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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 TCEA1 |
 Gene summary |
| Gene information | Gene symbol | TCEA1 | Gene ID | 6917 |
| Gene name | transcription elongation factor A1 | |
| Synonyms | GTF2S|SII|TCEA|TF2S|TFIIS | |
| Cytomap | 8q11.23 | |
| Type of gene | protein-coding | |
| Description | transcription elongation factor A protein 1epididymis secretory sperm binding proteintranscription elongation factor A (SII), 1transcription elongation factor S-II protein 1transcription elongation factor TFIIS.otranscription factor IIS | |
| 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 |
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Gene structures and expression levels for TCEA1 |
| 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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ENSG00000187735
| 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. |
| Tissue type | DEG direction | ENST | Transcript info. | Base mean exp. | log2FC(AD/control) | P-value | Adjc. p-value |
| 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 TCEA1 |
| 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_123076 | chr8 | 54000010:54000050:54002892:54003086:54010430:54010491 | 54002892:54003086 |
| exon_skip_14877 | chr8 | 53970392:53970463:53979025:53979171:53984363:53984517 | 53979025:53979171 |
| exon_skip_153079 | chr8 | 54000010:54000050:54010430:54010492:54022063:54022125 | 54010430:54010492 |
| exon_skip_163189 | chr8 | 54000010:54000050:54010430:54010492:54022063:54022103 | 54010430:54010492 |
| exon_skip_192279 | chr8 | 54000010:54000050:54002892:54003086:54010430:54010492 | 54002892:54003086 |
| exon_skip_195432 | chr8 | 53993704:53993755:53999945:54000050:54010430:54010492 | 53999945:54000050 |
| exon_skip_196239 | chr8 | 54000010:54000050:54010430:54010492:54021526:54021586 | 54010430:54010492 |
| exon_skip_201972 | chr8 | 53993704:53993755:53999945:54000050:54022063:54022125 | 53999945:54000050 |
| exon_skip_219910 | chr8 | 54002892:54003086:54010430:54010492:54022063:54022125 | 54010430:54010492 |
| exon_skip_232867 | chr8 | 54000010:54000050:54002892:54003092:54010430:54010491 | 54002892:54003092 |
| exon_skip_241964 | chr8 | 54002892:54002940:54010430:54010492:54022063:54022103 | 54010430:54010492 |
| exon_skip_24612 | chr8 | 53970392:53970463:53979025:53979171:53984363:53984506 | 53979025:53979171 |
| exon_skip_248583 | chr8 | 54002892:54002940:54010430:54010492:54022063:54022125 | 54010430:54010492 |
| exon_skip_252823 | chr8 | 54010430:54010492:54021526:54021586:54022063:54022103 | 54021526:54021586 |
| exon_skip_258288 | chr8 | 54000010:54000050:54002892:54002940:54010430:54010492 | 54002892:54002940 |
| exon_skip_268402 | chr8 | 54000010:54000050:54002892:54002940:54010430:54010491 | 54002892:54002940 |
| exon_skip_293495 | chr8 | 54010430:54010492:54021526:54021586:54022063:54022310 | 54021526:54021586 |
| exon_skip_3987 | chr8 | 53970392:53970463:53979025:53979171:54010430:54010492 | 53979025:53979171 |
| exon_skip_52377 | chr8 | 53970392:53970463:53978523:53978697:53979025:53979171 | 53978523:53978697 |
| exon_skip_53770 | chr8 | 54000010:54000050:54002892:54003092:54010430:54010492 | 54002892:54003092 |
| exon_skip_56493 | chr8 | 53993704:53993755:53999945:54000050:54022063:54022103 | 53999945:54000050 |
| exon_skip_66691 | chr8 | 53967170:53968112:53970392:53970463:53979025:53979171 | 53970392:53970463 |
| exon_skip_82819 | chr8 | 53979025:53979171:54010430:54010492:54022063:54022125 | 54010430:54010492 |
| 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 TCEA1 |
| 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 |
| ENST00000521604 | 53999945 | 54000050 | Frame-shift |
| ENST00000521604 | 53970392 | 53970463 | In-frame |
| ENST00000521604 | 53979025 | 53979171 | In-frame |
| ENST00000521604 | 54010430 | 54010492 | 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 |
| ENST00000521604 | 53999945 | 54000050 | Frame-shift |
| ENST00000521604 | 53979025 | 53979171 | In-frame |
| ENST00000521604 | 54010430 | 54010492 | 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 |
| ENST00000521604 | 53999945 | 54000050 | Frame-shift |
| ENST00000521604 | 53979025 | 53979171 | In-frame |
| ENST00000521604 | 54010430 | 54010492 | In-frame |
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Infer the effects of exon skipping event on protein functional features for TCEA1 |
p-ENSG00000187735_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 |
| ENST00000521604 | 2875 | 301 | 54010430 | 54010492 | 468 | 529 | 21 | 41 |
| ENST00000521604 | 2875 | 301 | 53979025 | 53979171 | 1083 | 1228 | 226 | 274 |
| ENST00000521604 | 2875 | 301 | 53970392 | 53970463 | 1230 | 1300 | 275 | 298 |
| 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 |
| ENST00000521604 | 2875 | 301 | 54010430 | 54010492 | 468 | 529 | 21 | 41 |
| ENST00000521604 | 2875 | 301 | 53979025 | 53979171 | 1083 | 1228 | 226 | 274 |
| 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 |
| ENST00000521604 | 2875 | 301 | 54010430 | 54010492 | 468 | 529 | 21 | 41 |
| ENST00000521604 | 2875 | 301 | 53979025 | 53979171 | 1083 | 1228 | 226 | 274 |
| 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 |
| P23193 | 21 | 41 | 22 | 42 | Alternative sequence | ID=VSP_006409;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:1708494;Dbxref=PMID:1708494 |
| P23193 | 21 | 41 | 1 | 301 | Chain | ID=PRO_0000121446;Note=Transcription elongation factor A protein 1 |
| P23193 | 21 | 41 | 3 | 80 | Domain | Note=TFIIS N-terminal;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00649 |
| P23193 | 226 | 274 | 264 | 266 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1TFI |
| P23193 | 226 | 274 | 271 | 276 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1TFI |
| P23193 | 226 | 274 | 1 | 301 | Chain | ID=PRO_0000121446;Note=Transcription elongation factor A protein 1 |
| P23193 | 226 | 274 | 140 | 256 | Domain | Note=TFIIS central;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00651 |
| P23193 | 226 | 274 | 237 | 237 | Sequence conflict | Note=R->W;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| P23193 | 226 | 274 | 225 | 227 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:3NDQ |
| P23193 | 226 | 274 | 259 | 299 | Zinc finger | Note=TFIIS-type;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00472 |
| P23193 | 275 | 298 | 271 | 276 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1TFI |
| P23193 | 275 | 298 | 278 | 283 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1TFI |
| P23193 | 275 | 298 | 286 | 294 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1TFI |
| P23193 | 275 | 298 | 297 | 299 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1TFI |
| P23193 | 275 | 298 | 1 | 301 | Chain | ID=PRO_0000121446;Note=Transcription elongation factor A protein 1 |
| P23193 | 275 | 298 | 285 | 285 | Sequence conflict | Note=M->V;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| P23193 | 275 | 298 | 259 | 299 | Zinc finger | Note=TFIIS-type;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00472 |
| 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 |
| P23193 | 21 | 41 | 22 | 42 | Alternative sequence | ID=VSP_006409;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:1708494;Dbxref=PMID:1708494 |
| P23193 | 21 | 41 | 1 | 301 | Chain | ID=PRO_0000121446;Note=Transcription elongation factor A protein 1 |
| P23193 | 21 | 41 | 3 | 80 | Domain | Note=TFIIS N-terminal;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00649 |
| P23193 | 226 | 274 | 264 | 266 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1TFI |
| P23193 | 226 | 274 | 271 | 276 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1TFI |
| P23193 | 226 | 274 | 1 | 301 | Chain | ID=PRO_0000121446;Note=Transcription elongation factor A protein 1 |
| P23193 | 226 | 274 | 140 | 256 | Domain | Note=TFIIS central;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00651 |
| P23193 | 226 | 274 | 237 | 237 | Sequence conflict | Note=R->W;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| P23193 | 226 | 274 | 225 | 227 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:3NDQ |
| P23193 | 226 | 274 | 259 | 299 | Zinc finger | Note=TFIIS-type;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00472 |
| 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 |
| P23193 | 21 | 41 | 22 | 42 | Alternative sequence | ID=VSP_006409;Note=In isoform 2. Missing;Ontology_term=ECO:0000303;evidence=ECO:0000303|PubMed:1708494;Dbxref=PMID:1708494 |
| P23193 | 21 | 41 | 1 | 301 | Chain | ID=PRO_0000121446;Note=Transcription elongation factor A protein 1 |
| P23193 | 21 | 41 | 3 | 80 | Domain | Note=TFIIS N-terminal;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00649 |
| P23193 | 226 | 274 | 264 | 266 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1TFI |
| P23193 | 226 | 274 | 271 | 276 | Beta strand | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:1TFI |
| P23193 | 226 | 274 | 1 | 301 | Chain | ID=PRO_0000121446;Note=Transcription elongation factor A protein 1 |
| P23193 | 226 | 274 | 140 | 256 | Domain | Note=TFIIS central;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00651 |
| P23193 | 226 | 274 | 237 | 237 | Sequence conflict | Note=R->W;Ontology_term=ECO:0000305;evidence=ECO:0000305 |
| P23193 | 226 | 274 | 225 | 227 | Turn | Ontology_term=ECO:0000244;evidence=ECO:0000244|PDB:3NDQ |
| P23193 | 226 | 274 | 259 | 299 | Zinc finger | Note=TFIIS-type;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00472 |
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3'-UTR located exon skipping events that lost miRNA binding sites in TCEA1 |
| 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 TCEA1 |
| - 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 TCEA1 |
| 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 |
| CDR | MSBB | IFG | exon_skip_192279 | -4.351980e-01 | 2.063590e-02 | chr8 | - | 54000010 | 54000050 | 54002892 | 54003086 | 54010430 | 54010492 |
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Splicing Quantitative Trait Loci (sQTL) in the exon skipping event for TCEA1 |
| 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 TCEA1 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| TC | PCBP4 | exon_skip_258288 | 4.234787e-01 | 2.413156e-08 |
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RelatedDrugs for TCEA1 |
| 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 TCEA1 |
| 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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