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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 STX3 |
 Gene summary |
| Gene information | Gene symbol | STX3 | Gene ID | 6809 |
| Gene name | syntaxin 3 | |
| Synonyms | STX3A | |
| Cytomap | 11q12.1 | |
| Type of gene | protein-coding | |
| Description | syntaxin-3syntaxin 3A | |
| Modification date | 20200327 | |
| 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 STX3 |
| 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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ENSG00000166900
| 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 | DOWN | ENST00000633708.1 | STX3-207:protein_coding:STX3 | 2.835277e+01 | -1.143259e+00 | 1.236567e-04 | 8.868407e-04 |
| 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 STX3 |
| 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_124041 | chr11 | 59793479:59793514:59795602:59795712:59800855:59800962 | 59795602:59795712 |
| exon_skip_14093 | chr11 | 59773211:59773294:59788873:59788947:59790519:59790586 | 59788873:59788947 |
| exon_skip_183775 | chr11 | 59773217:59773294:59787037:59787136:59788873:59788947 | 59787037:59787136 |
| exon_skip_194287 | chr11 | 59795415:59795482:59797283:59797396:59800855:59800962 | 59797283:59797396 |
| exon_skip_204450 | chr11 | 59787067:59787136:59788873:59788947:59790519:59790586 | 59788873:59788947 |
| exon_skip_249098 | chr11 | 59793380:59793514:59795372:59795482:59797283:59797366 | 59795372:59795482 |
| exon_skip_255170 | chr11 | 59793479:59793514:59795372:59795482:59800855:59800962 | 59795372:59795482 |
| exon_skip_59426 | chr11 | 59773211:59773294:59787037:59787136:59788873:59788947 | 59787037:59787136 |
| exon_skip_5971 | chr11 | 59793479:59793514:59795372:59795482:59797283:59797366 | 59795372:59795482 |
| Differentially expressed PSI values of individual exon skipping events in multiple brain tissues between AD and control. |
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| Exon skipping information | Tissue type | Avg(PSIs) in AD | Avg(PSIs) in control | Difference (PSI) | Adj. p-value |
| exon_skip_14093 | Mayo_CB | 5.019512e-01 | 6.679032e-01 | -1.659520e-01 | 1.046592e-08 |
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Open reading frame (ORF) annotation in the exon skipping event for STX3 |
| 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 |
| ENST00000337979 | 59797283 | 59797396 | 3UTR-3CDS |
| ENST00000337979 | 59787037 | 59787136 | Frame-shift |
| ENST00000337979 | 59788873 | 59788947 | In-frame |
| ENST00000337979 | 59795372 | 59795482 | In-frame |
| 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 |
| ENST00000337979 | 59797283 | 59797396 | 3UTR-3CDS |
| ENST00000337979 | 59787037 | 59787136 | Frame-shift |
| ENST00000337979 | 59788873 | 59788947 | In-frame |
| ENST00000337979 | 59795372 | 59795482 | In-frame |
| 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 |
| ENST00000337979 | 59797283 | 59797396 | 3UTR-3CDS |
| ENST00000337979 | 59787037 | 59787136 | Frame-shift |
| ENST00000337979 | 59788873 | 59788947 | In-frame |
| ENST00000337979 | 59795372 | 59795482 | In-frame |
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Infer the effects of exon skipping event on protein functional features for STX3 |
p-ENSG00000166900_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 |
| ENST00000337979 | 3316 | 289 | 59788873 | 59788947 | 763 | 836 | 72 | 96 |
| ENST00000337979 | 3316 | 289 | 59795372 | 59795482 | 1224 | 1333 | 225 | 262 |
| 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 |
| ENST00000337979 | 3316 | 289 | 59788873 | 59788947 | 763 | 836 | 72 | 96 |
| ENST00000337979 | 3316 | 289 | 59795372 | 59795482 | 1224 | 1333 | 225 | 262 |
| 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 |
| ENST00000337979 | 3316 | 289 | 59788873 | 59788947 | 763 | 836 | 72 | 96 |
| ENST00000337979 | 3316 | 289 | 59795372 | 59795482 | 1224 | 1333 | 225 | 262 |
| 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 |
| Q13277 | 72 | 96 | 1 | 289 | Chain | ID=PRO_0000210199;Note=Syntaxin-3 |
| Q13277 | 72 | 96 | 32 | 111 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13277 | 72 | 96 | 83 | 83 | Natural variant | ID=VAR_028189;Note=E->D;Dbxref=dbSNP:rs12282741 |
| Q13277 | 72 | 96 | 81 | 81 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q13277 | 72 | 96 | 1 | 263 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13277 | 225 | 262 | 226 | 262 | Alternative sequence | ID=VSP_006340;Note=In isoform B. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:10080545;Dbxref=PMID:10080545 |
| Q13277 | 225 | 262 | 1 | 289 | Chain | ID=PRO_0000210199;Note=Syntaxin-3 |
| Q13277 | 225 | 262 | 191 | 253 | Domain | Note=t-SNARE coiled-coil homology;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00202 |
| Q13277 | 225 | 262 | 250 | 250 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q13277 | 225 | 262 | 250 | 250 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q13277 | 225 | 262 | 1 | 263 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| 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 |
| Q13277 | 72 | 96 | 1 | 289 | Chain | ID=PRO_0000210199;Note=Syntaxin-3 |
| Q13277 | 72 | 96 | 32 | 111 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13277 | 72 | 96 | 83 | 83 | Natural variant | ID=VAR_028189;Note=E->D;Dbxref=dbSNP:rs12282741 |
| Q13277 | 72 | 96 | 81 | 81 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q13277 | 72 | 96 | 1 | 263 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13277 | 225 | 262 | 226 | 262 | Alternative sequence | ID=VSP_006340;Note=In isoform B. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:10080545;Dbxref=PMID:10080545 |
| Q13277 | 225 | 262 | 1 | 289 | Chain | ID=PRO_0000210199;Note=Syntaxin-3 |
| Q13277 | 225 | 262 | 191 | 253 | Domain | Note=t-SNARE coiled-coil homology;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00202 |
| Q13277 | 225 | 262 | 250 | 250 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q13277 | 225 | 262 | 250 | 250 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q13277 | 225 | 262 | 1 | 263 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| 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 |
| Q13277 | 72 | 96 | 1 | 289 | Chain | ID=PRO_0000210199;Note=Syntaxin-3 |
| Q13277 | 72 | 96 | 32 | 111 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13277 | 72 | 96 | 83 | 83 | Natural variant | ID=VAR_028189;Note=E->D;Dbxref=dbSNP:rs12282741 |
| Q13277 | 72 | 96 | 81 | 81 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q13277 | 72 | 96 | 1 | 263 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13277 | 225 | 262 | 226 | 262 | Alternative sequence | ID=VSP_006340;Note=In isoform B. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:10080545;Dbxref=PMID:10080545 |
| Q13277 | 225 | 262 | 1 | 289 | Chain | ID=PRO_0000210199;Note=Syntaxin-3 |
| Q13277 | 225 | 262 | 191 | 253 | Domain | Note=t-SNARE coiled-coil homology;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00202 |
| Q13277 | 225 | 262 | 250 | 250 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q13277 | 225 | 262 | 250 | 250 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q13277 | 225 | 262 | 1 | 263 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
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3'-UTR located exon skipping events that lost miRNA binding sites in STX3 |
| 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 STX3 |
| - 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 STX3 |
| 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 STX3 |
| 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 STX3 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | TRA2A | exon_skip_14093 | -5.473822e-01 | 1.254084e-12 |
| CB | NUP42 | exon_skip_14093 | 5.134975e-01 | 4.657803e-11 |
| CB | TRA2A | exon_skip_204450 | -4.244806e-01 | 9.313444e-08 |
| CB | SRSF1 | exon_skip_204450 | -4.681549e-01 | 2.545056e-09 |
| IFG | PABPC3 | exon_skip_59426 | -5.146193e-01 | 1.698741e-02 |
| PCC | G3BP2 | exon_skip_14093 | 4.392522e-01 | 5.532460e-10 |
| PCC | PTBP1 | exon_skip_194287 | 5.549332e-01 | 4.639102e-14 |
| TC | ELAVL4 | exon_skip_59426 | -6.321825e-01 | 1.492645e-17 |
| TC | ESRP1 | exon_skip_59426 | -4.521964e-01 | 1.131646e-08 |
| TC | NOVA1 | exon_skip_59426 | -5.554562e-01 | 4.131548e-13 |
| TC | MSI1 | exon_skip_194287 | 5.190469e-01 | 2.133001e-10 |
| TC | ELAVL4 | exon_skip_194287 | -7.410704e-01 | 4.530383e-24 |
| TC | MBNL1 | exon_skip_194287 | -4.308842e-01 | 2.785294e-07 |
| TC | KHDRBS2 | exon_skip_194287 | -7.600265e-01 | 6.593285e-26 |
| TC | KHDRBS3 | exon_skip_194287 | -6.932495e-01 | 4.482841e-20 |
| TC | RBM24 | exon_skip_194287 | -7.112635e-01 | 1.745368e-21 |
| TC | HNRNPA0 | exon_skip_194287 | -6.727729e-01 | 1.359805e-18 |
| TC | HNRNPDL | exon_skip_194287 | -5.298866e-01 | 7.604861e-11 |
| TC | HNRNPD | exon_skip_194287 | -6.286610e-01 | 9.030921e-16 |
| TC | NUP42 | exon_skip_194287 | -6.527674e-01 | 2.960497e-17 |
| TC | PTBP1 | exon_skip_194287 | 4.701140e-01 | 1.467278e-08 |
| TC | SRSF9 | exon_skip_194287 | -4.190247e-01 | 6.319741e-07 |
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RelatedDrugs for STX3 |
| 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 STX3 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
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