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| Open reading frame (ORF) annotation in the exon skipping event |
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| Splicing Quantitative Trait Loci (sQTLs) in the skipped exons |
| Splicing Quantitative Trait Methylation (sQTM) in the skipped exon |
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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 | 20180523 | |
| UniProtAcc | Q13277 | |
| Context | PubMed: STX3 [Title/Abstract] AND exon [Title/Abstract] AND skip [Title/Abstract] - Title (PMID) |
| 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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Exon skipping events across known transcript of Ensembl for STX3 from UCSC genome browser |
| Skipped exons in TCGA and GTEx 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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Gene isoform structures and expression levels for STX3 |
| Expression levels of gene isoforms across TCGA. |
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| Expression levels of gene isoforms across GTEx. |
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Exon skipping events with PSIs in TCGA for STX3 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_59601 | 11 | 59540689:59540767:59554509:59554609:59556345:59556420 | 59554509:59554609 | ENSG00000166900.10 | ENST00000535361.1,ENST00000530498.1,ENST00000529177.1,ENST00000337979.4,ENST00000300150.7 |
| exon_skip_59603 | 11 | 59540683:59540767:59556345:59556420:59557991:59558059 | 59556345:59556420 | ENSG00000166900.10 | ENST00000533637.1,ENST00000437946.2 |
| exon_skip_59604 | 11 | 59554539:59554609:59556345:59556420:59557991:59558059 | 59556345:59556420 | ENSG00000166900.10 | ENST00000535361.1,ENST00000528805.1,ENST00000529177.1,ENST00000337979.4,ENST00000300150.7 |
| exon_skip_59605 | 11 | 59560951:59560987:59562844:59562955:59564755:59564839 | 59562844:59562955 | ENSG00000166900.10 | ENST00000530221.1,ENST00000337979.4,ENST00000300150.7 |
| exon_skip_59607 | 11 | 59560951:59560987:59562844:59562955:59568327:59568435 | 59562844:59562955 | ENSG00000166900.10 | ENST00000529177.1 |
| exon_skip_59611 | 11 | 59560951:59560987:59563074:59563185:59568327:59568435 | 59563074:59563185 | ENSG00000166900.10 | ENST00000533637.1,ENST00000437946.2 |
| exon_skip_59613 | 11 | 59560951:59560987:59564755:59564869:59568327:59568435 | 59564755:59564869 | ENSG00000166900.10 | ENST00000535361.1 |
| exon_skip_59615 | 11 | 59562844:59562955:59564755:59564869:59567147:59567420 | 59564755:59564869 | ENSG00000166900.10 | ENST00000530221.1 |
| exon_skip_59617 | 11 | 59562887:59562955:59564755:59564869:59568327:59568435 | 59564755:59564869 | ENSG00000166900.10 | ENST00000337979.4,ENST00000300150.7 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for STX3 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_59601 | 11 | 59540689:59540767:59554509:59554609:59556345:59556420 | 59554509:59554609 | ENSG00000166900.10 | ENST00000300150.7,ENST00000337979.4,ENST00000535361.1,ENST00000529177.1,ENST00000530498.1 |
| exon_skip_59603 | 11 | 59540683:59540767:59556345:59556420:59557991:59558059 | 59556345:59556420 | ENSG00000166900.10 | ENST00000533637.1,ENST00000437946.2 |
| exon_skip_59604 | 11 | 59554539:59554609:59556345:59556420:59557991:59558059 | 59556345:59556420 | ENSG00000166900.10 | ENST00000300150.7,ENST00000337979.4,ENST00000535361.1,ENST00000529177.1,ENST00000528805.1 |
| exon_skip_59605 | 11 | 59560951:59560987:59562844:59562955:59564755:59564839 | 59562844:59562955 | ENSG00000166900.10 | ENST00000300150.7,ENST00000337979.4,ENST00000530221.1 |
| exon_skip_59607 | 11 | 59560951:59560987:59562844:59562955:59568327:59568435 | 59562844:59562955 | ENSG00000166900.10 | ENST00000529177.1 |
| exon_skip_59611 | 11 | 59560951:59560987:59563074:59563185:59568327:59568435 | 59563074:59563185 | ENSG00000166900.10 | ENST00000533637.1,ENST00000437946.2 |
| exon_skip_59613 | 11 | 59560951:59560987:59564755:59564869:59568327:59568435 | 59564755:59564869 | ENSG00000166900.10 | ENST00000535361.1 |
| exon_skip_59615 | 11 | 59562844:59562955:59564755:59564869:59567147:59567420 | 59564755:59564869 | ENSG00000166900.10 | ENST00000530221.1 |
| exon_skip_59617 | 11 | 59562887:59562955:59564755:59564869:59568327:59568435 | 59564755:59564869 | ENSG00000166900.10 | ENST00000300150.7,ENST00000337979.4 |
| PSI values of skipped exons in GTEx. |
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| * Skipped exon sequences. |
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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 TCGA based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000337979 | 59564755 | 59564869 | 3UTR-3CDS |
| ENST00000337979 | 59554509 | 59554609 | Frame-shift |
| ENST00000337979 | 59556345 | 59556420 | In-frame |
| ENST00000337979 | 59562844 | 59562955 | In-frame |
| Open reading frame (ORF) of individual exon skipping events in GTEx based on the Ensembl gene structure combined from isoforms. |
| ENST | Start of skipped exon | End of skipped exon | ORF |
| ENST00000337979 | 59564755 | 59564869 | 3UTR-3CDS |
| ENST00000337979 | 59554509 | 59554609 | Frame-shift |
| ENST00000337979 | 59556345 | 59556420 | In-frame |
| ENST00000337979 | 59562844 | 59562955 | In-frame |
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Infer the effects of exon skipping event on protein functional features for STX3 |
| Exon skipping at the protein sequence level and followed lost functional features. * Click on the image to enlarge it in a new window. |
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| Loci of skipped exons in TCGA 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 | 59556345 | 59556420 | 762 | 836 | 71 | 96 |
| ENST00000337979 | 3316 | 289 | 59562844 | 59562955 | 1223 | 1333 | 225 | 262 |
| Loci of skipped exons in GTEx 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 | 59556345 | 59556420 | 762 | 836 | 71 | 96 |
| ENST00000337979 | 3316 | 289 | 59562844 | 59562955 | 1223 | 1333 | 225 | 262 |
| Lost protein functional features of individual exon skipping events in TCGA. |
| 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 | 71 | 96 | 1 | 289 | Chain | ID=PRO_0000210199;Note=Syntaxin-3 |
| Q13277 | 71 | 96 | 32 | 111 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13277 | 71 | 96 | 83 | 83 | Natural variant | ID=VAR_028189;Note=E->D;Dbxref=dbSNP:rs12282741 |
| Q13277 | 71 | 96 | 81 | 81 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q13277 | 71 | 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 GTEx. |
| 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 | 71 | 96 | 1 | 289 | Chain | ID=PRO_0000210199;Note=Syntaxin-3 |
| Q13277 | 71 | 96 | 32 | 111 | Coiled coil | Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| Q13277 | 71 | 96 | 83 | 83 | Natural variant | ID=VAR_028189;Note=E->D;Dbxref=dbSNP:rs12282741 |
| Q13277 | 71 | 96 | 81 | 81 | Sequence conflict | Note=T->S;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| Q13277 | 71 | 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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SNVs in the skipped exons for STX3 |
| - Lollipop plot for presenting exon skipping associated SNVs. * Click on the image to enlarge it in a new window. |
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| - Differential PSIs between mutated versus non-mutated samples. |
| - Non-synonymous mutations located in the skipped exons in TCGA. |
| Cancer type | Sample | ESID | Skipped exon start | Skipped exon end | Mutation start | Mutation end | Mutation type | Reference seq | Mutation seq | AAchange |
| LUAD | TCGA-17-Z031-01 | exon_skip_59617 exon_skip_59613 exon_skip_59615 | 59564756 | 59564869 | 59564806 | 59564807 | Frame_Shift_Ins | - | T | p.D243fs |
| THYM | TCGA-ZB-A96K-01 | exon_skip_59601 | 59554510 | 59554609 | 59554513 | 59554513 | Nonsense_Mutation | G | T | p.E40X |
| CHOL | TCGA-W5-AA39-01 | exon_skip_59601 | 59554510 | 59554609 | 59554567 | 59554567 | Nonsense_Mutation | A | T | p.K58* |
| CHOL | TCGA-W5-AA39-01 | exon_skip_59601 | 59554510 | 59554609 | 59554567 | 59554567 | Nonsense_Mutation | A | T | p.K58X |
| - Depth of coverage in the three exons composing exon skipping event |
| Depth of coverage in three exons | Mutation description |
| - 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 |
| CMLT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 59562845 | 59562955 | 59562919 | 59562920 | Frame_Shift_Ins | - | A | p.K251fs |
| NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 59554510 | 59554609 | 59554522 | 59554522 | Missense_Mutation | C | T | p.R43W |
| SNU175_LARGE_INTESTINE | 59554510 | 59554609 | 59554540 | 59554540 | Missense_Mutation | A | C | p.I49L |
| CASKI_CERVIX | 59554510 | 59554609 | 59554555 | 59554555 | Missense_Mutation | G | A | p.E54K |
| SNU1040_LARGE_INTESTINE | 59554510 | 59554609 | 59554579 | 59554579 | Missense_Mutation | A | C | p.I62L |
| MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 59556346 | 59556420 | 59556373 | 59556373 | Missense_Mutation | C | T | p.T81M |
| SW403_LARGE_INTESTINE | 59556346 | 59556420 | 59556388 | 59556388 | Missense_Mutation | A | T | p.K86I |
| SKNFI_AUTONOMIC_GANGLIA | 59556346 | 59556420 | 59556406 | 59556406 | Missense_Mutation | G | A | p.R92Q |
| LN340_CENTRAL_NERVOUS_SYSTEM | 59556346 | 59556420 | 59556410 | 59556410 | Missense_Mutation | C | A | p.N93K |
| HEC1_ENDOMETRIUM | 59562845 | 59562955 | 59562930 | 59562930 | Missense_Mutation | T | C | p.V254A |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 59564756 | 59564869 | 59564777 | 59564777 | Missense_Mutation | C | G | p.L270V |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for STX3 |
| sQTL information located at the skipped exons. |
| Exon skip ID | Chromosome | Three exons | Skippped exon | ENST | Cancer type | SNP id | Location | DNA change (ref/var) | P-value |
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Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for STX3 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for STX3 |
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RelatedDrugs for STX3 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| Gene | 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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