NCBP1

nuclear cap binding protein subunit 1 | CBP80, Sto1, NCBP

The product of this gene is a component of the nuclear cap-binding protein complex (CBC), which binds to the monomethylated 5' cap of nascent pre-mRNA in the nucleoplasm. The encoded protein promotes high-affinity mRNA-cap binding and associates with the CTD of RNA polymerase II. The CBC promotes pre-mRNA splicing, 3'-end processing, RNA nuclear export, and nonsense-mediated mRNA decay. [provided by RefSeq, Jul 2008]

Member of: DE-6

Biological processes 60 terms

7-methylguanosine mRNA capping (GO:0006370)RNA 7-methylguanosine cap binding (GO:0000340)RNA binding (GO:0003723)RNA binding (GO:0003723)RNA binding (GO:0003723)RNA cap binding (GO:0000339)RNA cap binding (GO:0000339)RNA cap binding (GO:0000339)RNA cap binding complex (GO:0034518)RNA cap binding complex (GO:0034518)RNA catabolic process (GO:0006401)RNA metabolic process (GO:0016070)RNA splicing (GO:0008380)alternative mRNA splicing, via spliceosome (GO:0000380)cap-dependent translational initiation (GO:0002191)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytosol (GO:0005829)cytosol (GO:0005829)defense response to virus (GO:0051607)histone mRNA metabolic process (GO:0008334)histone mRNA metabolic process (GO:0008334)mRNA 3'-end processing (GO:0031124)mRNA binding (GO:0003729)mRNA export from nucleus (GO:0006406)mRNA export from nucleus (GO:0006406)mRNA export from nucleus (GO:0006406)mRNA export from nucleus (GO:0006406)mRNA metabolic process (GO:0016071)mRNA splicing, via spliceosome (GO:0000398)mRNA transcription by RNA polymerase II (GO:0042789)mRNA transcription by RNA polymerase II (GO:0042789)miRNA-mediated post-transcriptional gene silencing (GO:0035195)molecular adaptor activity (GO:0060090)nuclear cap binding complex (GO:0005846)nuclear cap binding complex (GO:0005846)nuclear cap binding complex (GO:0005846)nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (GO:0000184)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of cell growth (GO:0030307)positive regulation of mRNA 3'-end processing (GO:0031442)positive regulation of mRNA splicing, via spliceosome (GO:0048026)positive regulation of transcription elongation by RNA polymerase II (GO:0032968)primary miRNA processing (GO:0031053)protein binding (GO:0005515)regulation of mRNA processing (GO:0050684)regulation of translational initiation (GO:0006446)regulatory ncRNA-mediated post-transcriptional gene silencing (GO:0035194)ribonucleoprotein complex (GO:1990904)snRNA export from nucleus (GO:0006408)snRNA export from nucleus (GO:0006408)spliceosomal complex assembly (GO:0000245)

Expression (TPM)

TFs regulating NCBP1 0 TFs

Transcription factors with Perturb-seq knockdown data for NCBP1. 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 = NCBP1 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

Rows:

Elements linked to NCBP1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of NCBP1, 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.

Element	Dist. to TSS	Link type	TFs
chr9:97,386,832–97,387,759	246.6 kb	Distal (>10kb) Multiome	555
chr9:97,411,603–97,412,682	221.8 kb	Distal (>10kb) Multiome HiCAR	864
chr9:97,436,823–97,437,760	196.4 kb	Distal (>10kb) Multiome	98
chr9:97,501,163–97,503,374	132.3 kb	Distal (>10kb) Multiome	581
chr9:97,528,160–97,528,802	105.3 kb	Distal (>10kb) Multiome	118
chr9:97,598,751–97,599,712	34.8 kb	Distal (>10kb) Multiome	274
chr9:97,632,371–97,634,267	369 bp	At TSS Multiome	1027
chr9:97,696,750–97,697,733	63.5 kb	Distal (>10kb) Multiome	836
chr9:97,710,703–97,711,693	77.4 kb	Distal (>10kb) Multiome	257
chr9:97,741,053–97,741,796	107.6 kb	Distal (>10kb) Multiome	305
chr9:97,803,235–97,804,055	169.8 kb	Distal (>10kb) Multiome	679
chr9:97,853,103–97,855,002	220.2 kb	Distal (>10kb) Multiome	323
chr9:97,922,022–97,923,085	288.6 kb	Distal (>10kb) Multiome	1110

Genome Browser

Genomic view of the NCBP1 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.