This gene encodes a member of the repulsive guidance molecule family. The encoded protein is a glycosylphosphatidylinositol-anchored glycoprotein that functions as an axon guidance protein in the developing and adult central nervous system. This protein may also function as a tumor suppressor in some cancers. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Oct 2009]
Transcription factors with Perturb-seq knockdown data for RGMA. 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 = RGMA 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 RGMA, 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 |
|---|---|---|---|---|
| chr15:92,808,119–92,810,229 | 279.9 kb | Distal (>10kb) Multiome | 1196 | |
| chr15:92,820,255–92,820,821 | 268.7 kb | Distal (>10kb) Multiome | 703 | |
| chr15:92,831,519–92,832,242 | 257.3 kb | Distal (>10kb) Multiome | 904 | |
| chr15:92,881,916–92,883,525 | 206.6 kb | Distal (>10kb) Multiome | 906 | |
| chr15:92,899,945–92,900,660 | 188.9 kb | Distal (>10kb) Multiome | 712 | |
| chr15:92,903,883–92,904,823 | 184.9 kb | Distal (>10kb) Multiome | 1080 | |
| chr15:93,029,697–93,031,417 | 58.4 kb | Distal (>10kb) Multiome | 387 | |
| chr15:93,061,337–93,062,093 | 27.4 kb | Distal (>10kb) Multiome | 112 | |
| chr15:93,072,427–93,074,030 | 16.0 kb | Distal (>10kb) Multiome | 430 | |
| chr15:93,087,724–93,089,709 | 99 bp | At TSS Multiome | 499 | |
| chr15:93,236,114–93,237,540 | 148.0 kb | Distal (>10kb) Multiome HiCAR | 241 | |
| chr15:93,241,594–93,242,623 | 152.8 kb | Distal (>10kb) Multiome HiCAR | 214 | |
| chr15:93,264,156–93,264,841 | 175.1 kb | Distal (>10kb) Multiome HiCAR | 90 | |
| chr15:93,280,128–93,280,916 | 191.2 kb | Distal (>10kb) Multiome | 194 | |
| chr15:93,331,353–93,332,146 | 242.6 kb | Distal (>10kb) Multiome HiCAR | 316 | |
| chr15:93,418,389–93,419,134 | 329.6 kb | Distal (>10kb) Multiome HiCAR | 121 | |
| chr15:93,829,073–93,830,901 | 740.6 kb | Distal (>10kb) Multiome HiCAR | 379 | |
| chr15:94,126,833–94,127,772 | 1038.0 kb | Distal (>10kb) Multiome HiCAR | 42 |
Genomic view of the RGMA 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.