This gene encodes a member of the regulatory factor X (RFX) family of transcription factors, which are characterized by a winged-helix DNA-binding domain. The encoded transcription factor contains an N-terminal activation domain and a C-terminal repression domain, and may activate or repress target gene expression depending on cellular context. This transcription factor has been shown to regulate a wide variety of genes involved in immunity and cancer, including the MHC class II genes and genes that may be involved in cancer progression. This gene exhibits altered expression in glioblastoma and the autoimmune disease systemic lupus erythematosis (SLE). [provided by RefSeq, Jul 2016]
Transcription factors with Perturb-seq knockdown data for RFX1. 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 = RFX1 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 RFX1, 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 |
|---|---|---|---|---|
| chr19:13,747,559–13,748,233 | 258.5 kb | Distal (>10kb) Multiome | 785 | |
| chr19:13,774,293–13,775,050 | 231.8 kb | Distal (>10kb) Multiome | 904 | |
| chr19:13,794,728–13,795,999 | 211.1 kb | Distal (>10kb) Multiome | 763 | |
| chr19:13,817,290–13,818,525 | 188.3 kb | Distal (>10kb) Multiome | 368 | |
| chr19:13,833,328–13,834,074 | 172.6 kb | Distal (>10kb) Multiome | 638 | |
| chr19:13,841,592–13,843,282 | 163.4 kb | Distal (>10kb) Multiome | 600 | |
| chr19:13,846,368–13,848,126 | 158.6 kb | Distal (>10kb) Multiome | 1040 | |
| chr19:13,850,226–13,850,701 | 155.8 kb | Distal (>10kb) Multiome | 516 | |
| chr19:13,861,855–13,862,533 | 144.0 kb | Distal (>10kb) Multiome | 655 | |
| chr19:13,872,706–13,873,325 | 133.3 kb | Distal (>10kb) Multiome | 254 | |
| chr19:13,879,942–13,880,779 | 126.0 kb | Distal (>10kb) Multiome | 780 | |
| chr19:13,905,895–13,906,734 | 100.2 kb | Distal (>10kb) Multiome | 835 | |
| chr19:13,951,898–13,953,117 | 54.0 kb | Distal (>10kb) Multiome | 667 | |
| chr19:13,962,408–13,964,055 | 42.6 kb | Distal (>10kb) Multiome | 166 | |
| chr19:13,978,193–13,979,385 | 27.7 kb | Distal (>10kb) Multiome | 238 | |
| chr19:14,005,474–14,007,363 | 204 bp | At TSS Multiome | 1098 | |
| chr19:14,031,574–14,032,483 | 25.8 kb | Distal (>10kb) Multiome | 726 | |
| chr19:14,057,383–14,057,841 | 51.4 kb | Distal (>10kb) Multiome | 244 | |
| chr19:14,071,936–14,072,417 | 65.9 kb | Distal (>10kb) Multiome | 676 | |
| chr19:14,072,991–14,073,911 | 67.3 kb | Distal (>10kb) Multiome | 589 | |
| chr19:14,081,022–14,082,024 | 75.2 kb | Distal (>10kb) Multiome | 806 | |
| chr19:14,089,535–14,092,049 | 84.7 kb | Distal (>10kb) Multiome | 766 | |
| chr19:14,117,519–14,118,617 | 111.6 kb | Distal (>10kb) Multiome | 734 | |
| chr19:14,136,079–14,137,770 | 130.6 kb | Distal (>10kb) Multiome | 978 | |
| chr19:14,206,623–14,207,699 | 200.9 kb | Distal (>10kb) Multiome | 444 | |
| chr19:14,247,378–14,248,008 | 241.3 kb | Distal (>10kb) Multiome | 109 | |
| chr19:14,248,166–14,249,635 | 242.5 kb | Distal (>10kb) Multiome | 230 | |
| chr19:14,264,813–14,266,130 | 259.2 kb | Distal (>10kb) Multiome | 223 | |
| chr19:14,294,831–14,295,420 | 288.8 kb | Distal (>10kb) Multiome | 60 |
Genomic view of the RFX1 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.