TBP
TATA-box binding protein | TBP1, TFIID, GTF2D1, SCA17

Initiation of transcription by RNA polymerase II requires the activities of more than 70 polypeptides. The protein that coordinates these activities is transcription factor IID (TFIID), which binds to the core promoter to position the polymerase properly, serves as the scaffold for assembly of the remainder of the transcription complex, and acts as a channel for regulatory signals. TFIID is composed of the TATA-binding protein (TBP) and a group of evolutionarily conserved proteins known as TBP-associated factors or TAFs. TAFs may participate in basal transcription, serve as coactivators, function in promoter recognition or modify general transcription factors (GTFs) to facilitate complex assembly and transcription initiation. This gene encodes TBP, the TATA-binding protein. A distinctive feature of TBP is a long string of glutamines in the N-terminus. This region of the protein modulates the DNA binding activity of the C terminus, and modulation of DNA binding affects the rate of transcription complex formation and initiation of transcription. The number of CAG repeats encoding the polyglutamine tract is usually 25-42, and expansion of the number of repeats to 45-66 increases the length of the polyglutamine string and is associated with spinocerebellar ataxia 17, a neurodegenerative disorder classified as a polyglutamine disease. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2016]

Member of: DE-6
Biological processes 53 terms
DNA binding (GO:0003677)DNA-binding transcription factor binding (GO:0140297)DNA-templated transcription initiation (GO:0006352)DNA-templated transcription initiation (GO:0006352)RNA polymerase I core promoter sequence-specific DNA binding (GO:0001164)RNA polymerase I preinitiation complex assembly (GO:0001188)RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)RNA polymerase II core promoter sequence-specific DNA binding (GO:0000979)RNA polymerase II general transcription initiation factor activity (GO:0016251)RNA polymerase II general transcription initiation factor activity (GO:0016251)RNA polymerase II general transcription initiation factor binding (GO:0001091)RNA polymerase II preinitiation complex assembly (GO:0051123)RNA polymerase II preinitiation complex assembly (GO:0051123)RNA polymerase II-specific DNA-binding transcription factor binding (GO:0061629)RNA polymerase III general transcription initiation factor activity (GO:0000995)RNA polymerase transcription factor SL1 complex (GO:0005668)RNA polymerase transcription factor SL1 complex (GO:0005668)TFIIB-class transcription factor binding (GO:0001093)aryl hydrocarbon receptor binding (GO:0017162)chromatin (GO:0000785)chromatin (GO:0000785)core promoter sequence-specific DNA binding (GO:0001046)cytoplasm (GO:0005737)enzyme binding (GO:0019899)euchromatin (GO:0000791)female pronucleus (GO:0001939)mRNA transcription by RNA polymerase II (GO:0042789)male pronucleus (GO:0001940)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of transcription by RNA polymerase III (GO:0045945)positive regulation of transcription initiation by RNA polymerase II (GO:0060261)pronucleus (GO:0045120)protein binding (GO:0005515)protein-containing complex (GO:0032991)regulation of DNA-templated transcription (GO:0006355)transcription by RNA polymerase II (GO:0006366)transcription by RNA polymerase II (GO:0006366)transcription by RNA polymerase II (GO:0006366)transcription by RNA polymerase II (GO:0006366)transcription by RNA polymerase III (GO:0006383)transcription by RNA polymerase III (GO:0006383)transcription cis-regulatory region binding (GO:0000976)transcription factor TFIIA complex (GO:0005672)transcription factor TFIID complex (GO:0005669)transcription factor TFIID complex (GO:0005669)transcription factor TFIID complex (GO:0005669)transcription initiation at RNA polymerase II promoter (GO:0006367)transcription initiation at RNA polymerase II promoter (GO:0006367)
Expression (TPM)
TBP — as a Regulated Gene

TFs regulating TBP 0 TFs

Transcription factors with Perturb-seq knockdown data for TBP. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = TBP upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to TBP

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of TBP, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.

Accessibility Element Dist. to TSS Link type TFs
chr6:169,701,339–169,702,982 852.2 kb Distal (>10kb) Multiome HiCAR 1050
chr6:169,789,764–169,790,892 764.0 kb Distal (>10kb) Multiome HiCAR 772
chr6:170,289,086–170,292,550 263.4 kb Distal (>10kb) Multiome 490
chr6:170,295,396–170,297,381 258.4 kb Distal (>10kb) Multiome 655
chr6:170,306,110–170,307,169 247.7 kb Distal (>10kb) Multiome 935
chr6:170,552,943–170,554,837 46 bp At TSS Multiome 1097
chr6:170,584,110–170,585,439 30.3 kb Distal (>10kb) Multiome 965

Genome Browser

Genomic view of the TBP locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.

chr6:169,691,339 – 170,595,439
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq