The protein encoded by this gene is a member of a family of nuclear proteins related by the presence of a methyl-CpG binding domain (MBD). These proteins are capable of binding specifically to methylated DNA, and some members can also repress transcription from methylated gene promoters. This protein contains multiple domains: MBD at the N-terminus that functions both in binding to methylated DNA and in protein interactions; several CXXC-type zinc finger domains that mediate binding to non-methylated CpG dinucleotides; transcriptional repression domain (TRD) at the C-terminus that is involved in transcription repression and in protein interactions. Numerous alternatively spliced transcript variants encoding different isoforms have been noted for this gene.[provided by RefSeq, Feb 2011]
Transcription factors with Perturb-seq knockdown data for MBD1. 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 = MBD1 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 MBD1, 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 |
|---|---|---|---|---|
| chr18:50,194,148–50,195,562 | 86.4 kb | Distal (>10kb) Multiome | 482 | |
| chr18:50,230,869–50,232,199 | 49.8 kb | Distal (>10kb) Multiome | 139 | |
| chr18:50,232,326–50,232,896 | 48.7 kb | Distal (>10kb) Multiome | 108 | |
| chr18:50,266,119–50,266,730 | 15.0 kb | Distal (>10kb) Multiome | 493 | |
| chr18:50,268,096–50,268,782 | 13.0 kb | Distal (>10kb) Multiome | 343 | |
| chr18:50,281,123–50,282,656 | 156 bp | At TSS Multiome | 877 | |
| chr18:50,287,072–50,288,411 | 6.4 kb | Proximal (<10kb) Multiome | 897 | |
| chr18:50,307,523–50,307,991 | 26.3 kb | Distal (>10kb) Multiome | 265 | |
| chr18:50,374,233–50,375,652 | 93.5 kb | Distal (>10kb) Multiome | 732 | |
| chr18:50,398,965–50,399,883 | 117.7 kb | Distal (>10kb) Multiome | 106 | |
| chr18:50,559,125–50,561,284 | 278.5 kb | Distal (>10kb) Multiome | 350 |
Genomic view of the MBD1 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.