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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 TSPAN9 |
 Gene summary |
| Gene information | Gene symbol | TSPAN9 | Gene ID | 10867 |
| Gene name | tetraspanin 9 | |
| Synonyms | NET-5|NET5|PP1057 | |
| Cytomap | 12p13.33-p13.32 | |
| Type of gene | protein-coding | |
| Description | tetraspanin-9new EST tetraspan 5tetraspan NET-5transmembrane 4 superfamily member tetraspan NET-5tspan-9 | |
| Modification date | 20180523 | |
| UniProtAcc | O75954 | |
| Context | PubMed: TSPAN9 [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 TSPAN9 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 TSPAN9 |
| 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 TSPAN9 |
| Information of exkip skipping event in TCGA. |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_79167 | 12 | 3186593:3186619:3192818:3192885:3310342:3310388 | 3192818:3192885 | ENSG00000011105.7 | ENST00000444315.2,ENST00000011898.5 |
| exon_skip_79181 | 12 | 3192818:3192885:3310342:3310422:3387586:3387778 | 3310342:3310422 | ENSG00000011105.7 | ENST00000011898.5 |
| exon_skip_79193 | 12 | 3310342:3310422:3315445:3315584:3387586:3387778 | 3315445:3315584 | ENSG00000011105.7 | ENST00000444315.2 |
| exon_skip_79198 | 12 | 3310342:3310422:3387586:3387778:3388157:3388172 | 3387586:3387778 | ENSG00000011105.7 | ENST00000407263.1,ENST00000537971.1,ENST00000011898.5 |
| exon_skip_79213 | 12 | 3324416:3324521:3387586:3387778:3388157:3388172 | 3387586:3387778 | ENSG00000011105.7 | ENST00000431374.2 |
| exon_skip_79226 | 12 | 3387663:3387778:3388157:3388232:3389547:3389637 | 3388157:3388232 | ENSG00000011105.7 | ENST00000407263.1,ENST00000537971.1,ENST00000431374.2,ENST00000492305.1,ENST00000011898.5 |
| exon_skip_79228 | 12 | 3390363:3390495:3390899:3390983:3392210:3394399 | 3390899:3390983 | ENSG00000011105.7 | ENST00000537971.1,ENST00000011898.5 |
| PSI values of skipped exons in TCGA. |
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Exon skipping events with PSIs in GTEx for TSPAN9 |
| Information of exkip skipping event in GTEx |
| Exon skip ID | chr | Exons involved in exon skipping | Skipped exon | ENSG | ENSTs |
| exon_skip_79167 | 12 | 3186593:3186619:3192818:3192885:3310342:3310388 | 3192818:3192885 | ENSG00000011105.7 | ENST00000444315.2,ENST00000011898.5 |
| exon_skip_79181 | 12 | 3192818:3192885:3310342:3310422:3387586:3387778 | 3310342:3310422 | ENSG00000011105.7 | ENST00000011898.5 |
| exon_skip_79193 | 12 | 3310342:3310422:3315445:3315584:3387586:3387778 | 3315445:3315584 | ENSG00000011105.7 | ENST00000444315.2 |
| exon_skip_79198 | 12 | 3310342:3310422:3387586:3387778:3388157:3388172 | 3387586:3387778 | ENSG00000011105.7 | ENST00000537971.1,ENST00000011898.5,ENST00000407263.1 |
| exon_skip_79226 | 12 | 3387663:3387778:3388157:3388232:3389547:3389637 | 3388157:3388232 | ENSG00000011105.7 | ENST00000537971.1,ENST00000011898.5,ENST00000407263.1,ENST00000431374.2,ENST00000492305.1 |
| exon_skip_79228 | 12 | 3390363:3390495:3390899:3390983:3392210:3394399 | 3390899:3390983 | ENSG00000011105.7 | ENST00000537971.1,ENST00000011898.5 |
| 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 TSPAN9 |
| 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 |
| ENST00000011898 | 3310342 | 3310422 | 5CDS-5UTR |
| ENST00000011898 | 3192818 | 3192885 | 5UTR-5UTR |
| ENST00000011898 | 3387586 | 3387778 | In-frame |
| ENST00000537971 | 3387586 | 3387778 | In-frame |
| ENST00000011898 | 3388157 | 3388232 | In-frame |
| ENST00000537971 | 3388157 | 3388232 | In-frame |
| ENST00000011898 | 3390899 | 3390983 | In-frame |
| ENST00000537971 | 3390899 | 3390983 | 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 |
| ENST00000011898 | 3310342 | 3310422 | 5CDS-5UTR |
| ENST00000011898 | 3192818 | 3192885 | 5UTR-5UTR |
| ENST00000011898 | 3387586 | 3387778 | In-frame |
| ENST00000537971 | 3387586 | 3387778 | In-frame |
| ENST00000011898 | 3388157 | 3388232 | In-frame |
| ENST00000537971 | 3388157 | 3388232 | In-frame |
| ENST00000011898 | 3390899 | 3390983 | In-frame |
| ENST00000537971 | 3390899 | 3390983 | In-frame |
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Infer the effects of exon skipping event on protein functional features for TSPAN9 |
| 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 |
| ENST00000011898 | 4340 | 239 | 3387586 | 3387778 | 225 | 416 | 21 | 85 |
| ENST00000537971 | 4301 | 239 | 3387586 | 3387778 | 180 | 371 | 21 | 85 |
| ENST00000011898 | 4340 | 239 | 3388157 | 3388232 | 417 | 491 | 85 | 110 |
| ENST00000537971 | 4301 | 239 | 3388157 | 3388232 | 372 | 446 | 85 | 110 |
| ENST00000011898 | 4340 | 239 | 3390899 | 3390983 | 726 | 809 | 188 | 216 |
| ENST00000537971 | 4301 | 239 | 3390899 | 3390983 | 681 | 764 | 188 | 216 |
| 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 |
| ENST00000011898 | 4340 | 239 | 3387586 | 3387778 | 225 | 416 | 21 | 85 |
| ENST00000537971 | 4301 | 239 | 3387586 | 3387778 | 180 | 371 | 21 | 85 |
| ENST00000011898 | 4340 | 239 | 3388157 | 3388232 | 417 | 491 | 85 | 110 |
| ENST00000537971 | 4301 | 239 | 3388157 | 3388232 | 372 | 446 | 85 | 110 |
| ENST00000011898 | 4340 | 239 | 3390899 | 3390983 | 726 | 809 | 188 | 216 |
| ENST00000537971 | 4301 | 239 | 3390899 | 3390983 | 681 | 764 | 188 | 216 |
| 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 |
| O75954 | 21 | 85 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 21 | 85 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 21 | 85 | 35 | 55 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 35 | 55 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 77 | 85 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 77 | 85 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 14 | 34 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 14 | 34 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 56 | 76 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 56 | 76 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 85 | 110 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 85 | 110 | 77 | 85 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 77 | 85 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 107 | 203 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 107 | 203 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 86 | 106 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 86 | 106 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 188 | 216 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 188 | 216 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 188 | 216 | 216 | 216 | Sequence conflict | Note=Q->R;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| O75954 | 188 | 216 | 216 | 216 | Sequence conflict | Note=Q->R;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| O75954 | 188 | 216 | 107 | 203 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 188 | 216 | 107 | 203 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 188 | 216 | 204 | 224 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 188 | 216 | 204 | 224 | Transmembrane | Note=Helical;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 |
| O75954 | 21 | 85 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 21 | 85 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 21 | 85 | 35 | 55 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 35 | 55 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 77 | 85 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 77 | 85 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 14 | 34 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 14 | 34 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 56 | 76 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 21 | 85 | 56 | 76 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 85 | 110 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 85 | 110 | 77 | 85 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 77 | 85 | Topological domain | Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 107 | 203 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 107 | 203 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 86 | 106 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 85 | 110 | 86 | 106 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 188 | 216 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 188 | 216 | 1 | 239 | Chain | ID=PRO_0000219253;Note=Tetraspanin-9 |
| O75954 | 188 | 216 | 216 | 216 | Sequence conflict | Note=Q->R;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| O75954 | 188 | 216 | 216 | 216 | Sequence conflict | Note=Q->R;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| O75954 | 188 | 216 | 107 | 203 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 188 | 216 | 107 | 203 | Topological domain | Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 188 | 216 | 204 | 224 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
| O75954 | 188 | 216 | 204 | 224 | Transmembrane | Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255 |
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SNVs in the skipped exons for TSPAN9 |
| - 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 |
| LIHC | TCGA-DD-A1EG-01 | exon_skip_79181 | 3310343 | 3310422 | 3310367 | 3310367 | Frame_Shift_Del | G | - | p.R3fs |
| LIHC | TCGA-G3-A3CJ-01 | exon_skip_79213 exon_skip_79198 | 3387587 | 3387778 | 3387742 | 3387742 | Frame_Shift_Del | G | - | p.L73fs |
| LIHC | TCGA-G3-A3CJ-01 | 3390900 | 3390983 | 3390959 | 3390959 | Frame_Shift_Del | G | - | p.V208fs | |
| OV | TCGA-13-1497-01 | exon_skip_79213 exon_skip_79198 | 3387587 | 3387778 | 3387608 | 3387608 | Nonsense_Mutation | G | T | p.G29* |
| HNSC | TCGA-CR-7390-01 | exon_skip_79213 exon_skip_79198 | 3387587 | 3387778 | 3387622 | 3387622 | Nonsense_Mutation | G | A | p.W33* |
| UCEC | TCGA-AP-A059-01 | 3390900 | 3390983 | 3390926 | 3390926 | Nonsense_Mutation | G | A | p.W197* | |
| STAD | TCGA-BR-6452-01 | exon_skip_79226 | 3388158 | 3388232 | 3388233 | 3388233 | Splice_Site | G | A | . |
| STAD | TCGA-BR-6452-01 | exon_skip_79226 | 3388158 | 3388232 | 3388233 | 3388233 | Splice_Site | G | A | p.K110_splice |
| - 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 |
| IALM_LUNG | 3390900 | 3390983 | 3390959 | 3390959 | Frame_Shift_Del | G | - | p.V208fs |
| BICR18_UPPER_AERODIGESTIVE_TRACT | 3310343 | 3310422 | 3310394 | 3310394 | Missense_Mutation | T | C | p.M12T |
| DAUDI_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE | 3310343 | 3310422 | 3310394 | 3310394 | Missense_Mutation | T | C | p.M12T |
| SNU1040_LARGE_INTESTINE | 3387587 | 3387778 | 3387594 | 3387594 | Missense_Mutation | G | A | p.G24D |
| LS411N_LARGE_INTESTINE | 3387587 | 3387778 | 3387680 | 3387680 | Missense_Mutation | G | A | p.A53T |
| RKO_LARGE_INTESTINE | 3387587 | 3387778 | 3387704 | 3387704 | Missense_Mutation | G | A | p.G61S |
| DOV13_OVARY | 3390900 | 3390983 | 3390960 | 3390960 | Missense_Mutation | G | T | p.G209W |
| SNU719_STOMACH | 3390900 | 3390983 | 3390973 | 3390973 | Missense_Mutation | T | A | p.L213H |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for TSPAN9 |
| 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 TSPAN9 |
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Survival analysis of Splicing Quantitative Trait Methylation (sQTM) in the skipped exon for TSPAN9 |
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RelatedDrugs for TSPAN9 |
| 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 TSPAN9 |
| 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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