Major histocompatibility (MHC) class II molecules are transmembrane proteins that have a central role in development and control of the immune system. The protein encoded by this gene, along with regulatory factor X-associated protein and regulatory factor-5, forms a complex that binds to the X box motif of certain MHC class II gene promoters and activates their transcription. Once bound to the promoter, this complex associates with the non-DNA-binding factor MHC class II transactivator, which controls the cell type specificity and inducibility of MHC class II gene expression. This protein contains ankyrin repeats involved in protein-protein interactions. Mutations in this gene have been linked to bare lymphocyte syndrome type II, complementation group B. Multiple alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Jul 2013]
Transcription factors with Perturb-seq knockdown data for RFXANK. 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 = RFXANK 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 RFXANK, 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 |
|---|---|---|---|---|
| chr19:18,895,036–18,896,591 | 296.8 kb | Distal (>10kb) Multiome | 554 | |
| chr19:18,918,971–18,919,972 | 273.4 kb | Distal (>10kb) Multiome | 828 | |
| chr19:18,932,038–18,933,012 | 260.4 kb | Distal (>10kb) Multiome | 312 | |
| chr19:18,940,835–18,941,417 | 251.7 kb | Distal (>10kb) Multiome | 336 | |
| chr19:19,017,061–19,017,561 | 175.7 kb | Distal (>10kb) Multiome | 21 | |
| chr19:19,032,820–19,034,059 | 159.3 kb | Distal (>10kb) Multiome | 944 | |
| chr19:19,063,253–19,064,386 | 129.2 kb | Distal (>10kb) Multiome | 781 | |
| chr19:19,105,310–19,106,514 | 87.2 kb | Distal (>10kb) Multiome | 447 | |
| chr19:19,110,429–19,110,857 | 82.3 kb | Distal (>10kb) Multiome | 131 | |
| chr19:19,119,998–19,121,362 | 72.4 kb | Distal (>10kb) Multiome | 304 | |
| chr19:19,138,171–19,138,698 | 54.5 kb | Distal (>10kb) Multiome | 642 | |
| chr19:19,170,055–19,170,692 | 22.6 kb | Distal (>10kb) Multiome | 403 | |
| chr19:19,185,830–19,186,229 | 6.7 kb | Proximal (<10kb) | 287 | |
| chr19:19,191,912–19,193,209 | 411 bp | At TSS Multiome | 939 | |
| chr19:19,202,895–19,203,773 | 10.5 kb | Distal (>10kb) Multiome | 599 | |
| chr19:19,224,938–19,225,553 | 32.2 kb | Distal (>10kb) Multiome | 646 | |
| chr19:19,261,403–19,261,973 | 68.7 kb | Distal (>10kb) Multiome | 205 | |
| chr19:19,272,869–19,273,464 | 80.2 kb | Distal (>10kb) Multiome | 236 | |
| chr19:19,320,030–19,321,531 | 127.7 kb | Distal (>10kb) Multiome | 839 | |
| chr19:19,384,944–19,386,424 | 192.6 kb | Distal (>10kb) Multiome | 788 | |
| chr19:19,405,072–19,406,890 | 212.7 kb | Distal (>10kb) Multiome | 1014 | |
| chr19:19,461,886–19,462,726 | 269.4 kb | Distal (>10kb) Multiome | 345 |
Genomic view of the RFXANK 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.