This gene is a member of the H/ACA snoRNPs (small nucleolar ribonucleoproteins) gene family. snoRNPs are involved in various aspects of rRNA processing and modification and have been classified into two families: C/D and H/ACA. The H/ACA snoRNPs also include the DKC1, NOLA1 and NOLA3 proteins. These four H/ACA snoRNP proteins localize to the dense fibrillar components of nucleoli and to coiled (Cajal) bodies in the nucleus. Both 18S rRNA production and rRNA pseudouridylation are impaired if any one of the four proteins is depleted. The four H/ACA snoRNP proteins are also components of the telomerase complex. This gene encodes a protein related to Saccharomyces cerevisiae Nhp2p. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2008]
Transcription factors with Perturb-seq knockdown data for NHP2. 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 = NHP2 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 NHP2, 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 |
|---|---|---|---|---|
| chr5:178,075,958–178,076,432 | 77.7 kb | Distal (>10kb) Multiome HiCAR | 336 | |
| chr5:178,113,136–178,114,807 | 40.4 kb | Distal (>10kb) Multiome HiCAR | 620 | |
| chr5:178,130,402–178,131,452 | 23.0 kb | Distal (>10kb) Multiome | 875 | |
| chr5:178,146,049–178,146,288 | 7.6 kb | Proximal (<10kb) | 293 | |
| chr5:178,153,562–178,154,391 | 121 bp | At TSS Multiome | 695 | |
| chr5:178,164,084–178,164,721 | 10.5 kb | Distal (>10kb) Multiome | 514 | |
| chr5:178,179,895–178,180,860 | 26.5 kb | Distal (>10kb) Multiome | 283 | |
| chr5:178,203,935–178,205,708 | 50.5 kb | Distal (>10kb) Multiome | 995 | |
| chr5:178,231,971–178,233,141 | 78.7 kb | Distal (>10kb) Multiome | 764 |
Genomic view of the NHP2 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.