HLA-DMA belongs to the HLA class II alpha chain paralogues. This class II molecule is a heterodimer consisting of an alpha (DMA) and a beta chain (DMB), both anchored in the membrane. It is located in intracellular vesicles. DM plays a central role in the peptide loading of MHC class II molecules by helping to release the CLIP molecule from the peptide binding site. Class II molecules are expressed in antigen presenting cells (APC: B lymphocytes, dendritic cells, macrophages). The alpha chain is approximately 33-35 kDa and its gene contains 5 exons. Exon one encodes the leader peptide, exons 2 and 3 encode the two extracellular domains, exon 4 encodes the transmembrane domain and the cytoplasmic tail. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for HLA-DMA. 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 = HLA-DMA 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 HLA-DMA, 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 |
|---|---|---|---|---|
| chr6:32,837,981–32,838,977 | 129.8 kb | Distal (>10kb) Multiome | 821 | |
| chr6:32,844,222–32,845,071 | 123.7 kb | Distal (>10kb) Multiome | 534 | |
| chr6:32,853,077–32,854,448 | 114.4 kb | Distal (>10kb) Multiome | 841 | |
| chr6:32,893,822–32,895,230 | 73.8 kb | Distal (>10kb) Multiome | 774 | |
| chr6:32,952,883–32,953,496 | 15.2 kb | Distal (>10kb) Multiome | 366 | |
| chr6:32,967,391–32,967,842 | 601 bp | At TSS | 409 | |
| chr6:32,967,972–32,971,214 | 311 bp | At TSS Multiome | 1227 | |
| chr6:32,971,467–32,973,408 | 3.6 kb | Proximal (<10kb) Multiome | 1115 | |
| chr6:32,973,916–32,974,189 | 5.5 kb | Proximal (<10kb) | 88 | |
| chr6:33,009,348–33,009,899 | 41.2 kb | Distal (>10kb) Multiome | 184 | |
| chr6:33,080,635–33,081,087 | 112.2 kb | Distal (>10kb) Multiome | 141 | |
| chr6:33,161,505–33,162,100 | 193.3 kb | Distal (>10kb) Multiome | 589 | |
| chr6:33,199,801–33,201,289 | 232.2 kb | Distal (>10kb) Multiome | 1049 | |
| chr6:33,204,263–33,205,422 | 236.2 kb | Distal (>10kb) Multiome | 762 | |
| chr6:33,208,069–33,208,990 | 240.2 kb | Distal (>10kb) Multiome | 858 | |
| chr6:33,248,132–33,249,983 | 279.8 kb | Distal (>10kb) Multiome | 961 |
Genomic view of the HLA-DMA 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.