This gene encodes a member of the LIV-1 subfamily of the ZIP transporter family. The encoded transmembrane protein functions as a zinc transporter. Mutations in this gene have been associated with the spondylocheiro dysplastic form of Ehlers-Danlos syndrome. Alternate transcript variants have been found for this gene. [provided by RefSeq, Jan 2016]
Transcription factors with Perturb-seq knockdown data for SLC39A13. 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 = SLC39A13 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 SLC39A13, 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 |
|---|---|---|---|---|
| chr11:47,160,949–47,161,864 | 247.1 kb | Distal (>10kb) Multiome | 322 | |
| chr11:47,176,472–47,177,856 | 231.6 kb | Distal (>10kb) Multiome | 857 | |
| chr11:47,184,866–47,187,095 | 222.1 kb | Distal (>10kb) Multiome | 849 | |
| chr11:47,214,114–47,215,529 | 193.8 kb | Distal (>10kb) Multiome | 785 | |
| chr11:47,248,482–47,249,399 | 159.7 kb | Distal (>10kb) Multiome | 1059 | |
| chr11:47,257,299–47,258,204 | 150.8 kb | Distal (>10kb) Multiome | 519 | |
| chr11:47,259,310–47,259,960 | 149.0 kb | Distal (>10kb) Multiome | 270 | |
| chr11:47,268,988–47,270,613 | 138.8 kb | Distal (>10kb) Multiome | 884 | |
| chr11:47,354,896–47,355,720 | 53.3 kb | Distal (>10kb) Multiome | 670 | |
| chr11:47,399,791–47,400,763 | 8.3 kb | Proximal (<10kb) Multiome | 450 | |
| chr11:47,400,847–47,401,240 | 7.4 kb | Proximal (<10kb) | 225 | |
| chr11:47,407,671–47,409,059 | 235 bp | At TSS Multiome | 986 | |
| chr11:47,412,228–47,412,433 | 3.6 kb | Proximal (<10kb) | 223 | |
| chr11:47,425,998–47,427,263 | 17.9 kb | Distal (>10kb) Multiome | 879 | |
| chr11:47,508,005–47,509,036 | 99.9 kb | Distal (>10kb) Multiome | 73 | |
| chr11:47,552,255–47,553,700 | 144.6 kb | Distal (>10kb) Multiome | 834 | |
| chr11:47,564,988–47,566,330 | 157.0 kb | Distal (>10kb) Multiome | 842 | |
| chr11:47,578,427–47,579,510 | 170.3 kb | Distal (>10kb) Multiome | 1080 | |
| chr11:47,589,692–47,590,847 | 181.7 kb | Distal (>10kb) Multiome | 161 | |
| chr11:47,594,122–47,594,733 | 185.7 kb | Distal (>10kb) Multiome | 153 | |
| chr11:47,598,993–47,599,885 | 190.7 kb | Distal (>10kb) Multiome | 67 | |
| chr11:47,642,000–47,643,006 | 233.9 kb | Distal (>10kb) Multiome | 973 |
Genomic view of the SLC39A13 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.