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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 TCF12 |
 Gene summary |
| Gene information | Gene symbol | TCF12 | Gene ID | 6938 |
| Gene name | transcription factor 12 | |
| Synonyms | CRS3|HEB|HTF4|HsT17266|TCF-12|bHLHb20|p64 | |
| Cytomap | 15q21.3 | |
| Type of gene | protein-coding | |
| Description | transcription factor 12DNA-binding protein HTF4E-box-binding proteinclass B basic helix-loop-helix protein 20helix-loop-helix transcription factor 4transcription factor HTF-4 | |
| Modification date | 20200313 | |
| UniProtAcc | A0A024R5T1, A0A024R5Z0, B4DGI9, B4DZP2, F5GY10, H0YML2, | |
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| TCF12 | GO:0045944 | positive regulation of transcription by RNA polymerase II | 11802795 |
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Gene structures and expression levels for TCF12 |
| 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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ENSG00000140262
| 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 | ENST00000557843.5 | TCF12-207:protein_coding:TCF12 | 1.870242e+02 | 1.218134e+00 | 3.622376e-04 | 7.022343e-03 |
| CB | UP | ENST00000561235.5 | TCF12-223:lncRNA:TCF12 | 9.369584e+00 | 8.381987e-01 | 3.607400e-05 | 3.121560e-04 |
| CB | UP | ENST00000559703.1 | TCF12-213:protein_coding:TCF12 | 2.264826e+01 | 8.145194e-01 | 9.545960e-03 | 3.346840e-02 |
| TC | UP | ENST00000557947.5 | TCF12-208:protein_coding:TCF12 | 1.027967e+01 | 1.070604e+00 | 3.306452e-07 | 1.641365e-05 |
| TC | UP | ENST00000557843.5 | TCF12-207:protein_coding:TCF12 | 1.654591e+02 | 2.177753e+00 | 2.134325e-04 | 2.948258e-03 |
| TC | UP | ENST00000559703.1 | TCF12-213:protein_coding:TCF12 | 1.597367e+01 | 8.952665e-01 | 5.578779e-03 | 3.635907e-02 |
| TC | UP | ENST00000558908.5 | TCF12-210:lncRNA:TCF12 | 3.593101e+00 | 8.432232e-01 | 6.667745e-03 | 4.149610e-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 TCF12 |
| 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_105136 | chr15 | 57243472:57243550:57251350:57251423:57253262:57253468 | 57251350:57251423 |
| exon_skip_116030 | chr15 | 57232712:57232856:57234043:57234107:57243472:57243515 | 57234043:57234107 |
| exon_skip_117746 | chr15 | 56921026:56921098:57001349:57001384:57063750:57063823 | 57001349:57001384 |
| exon_skip_145661 | chr15 | 57273033:57273262:57282445:57282598:57286157:57286251 | 57282445:57282598 |
| exon_skip_158744 | chr15 | 57091789:57091891:57166402:57166466:57192158:57192239 | 57166402:57166466 |
| exon_skip_161850 | chr15 | 57251350:57251423:57252421:57252492:57253262:57253468 | 57252421:57252492 |
| exon_skip_197474 | chr15 | 57166402:57166466:57192158:57192293:57197773:57197825 | 57192158:57192293 |
| exon_skip_228262 | chr15 | 56921026:56921098:57072653:57072714:57091789:57091829 | 57072653:57072714 |
| exon_skip_245889 | chr15 | 57231152:57231257:57232291:57232430:57232712:57232856 | 57232291:57232430 |
| exon_skip_247111 | chr15 | 56921026:56921098:57091789:57091891:57166402:57166428 | 57091789:57091891 |
| exon_skip_286305 | chr15 | 56921026:56921098:57063750:57063823:57091789:57091829 | 57063750:57063823 |
| exon_skip_50517 | chr15 | 57234043:57234107:57243472:57243550:57251350:57251423 | 57243472:57243550 |
| exon_skip_58831 | chr15 | 56921026:56921098:57063750:57063823:57091789:57091891 | 57063750:57063823 |
| exon_skip_70508 | chr15 | 56921026:56921098:57072653:57072714:57091789:57091891 | 57072653:57072714 |
| 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_161850 | MSBB_PG | 1.924000e-01 | 3.054167e-01 | -1.130167e-01 | 4.203890e-04 |
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Open reading frame (ORF) annotation in the exon skipping event for TCF12 |
| 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 |
| ENST00000267811 | 57063750 | 57063823 | Frame-shift |
| ENST00000557843 | 57063750 | 57063823 | Frame-shift |
| ENST00000267811 | 57166402 | 57166466 | Frame-shift |
| ENST00000557843 | 57166402 | 57166466 | Frame-shift |
| ENST00000267811 | 57232291 | 57232430 | Frame-shift |
| ENST00000557843 | 57232291 | 57232430 | Frame-shift |
| ENST00000267811 | 57251350 | 57251423 | Frame-shift |
| ENST00000557843 | 57251350 | 57251423 | 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 |
| ENST00000267811 | 57063750 | 57063823 | Frame-shift |
| ENST00000557843 | 57063750 | 57063823 | Frame-shift |
| ENST00000267811 | 57232291 | 57232430 | Frame-shift |
| ENST00000557843 | 57232291 | 57232430 | Frame-shift |
| 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 |
| ENST00000267811 | 57282445 | 57282598 | 3UTR-3CDS |
| ENST00000557843 | 57282445 | 57282598 | 3UTR-3CDS |
| ENST00000267811 | 57063750 | 57063823 | Frame-shift |
| ENST00000557843 | 57063750 | 57063823 | Frame-shift |
| ENST00000267811 | 57166402 | 57166466 | Frame-shift |
| ENST00000557843 | 57166402 | 57166466 | Frame-shift |
| ENST00000267811 | 57192158 | 57192293 | Frame-shift |
| ENST00000557843 | 57192158 | 57192293 | Frame-shift |
| ENST00000267811 | 57232291 | 57232430 | Frame-shift |
| ENST00000557843 | 57232291 | 57232430 | Frame-shift |
| ENST00000267811 | 57234043 | 57234107 | Frame-shift |
| ENST00000557843 | 57234043 | 57234107 | Frame-shift |
| ENST00000267811 | 57243472 | 57243550 | Frame-shift |
| ENST00000557843 | 57243472 | 57243550 | Frame-shift |
| ENST00000267811 | 57251350 | 57251423 | Frame-shift |
| ENST00000557843 | 57251350 | 57251423 | Frame-shift |
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Infer the effects of exon skipping event on protein functional features for TCF12 |
p-ENSG00000140262_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 |
| 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 |
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3'-UTR located exon skipping events that lost miRNA binding sites in TCF12 |
| 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 TCF12 |
| - 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 TCF12 |
| 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 TCF12 |
| 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 TCF12 |
| Correlated RBP and related information. |
| Tissue type | RBP name | Exon skip ID | Correlation coeifficient | P-value |
| CB | NUP42 | exon_skip_161850 | 5.800720e-01 | 3.914017e-15 |
| HCC | ZNF326 | exon_skip_161850 | -5.768297e-01 | 1.592779e-25 |
| HCC | SRSF11 | exon_skip_161850 | -5.136302e-01 | 1.032815e-19 |
| HCC | KHDRBS3 | exon_skip_161850 | -5.226256e-01 | 1.817908e-20 |
| HCC | PABPC1 | exon_skip_161850 | -4.083227e-01 | 2.362991e-12 |
| PCC | ZNF326 | exon_skip_161850 | -4.335507e-01 | 4.926453e-11 |
| PG | SRSF2 | exon_skip_161850 | 4.597936e-01 | 1.968388e-10 |
| PG | SRSF11 | exon_skip_161850 | 4.374001e-01 | 1.773580e-09 |
| PG | KHDRBS3 | exon_skip_161850 | 5.302023e-01 | 6.288839e-14 |
| PG | NUP42 | exon_skip_161850 | 5.206952e-01 | 2.082709e-13 |
| PG | CELF1 | exon_skip_161850 | 5.264855e-01 | 1.008839e-13 |
| PG | SART3 | exon_skip_161850 | 4.753256e-01 | 3.891338e-11 |
| STG | NUP42 | exon_skip_161850 | 4.222832e-01 | 3.011686e-04 |
| TC | SRSF2 | exon_skip_161850 | 4.608557e-01 | 1.597259e-09 |
| TC | NUP42 | exon_skip_161850 | 4.611781e-01 | 1.550767e-09 |
| TC | SRSF5 | exon_skip_161850 | 4.969472e-01 | 4.798928e-11 |
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RelatedDrugs for TCF12 |
| 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 TCF12 |
| 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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