This gene is a member of the cytidine deaminase gene family. It is one of a group of related genes found in a cluster, thought to result from gene duplication, on chromosome 22. Members of the cluster encode proteins that are structurally and functionally related to the C to U RNA-editing cytidine deaminase APOBEC1 and inhibit retroviruses, such as HIV, by deaminating cytosine residues in nascent retroviral cDNA. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for APOBEC3D. 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 = APOBEC3D 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 APOBEC3D, 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 |
|---|---|---|---|---|
| chr22:38,755,428–38,756,383 | 265.1 kb | Distal (>10kb) Multiome | 770 | |
| chr22:38,793,674–38,794,378 | 227.0 kb | Distal (>10kb) Multiome | 484 | |
| chr22:38,843,207–38,844,443 | 177.3 kb | Distal (>10kb) Multiome | 585 | |
| chr22:38,866,394–38,866,832 | 154.5 kb | Distal (>10kb) Multiome | 76 | |
| chr22:38,871,208–38,873,237 | 148.8 kb | Distal (>10kb) Multiome | 758 | |
| chr22:39,014,028–39,014,530 | 6.9 kb | Proximal (<10kb) Multiome | 367 | |
| chr22:39,020,588–39,021,215 | 176 bp | At TSS Multiome | 149 | |
| chr22:39,040,158–39,041,304 | 19.8 kb | Distal (>10kb) Multiome | 237 | |
| chr22:39,077,158–39,077,634 | 56.2 kb | Distal (>10kb) Multiome | 66 | |
| chr22:39,087,857–39,088,400 | 66.9 kb | Distal (>10kb) Multiome | 32 | |
| chr22:39,144,772–39,146,359 | 124.6 kb | Distal (>10kb) Multiome | 668 | |
| chr22:39,152,016–39,153,700 | 131.6 kb | Distal (>10kb) Multiome | 607 | |
| chr22:39,170,852–39,171,359 | 150.0 kb | Distal (>10kb) Multiome | 425 | |
| chr22:39,174,292–39,175,258 | 153.8 kb | Distal (>10kb) Multiome | 688 | |
| chr22:39,179,438–39,180,229 | 158.6 kb | Distal (>10kb) Multiome | 84 | |
| chr22:39,229,884–39,230,835 | 209.1 kb | Distal (>10kb) Multiome | 417 | |
| chr22:39,242,211–39,244,345 | 221.8 kb | Distal (>10kb) Multiome | 605 | |
| chr22:39,310,537–39,311,897 | 290.0 kb | Distal (>10kb) Multiome | 655 | |
| chr22:39,319,163–39,320,470 | 298.6 kb | Distal (>10kb) Multiome | 968 |
Genomic view of the APOBEC3D 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.