This gene represents a retrogene of RNA binding motif protein, X-linked (RBMX), which is located on chromosome X. While all introns in the coding sequence have been processed out compared to the RBMX locus, the ORF is intact and there is specific evidence for transcription at this location. The preservation of the ORF by purifying selection in all Old World monkeys carrying it suggests that this locus is likely to be functional, possibly during male meiosis when X chromosomal genes are silenced or during haploid stages of spermatogenesis. This gene shares 5' exon structure with the cysteine conjugate-beta lyase 2 locus on chromosome 1, but the coding sequences are non-overlapping. Alternative splicing results in two transcript variants. [provided by RefSeq, Jun 2009]
Transcription factors with Perturb-seq knockdown data for RBMXL1. 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 = RBMXL1 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 RBMXL1, 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 |
|---|---|---|---|---|
| chr1:88,890,883–88,892,134 | 101.2 kb | Distal (>10kb) Multiome | 949 | |
| chr1:88,983,912–88,984,519 | 8.3 kb | Proximal (<10kb) | 149 | |
| chr1:88,991,587–88,991,863 | 908 bp | At TSS | 186 | |
| chr1:88,991,977–88,993,909 | 115 bp | At TSS Multiome | 925 | |
| chr1:88,997,721–88,997,905 | 4.9 kb | Proximal (<10kb) | 3 | |
| chr1:88,998,766–88,999,021 | 6.0 kb | Proximal (<10kb) | 113 | |
| chr1:89,523,795–89,525,737 | 532.1 kb | Distal (>10kb) Multiome HiCAR | 1043 |
Genomic view of the RBMXL1 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.