NFIB

nuclear factor I B | NFI-RED, NFIB2, NFIB3

Enables DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and transcription regulator inhibitor activity. Involved in brain development and regulation of DNA-templated transcription. Located in fibrillar center and nucleoplasm. [provided by Alliance of Genome Resources, Jul 2025]

Member of: DE-3 DE-3.6

Biological processes 55 terms

DNA binding (GO:0003677)DNA binding (GO:0003677)DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228)DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228)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)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)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)anterior commissure morphogenesis (GO:0021960)anterior commissure morphogenesis (GO:0021960)brain development (GO:0007420)cell proliferation in forebrain (GO:0021846)cerebellar mossy fiber (GO:0044300)cerebellar mossy fiber (GO:0044300)chondrocyte differentiation (GO:0002062)chondrocyte differentiation (GO:0002062)chromatin (GO:0000785)club cell differentiation (GO:0060486)club cell differentiation (GO:0060486)commissural neuron axon guidance (GO:0071679)commissural neuron axon guidance (GO:0071679)fibrillar center (GO:0001650)gene expression (GO:0010467)glial cell differentiation (GO:0010001)glial cell differentiation (GO:0010001)lung ciliated cell differentiation (GO:0061141)lung ciliated cell differentiation (GO:0061141)negative regulation of DNA binding (GO:0043392)negative regulation of epithelial cell proliferation involved in lung morphogenesis (GO:2000795)negative regulation of epithelial cell proliferation involved in lung morphogenesis (GO:2000795)negative regulation of mesenchymal cell proliferation involved in lung development (GO:2000791)negative regulation of mesenchymal cell proliferation involved in lung development (GO:2000791)negative regulation of miRNA transcription (GO:1902894)negative regulation of transcription by RNA polymerase II (GO:0000122)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of DNA-templated transcription (GO:0045893)positive regulation of DNA-templated transcription (GO:0045893)positive regulation of transcription by RNA polymerase II (GO:0045944)principal sensory nucleus of trigeminal nerve development (GO:0021740)principal sensory nucleus of trigeminal nerve development (GO:0021740)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 regulator inhibitor activity (GO:0140416)type I pneumocyte differentiation (GO:0060509)type I pneumocyte differentiation (GO:0060509)type II pneumocyte differentiation (GO:0060510)type II pneumocyte differentiation (GO:0060510)

Expression (TPM)

TFs regulating NFIB 0 TFs

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

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of NFIB, 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
chr9:13,278,160–13,280,119	1035.0 kb	Distal (>10kb) Multiome HiCAR	637
chr9:14,309,535–14,309,711	3.9 kb	Proximal (<10kb)	128
chr9:14,312,757–14,316,834	962 bp	At TSS Multiome	850
chr9:14,316,940–14,317,184	3.3 kb	Proximal (<10kb)	48
chr9:14,322,111–14,323,184	8.0 kb	Proximal (<10kb) Multiome	802
chr9:14,345,381–14,348,236	33.0 kb	Distal (>10kb) Multiome	384
chr9:14,515,530–14,516,217	201.4 kb	Distal (>10kb) Multiome	236
chr9:14,546,850–14,548,008	232.8 kb	Distal (>10kb) Multiome	219
chr9:14,563,500–14,564,741	249.6 kb	Distal (>10kb) Multiome	205

Genome Browser

Genomic view of the NFIB 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.