This gene encodes a protein containing two characteristic WXXF motifs. The encoded protein localizes to clathrin-coated vesicles, where it binds components of the adapter protein complexes and aids in endocytosis. Loss of function of this gene results in early infantile epileptic encephalopathy-21. There is a pseudogene for this gene on chromosome 7. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jun 2014]
Transcription factors with Perturb-seq knockdown data for NECAP1. 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 = NECAP1 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 NECAP1, 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 |
|---|---|---|---|---|
| chr12:7,859,953–7,860,905 | 221.9 kb | Distal (>10kb) Multiome | 344 | |
| chr12:7,906,949–7,907,466 | 175.0 kb | Distal (>10kb) Multiome | 435 | |
| chr12:7,935,022–7,936,948 | 146.0 kb | Distal (>10kb) Multiome | 450 | |
| chr12:7,937,904–7,938,471 | 144.2 kb | Distal (>10kb) Multiome | 193 | |
| chr12:7,959,506–7,960,170 | 122.4 kb | Distal (>10kb) Multiome | 284 | |
| chr12:7,960,785–7,961,174 | 121.3 kb | Distal (>10kb) Multiome | 471 | |
| chr12:7,970,302–7,971,168 | 111.4 kb | Distal (>10kb) Multiome | 619 | |
| chr12:7,994,878–7,995,556 | 87.0 kb | Distal (>10kb) Multiome | 262 | |
| chr12:8,018,686–8,019,483 | 63.2 kb | Distal (>10kb) Multiome | 217 | |
| chr12:8,026,338–8,027,323 | 55.4 kb | Distal (>10kb) Multiome | 935 | |
| chr12:8,032,354–8,033,866 | 49.6 kb | Distal (>10kb) Multiome | 673 | |
| chr12:8,081,804–8,082,716 | 79 bp | At TSS Multiome | 840 | |
| chr12:8,227,234–8,228,048 | 145.3 kb | Distal (>10kb) Multiome | 86 | |
| chr12:8,242,239–8,244,415 | 161.1 kb | Distal (>10kb) Multiome | 348 | |
| chr12:8,317,343–8,317,958 | 235.4 kb | Distal (>10kb) Multiome | 109 |
Genomic view of the NECAP1 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.