MARCH9 is a member of the MARCH family of membrane-bound E3 ubiquitin ligases (EC 6.3.2.19). MARCH enzymes add ubiquitin (see MIM 191339) to target lysines in substrate proteins, thereby signaling their vesicular transport between membrane compartments. MARCH9 induces internalization of several membrane glycoproteins and directs them to the endosomal compartment (Bartee et al., 2004 [PubMed 14722266]; Hoer et al., 2007 [PubMed 17174307]).[supplied by OMIM, Apr 2010]
Transcription factors with Perturb-seq knockdown data for MARCHF9. 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 = MARCHF9 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 MARCHF9, 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 |
|---|---|---|---|---|
| chr12:57,454,516–57,456,639 | 298.8 kb | Distal (>10kb) Multiome | 841 | |
| chr12:57,458,743–57,463,318 | 293.7 kb | Distal (>10kb) Multiome | 994 | |
| chr12:57,475,229–57,476,151 | 279.5 kb | Distal (>10kb) Multiome | 194 | |
| chr12:57,487,577–57,488,336 | 267.2 kb | Distal (>10kb) Multiome | 784 | |
| chr12:57,519,488–57,521,440 | 234.4 kb | Distal (>10kb) Multiome | 1029 | |
| chr12:57,521,541–57,523,658 | 232.4 kb | Distal (>10kb) Multiome | 960 | |
| chr12:57,546,771–57,547,419 | 207.9 kb | Distal (>10kb) Multiome | 623 | |
| chr12:57,549,654–57,550,343 | 205.1 kb | Distal (>10kb) Multiome | 366 | |
| chr12:57,583,383–57,583,948 | 171.6 kb | Distal (>10kb) Multiome | 353 | |
| chr12:57,590,813–57,591,877 | 163.9 kb | Distal (>10kb) Multiome | 738 | |
| chr12:57,610,841–57,611,876 | 143.6 kb | Distal (>10kb) Multiome | 558 | |
| chr12:57,621,603–57,622,199 | 133.2 kb | Distal (>10kb) Multiome | 446 | |
| chr12:57,631,837–57,633,369 | 122.0 kb | Distal (>10kb) Multiome | 706 | |
| chr12:57,693,486–57,694,647 | 61.1 kb | Distal (>10kb) Multiome | 757 | |
| chr12:57,726,079–57,726,879 | 28.8 kb | Distal (>10kb) Multiome | 597 | |
| chr12:57,744,434–57,745,735 | 10.1 kb | Distal (>10kb) Multiome HiCAR | 822 | |
| chr12:57,751,806–57,753,147 | 2.6 kb | Proximal (<10kb) Multiome | 1030 | |
| chr12:57,754,455–57,756,188 | 173 bp | At TSS Multiome | 616 | |
| chr12:57,756,649–57,757,193 | 1.5 kb | Proximal (<10kb) | 315 | |
| chr12:57,765,020–57,765,720 | 10.3 kb | Distal (>10kb) Multiome HiCAR | 472 | |
| chr12:57,766,452–57,767,514 | 12.0 kb | Distal (>10kb) Multiome HiCAR | 330 | |
| chr12:57,771,528–57,773,018 | 17.0 kb | Distal (>10kb) Multiome | 1006 | |
| chr12:57,782,579–57,783,204 | 27.7 kb | Distal (>10kb) Multiome | 916 | |
| chr12:57,844,422–57,847,797 | 91.9 kb | Distal (>10kb) Multiome | 1032 | |
| chr12:57,852,281–57,853,469 | 97.8 kb | Distal (>10kb) Multiome | 295 | |
| chr12:57,896,473–57,897,915 | 141.9 kb | Distal (>10kb) Multiome | 419 | |
| chr12:57,935,860–57,936,461 | 181.1 kb | Distal (>10kb) Multiome | 650 | |
| chr12:57,940,778–57,942,227 | 186.4 kb | Distal (>10kb) Multiome | 836 |
Genomic view of the MARCHF9 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.