.073644e-01 | 7.548747e-12 |
TC | RALYL | exon_skip_125497 | 8.551743e-01 | 5.999025e-47 |
TC | SRSF5 | exon_skip_125497 | 4.251489e-01 | 2.097365e-08 |
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RelatedDrugs for TFG |
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 TFG |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |