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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 FAM107A |
Gene summary |
Gene information | Gene symbol | FAM107A | Gene ID | 11170 |
Gene name | family with sequence similarity 107 member A | |
Synonyms | DRR1|TU3A | |
Cytomap | 3p14.3-p14.2 | |
Type of gene | protein-coding | |
Description | actin-associated protein FAM107Adown-regulated in renal cell carcinoma 1protein FAM107A | |
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 |
FAM107A | GO:0001558 | regulation of cell growth | 10564580 |
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Gene structures and expression levels for FAM107A |
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 |
STG | UP | 9.592194e+03 | 1.019571e+00 | 4.764419e-07 | 3.423549e-04 |
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 |
PCC | UP | ENST00000465970.1 | FAM107A-205:protein_coding:FAM107A | 5.977161e+00 | 1.014128e+00 | 6.075693e-08 | 3.745907e-05 |
STG | UP | ENST00000394481.5 | FAM107A-202:protein_coding:FAM107A | 3.737267e+02 | 1.039578e+00 | 6.155928e-07 | 3.647151e-04 |
STG | UP | ENST00000360997.7 | FAM107A-201:protein_coding:FAM107A | 8.536494e+03 | 1.045294e+00 | 7.875276e-07 | 4.392207e-04 |
STG | UP | ENST00000474531.5 | FAM107A-206:protein_coding:FAM107A | 6.146848e+01 | 2.023891e+00 | 2.467443e-05 | 4.877930e-03 |
STG | UP | ENST00000464064.5 | FAM107A-204:protein_coding:FAM107A | 8.243860e+01 | 8.618081e-01 | 1.113713e-03 | 4.063540e-02 |
PG | UP | ENST00000649301.1 | FAM107A-208:protein_coding:FAM107A | 3.836357e+02 | 8.082545e-01 | 3.337928e-07 | 3.854786e-05 |
PG | UP | ENST00000474531.5 | FAM107A-206:protein_coding:FAM107A | 1.455331e+02 | 1.473393e+00 | 1.658604e-05 | 7.311153e-04 |
PG | UP | ENST00000447756.2 | FAM107A-203:protein_coding:FAM107A | 5.321719e+00 | 1.674755e+00 | 2.477387e-03 | 2.779686e-02 |
CB | UP | ENST00000447756.2 | FAM107A-203:protein_coding:FAM107A | 1.716010e+00 | 9.964946e-01 | 6.383074e-03 | 2.405182e-02 |
TC | UP | ENST00000474531.5 | FAM107A-206:protein_coding:FAM107A | 4.846980e+02 | 1.290782e+00 | 1.196032e-18 | 2.419432e-15 |
TC | UP | ENST00000464064.5 | FAM107A-204:protein_coding:FAM107A | 4.293362e+02 | 8.502708e-01 | 8.490816e-09 | 7.861000e-07 |
TC | UP | ENST00000465970.1 | FAM107A-205:protein_coding:FAM107A | 1.982904e+01 | 1.003296e+00 | 5.877153e-07 | 2.628211e-05 |
TC | UP | ENST00000447756.2 | FAM107A-203:protein_coding:FAM107A | 2.590264e+00 | 2.045841e+00 | 1.818939e-06 | 6.558478e-05 |
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 FAM107A |
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_119798 | chr3 | 58567340:58567364:58569691:58569865:58577309:58577388 | 58569691:58569865 |
exon_skip_168811 | chr3 | 58569691:58569865:58570326:58570423:58577309:58577388 | 58570326:58570423 |
exon_skip_175144 | chr3 | 58569849:58569865:58589206:58589269:58626971:58627420 | 58589206:58589269 |
exon_skip_197385 | chr3 | 58569691:58569865:58589206:58589269:58626971:58627160 | 58589206:58589269 |
exon_skip_245705 | chr3 | 58567219:58567364:58569691:58569865:58577309:58577388 | 58569691:58569865 |
exon_skip_252361 | chr3 | 58570326:58570423:58577309:58577440:58589206:58589269 | 58577309:58577440 |
exon_skip_257566 | chr3 | 58569691:58569865:58589206:58589269:58627416:58627610 | 58589206:58589269 |
exon_skip_258402 | chr3 | 58569691:58569865:58589206:58589269:58626971:58627420 | 58589206:58589269 |
exon_skip_5631 | chr3 | 58569767:58569865:58589206:58589269:58626971:58627420 | 58589206:58589269 |
exon_skip_77982 | chr3 | 58569757:58569865:58589206:58589269:58627416:58627610 | 58589206:58589269 |
exon_skip_86436 | chr3 | 58569767:58569865:58570326:58570423:58577309:58577388 | 58570326:58570423 |
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 FAM107A |
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 |
ENST00000394481 | 58570326 | 58570423 | 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 |
ENST00000394481 | 58570326 | 58570423 | 3UTR-3UTR |
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Infer the effects of exon skipping event on protein functional features for FAM107A |
p-ENSG00000168309_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 FAM107A |
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 | ENST00000394481 | 58570326 | 58570423 | hsa-miR-4680-3p | chr3:58570403-58570410 | 8mer-1a | chr3:58570390-58570412 | 175.00 | -23.72 |
Mayo | ENST00000394481 | 58570326 | 58570423 | hsa-miR-376c-5p | chr3:58570342-58570349 | 8mer-1a | chr3:58570336-58570358 | 154.00 | -21.76 |
Mayo | ENST00000394481 | 58570326 | 58570423 | hsa-miR-376b-5p | chr3:58570342-58570349 | 8mer-1a | chr3:58570336-58570358 | 154.00 | -21.76 |
Mayo | ENST00000394481 | 58570326 | 58570423 | hsa-miR-146a-3p | chr3:58570405-58570412 | 8mer-1a | chr3:58570390-58570412 | 175.00 | -23.72 |
Mayo | ENST00000394481 | 58570326 | 58570423 | hsa-miR-6833-5p | chr3:58570351-58570358 | 8mer-1a | chr3:58570336-58570358 | 154.00 | -21.76 |
MSBB | ENST00000394481 | 58570326 | 58570423 | hsa-miR-4680-3p | chr3:58570403-58570410 | 8mer-1a | chr3:58570390-58570412 | 175.00 | -23.72 |
MSBB | ENST00000394481 | 58570326 | 58570423 | hsa-miR-376c-5p | chr3:58570342-58570349 | 8mer-1a | chr3:58570336-58570358 | 154.00 | -21.76 |
MSBB | ENST00000394481 | 58570326 | 58570423 | hsa-miR-376b-5p | chr3:58570342-58570349 | 8mer-1a | chr3:58570336-58570358 | 154.00 | -21.76 |
MSBB | ENST00000394481 | 58570326 | 58570423 | hsa-miR-146a-3p | chr3:58570405-58570412 | 8mer-1a | chr3:58570390-58570412 | 175.00 | -23.72 |
MSBB | ENST00000394481 | 58570326 | 58570423 | hsa-miR-6833-5p | chr3:58570351-58570358 | 8mer-1a | chr3:58570336-58570358 | 154.00 | -21.76 |
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SNVs in the skipped exons for FAM107A |
- 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 FAM107A |
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 |
ADstage | MSBB | IFG | exon_skip_168811 | -4.873752e-01 | 8.523980e-03 | chr3 | - | 58569691 | 58569865 | 58570326 | 58570423 | 58577309 | 58577388 |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for FAM107A |
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 FAM107A |
Correlated RBP and related information. |
Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for FAM107A |
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 FAM107A |
Diseases associated with this gene. (DisGeNet 4.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |