In vertebrates, the genes encoding the class of transcription factors called homeobox genes are found in clusters named A, B, C, and D on four separate chromosomes. Expression of these proteins is spatially and temporally regulated during embryonic development. This gene is part of the A cluster on chromosome 7 and encodes a DNA-binding transcription factor that may regulate gene expression, morphogenesis, and differentiation. More specifically, it may function in fertility, embryo viability, and regulation of hematopoietic lineage commitment. Alternatively spliced transcript variants have been described. Read-through transcription also exists between this gene and the downstream homeobox A9 (HOXA9) gene. [provided by RefSeq, Mar 2011]
Transcription factors with Perturb-seq knockdown data for HOXA10. 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 = HOXA10 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 HOXA10, 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 |
|---|---|---|---|---|
| chr7:27,171,388–27,171,582 | 8.7 kb | Proximal (<10kb) | 154 | |
| chr7:27,173,233–27,174,630 | 5.6 kb | Proximal (<10kb) | 329 | |
| chr7:27,175,708–27,176,093 | 4.2 kb | Proximal (<10kb) | 88 | |
| chr7:27,179,593–27,180,372 | at TSS | At TSS | 400 | |
| chr7:27,182,906–27,183,713 | 2.6 kb | Proximal (<10kb) | 168 | |
| chr7:27,184,386–27,185,008 | 4.1 kb | Proximal (<10kb) | 294 | |
| chr7:27,189,272–27,189,665 | 9.0 kb | Proximal (<10kb) | 103 |
Genomic view of the HOXA10 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.