NFIC

nuclear factor I C | CTF, CTF5, NF-I, NFI

The protein encoded by this gene belongs to the CTF/NF-I family. These are dimeric DNA-binding proteins, and function as cellular transcription factors and as replication factors for adenovirus DNA replication. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Oct 2011]

Biological processes 23 terms

DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228)DNA-binding transcription factor activity (GO:0003700)DNA-binding transcription factor activity (GO:0003700)DNA-binding transcription factor activity (GO:0003700)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)chromatin (GO:0000785)fibrillar center (GO:0001650)negative regulation of transcription by RNA polymerase II (GO:0000122)negative regulation of transcription by RNA polymerase II (GO:0000122)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of DNA-templated transcription (GO:0045893)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)protein binding (GO:0005515)regulation of DNA-templated transcription (GO:0006355)regulation of transcription by RNA polymerase II (GO:0006357)sequence-specific double-stranded DNA binding (GO:1990837)transcription by RNA polymerase II (GO:0006366)

Expression (TPM)

TFs regulating NFIC 0 TFs

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

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of NFIC, 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
chr19:3,185,437–3,186,577	249.3 kb	Distal (>10kb) Multiome	751
chr19:3,224,482–3,224,897	210.4 kb	Distal (>10kb) Multiome	253
chr19:3,275,036–3,277,129	158.8 kb	Distal (>10kb) Multiome	737
chr19:3,284,276–3,286,396	149.5 kb	Distal (>10kb) Multiome	555
chr19:3,360,114–3,360,563	74.8 kb	Distal (>10kb) Multiome	430
chr19:3,429,599–3,429,784	5.3 kb	Proximal (<10kb)	299
chr19:3,434,837–3,435,636	150 bp	At TSS Multiome	777
chr19:3,440,171–3,440,360	5.1 kb	Proximal (<10kb)	182
chr19:3,441,686–3,442,206	6.9 kb	Proximal (<10kb) Multiome	86
chr19:3,444,085–3,444,710	9.4 kb	Proximal (<10kb) Multiome	150
chr19:3,500,403–3,501,074	65.8 kb	Distal (>10kb) Multiome	886
chr19:3,505,575–3,507,061	71.1 kb	Distal (>10kb) Multiome	838
chr19:3,557,019–3,558,238	122.6 kb	Distal (>10kb) Multiome	811
chr19:3,572,147–3,574,664	137.7 kb	Distal (>10kb) Multiome	737
chr19:3,576,363–3,578,543	143.2 kb	Distal (>10kb) Multiome	346
chr19:3,606,342–3,607,177	171.8 kb	Distal (>10kb) Multiome	377
chr19:3,626,518–3,627,304	192.0 kb	Distal (>10kb) Multiome	833
chr19:3,699,968–3,700,899	265.5 kb	Distal (>10kb) Multiome	489
chr19:3,721,462–3,721,997	286.6 kb	Distal (>10kb) Multiome	760
chr19:3,722,652–3,723,093	287.9 kb	Distal (>10kb) Multiome	106

Genome Browser

Genomic view of the NFIC 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.