HIV-1, the causative agent of acquired immunodeficiency syndrome (AIDS), contains an RNA genome that produces a chromosomally integrated DNA during the replicative cycle. Activation of HIV-1 gene expression by the transactivator Tat is dependent on an RNA regulatory element (TAR) located downstream of the transcription initiation site. This element forms a stable stem-loop structure and can be bound by either the protein encoded by this gene or by RNA polymerase II. This protein may act to disengage RNA polymerase II from TAR during transcriptional elongation. Alternatively spliced transcripts of this gene may exist, but their full-length natures have not been determined. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for TARBP1. 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 = TARBP1 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of TARBP1, 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 |
|---|---|---|---|---|
| chr1:234,214,031–234,215,631 | 264.0 kb | Distal (>10kb) Multiome | 327 | |
| chr1:234,229,899–234,231,030 | 248.7 kb | Distal (>10kb) Multiome | 183 | |
| chr1:234,261,272–234,262,769 | 217.3 kb | Distal (>10kb) Multiome | 234 | |
| chr1:234,281,735–234,282,611 | 197.0 kb | Distal (>10kb) Multiome | 140 | |
| chr1:234,372,993–234,374,088 | 105.7 kb | Distal (>10kb) Multiome | 1034 | |
| chr1:234,478,073–234,479,488 | 211 bp | At TSS Multiome | 772 | |
| chr1:234,490,875–234,491,564 | 12.0 kb | Distal (>10kb) Multiome | 380 | |
| chr1:234,599,730–234,600,673 | 120.9 kb | Distal (>10kb) Multiome | 1062 | |
| chr1:234,608,182–234,611,760 | 130.9 kb | Distal (>10kb) Multiome | 1183 | |
| chr1:234,724,044–234,724,506 | 245.1 kb | Distal (>10kb) Multiome | 1023 | |
| chr1:234,750,669–234,751,976 | 272.2 kb | Distal (>10kb) Multiome | 369 | |
| chr1:235,093,150–235,094,131 | 614.6 kb | Distal (>10kb) Multiome HiCAR | 491 |
Genomic view of the TARBP1 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.