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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 SYTL4 |
 Gene summary |
| Gene information | Gene symbol | SYTL4 | Gene ID | 94121 |
| Gene name | synaptotagmin like 4 | |
| Synonyms | SLP4 | |
| Cytomap | Xq22.1 | |
| Type of gene | protein-coding | |
| Description | synaptotagmin-like protein 4exophilin-2granuphilin-a | |
| Modification date | 20200322 | |
| UniProtAcc | A0A024RCF8, Q96C24, | |
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| SYTL4 | GO:0001778 | plasma membrane repair | 27325790 |
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Gene structures and expression levels for SYTL4 |
| 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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ENSG00000102362
| 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 |
| PG | UP | ENST00000491326.1 | SYTL4-205:lncRNA:SYTL4 | 2.593315e+00 | 9.600049e-01 | 1.912497e-05 | 8.117749e-04 |
| PG | UP | ENST00000372989.5 | SYTL4-204:protein_coding:SYTL4 | 1.570976e+02 | 8.288360e-01 | 2.088093e-05 | 8.635316e-04 |
| TC | UP | ENST00000491326.1 | SYTL4-205:lncRNA:SYTL4 | 1.716441e+00 | 1.390141e+00 | 1.273357e-06 | 4.870941e-05 |
| TC | UP | ENST00000372989.5 | SYTL4-204:protein_coding:SYTL4 | 3.222426e+02 | 9.569648e-01 | 2.472903e-06 | 8.436573e-05 |
| TC | UP | ENST00000263033.9 | SYTL4-201:protein_coding:SYTL4 | 2.664776e+01 | 1.195120e+00 | 1.338637e-03 | 1.233587e-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 SYTL4 |
| 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_249297 | chrX | 100701220:100701329:100701458:100701673:100701928:100702107 | 100701458:100701673 |
| exon_skip_69041 | chrX | 100686679:100686781:100687067:100687245:100688351:100688443 | 100687067:100687245 |
| exon_skip_70717 | chrX | 100675897:100676176:100678391:100678599:100679313:100679412 | 100678391:100678599 |
| exon_skip_80775 | chrX | 100701928:100702107:100703093:100703185:100704811:100704886 | 100703093:100703185 |
| exon_skip_81810 | chrX | 100678391:100678599:100679313:100679412:100681227:100681335 | 100679313:100679412 |
| 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 SYTL4 |
| 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 |
| ENST00000372989 | 100703093 | 100703185 | 3UTR-3UTR |
| ENST00000263033 | 100678391 | 100678599 | Frame-shift |
| ENST00000276141 | 100678391 | 100678599 | Frame-shift |
| ENST00000372989 | 100678391 | 100678599 | Frame-shift |
| ENST00000263033 | 100679313 | 100679412 | Frame-shift |
| ENST00000276141 | 100679313 | 100679412 | Frame-shift |
| ENST00000372989 | 100679313 | 100679412 | Frame-shift |
| ENST00000263033 | 100687067 | 100687245 | Frame-shift |
| ENST00000276141 | 100687067 | 100687245 | Frame-shift |
| ENST00000372989 | 100687067 | 100687245 | Frame-shift |
| 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 |
| ENST00000372989 | 100703093 | 100703185 | 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 |
| ENST00000372989 | 100703093 | 100703185 | 3UTR-3UTR |
| ENST00000263033 | 100679313 | 100679412 | Frame-shift |
| ENST00000276141 | 100679313 | 100679412 | Frame-shift |
| ENST00000372989 | 100679313 | 100679412 | Frame-shift |
| ENST00000263033 | 100701458 | 100701673 | In-frame |
| ENST00000276141 | 100701458 | 100701673 | In-frame |
| ENST00000372989 | 100701458 | 100701673 | In-frame |
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Infer the effects of exon skipping event on protein functional features for SYTL4 |
p-ENSG00000102362_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 |
| ENST00000263033 | 2352 | 671 | 100701458 | 100701673 | 299 | 513 | 37 | 108 |
| ENST00000276141 | 3754 | 671 | 100701458 | 100701673 | 298 | 512 | 37 | 108 |
| ENST00000372989 | 3902 | 671 | 100701458 | 100701673 | 443 | 657 | 37 | 108 |
| 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 |
| Q96C24 | 37 | 108 | 64 | 66 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 64 | 66 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 64 | 66 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 71 | 73 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 71 | 73 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 71 | 73 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 78 | 80 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 78 | 80 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 78 | 80 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 91 | 94 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 91 | 94 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 91 | 94 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 100 | 102 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 100 | 102 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 100 | 102 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 106 | 108 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5X6T |
| Q96C24 | 37 | 108 | 106 | 108 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5X6T |
| Q96C24 | 37 | 108 | 106 | 108 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5X6T |
| Q96C24 | 37 | 108 | 1 | 671 | Chain | ID=PRO_0000190216;Note=Synaptotagmin-like protein 4 |
| Q96C24 | 37 | 108 | 1 | 671 | Chain | ID=PRO_0000190216;Note=Synaptotagmin-like protein 4 |
| Q96C24 | 37 | 108 | 1 | 671 | Chain | ID=PRO_0000190216;Note=Synaptotagmin-like protein 4 |
| Q96C24 | 37 | 108 | 4 | 122 | Domain | Note=RabBD;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00234 |
| Q96C24 | 37 | 108 | 4 | 122 | Domain | Note=RabBD;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00234 |
| Q96C24 | 37 | 108 | 4 | 122 | Domain | Note=RabBD;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00234 |
| Q96C24 | 37 | 108 | 44 | 44 | Sequence conflict | Note=L->P;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q96C24 | 37 | 108 | 44 | 44 | Sequence conflict | Note=L->P;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q96C24 | 37 | 108 | 44 | 44 | Sequence conflict | Note=L->P;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q96C24 | 37 | 108 | 75 | 77 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 75 | 77 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 75 | 77 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 81 | 84 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 81 | 84 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 81 | 84 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:2CSZ |
| Q96C24 | 37 | 108 | 103 | 105 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5X6T |
| Q96C24 | 37 | 108 | 103 | 105 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5X6T |
| Q96C24 | 37 | 108 | 103 | 105 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:5X6T |
| Q96C24 | 37 | 108 | 63 | 105 | Zinc finger | Note=FYVE-type |
| Q96C24 | 37 | 108 | 63 | 105 | Zinc finger | Note=FYVE-type |
| Q96C24 | 37 | 108 | 63 | 105 | Zinc finger | Note=FYVE-type |
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3'-UTR located exon skipping events that lost miRNA binding sites in SYTL4 |
| 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 | ENST00000372989 | 100703093 | 100703185 | hsa-miR-6747-3p | chrX:100703120-100703127 | 8mer-1a | chrX:100703109-100703129 | 149.00 | -26.06 |
| Mayo | ENST00000372989 | 100703093 | 100703185 | hsa-miR-660-3p | chrX:100703123-100703130 | 8mer-1a | chrX:100703111-100703131 | 145.00 | -27.26 |
| MSBB | ENST00000372989 | 100703093 | 100703185 | hsa-miR-6747-3p | chrX:100703120-100703127 | 8mer-1a | chrX:100703109-100703129 | 149.00 | -26.06 |
| MSBB | ENST00000372989 | 100703093 | 100703185 | hsa-miR-660-3p | chrX:100703123-100703130 | 8mer-1a | chrX:100703111-100703131 | 145.00 | -27.26 |
| ROSMAP | ENST00000372989 | 100703093 | 100703185 | hsa-miR-6747-3p | chrX:100703120-100703127 | 8mer-1a | chrX:100703109-100703129 | 149.00 | -26.06 |
| ROSMAP | ENST00000372989 | 100703093 | 100703185 | hsa-miR-660-3p | chrX:100703123-100703130 | 8mer-1a | chrX:100703111-100703131 | 145.00 | -27.26 |
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SNVs in the skipped exons for SYTL4 |
| - 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 SYTL4 |
| 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 SYTL4 |
| 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 SYTL4 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
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RelatedDrugs for SYTL4 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
| Q96C24 | approved | DB00071 | Insulin Pork | biotech | Q96C24 |
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RelatedDiseases for SYTL4 |
| 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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