NFYC

nuclear transcription factor Y subunit gamma | CBF-C, NF-YC

This gene encodes one subunit of a trimeric complex forming a highly conserved transcription factor that binds with high specificity to CCAAT motifs in the promoters of a variety of genes. The encoded protein, subunit C, forms a tight dimer with the B subunit, a prerequisite for subunit A association. The resulting trimer binds to DNA with high specificity and affinity. Subunits B and C each contain a histone-like motif. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2008]

Member of: DE-5 DE-5.14

Biological processes 34 terms

CCAAT-binding factor complex (GO:0016602)CCAAT-binding factor complex (GO:0016602)CCAAT-binding factor complex (GO:0016602)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 (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)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)RNA polymerase II transcription regulator complex (GO:0090575)chromatin (GO:0000785)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)protein binding (GO:0005515)protein folding (GO:0006457)protein heterodimerization activity (GO:0046982)protein-DNA complex (GO:0032993)regulation of DNA-templated transcription (GO:0006355)regulation of transcription by RNA polymerase II (GO:0006357)regulation of transcription by RNA polymerase II (GO:0006357)regulation of transcription by RNA polymerase II (GO:0006357)transcription cis-regulatory region binding (GO:0000976)transcription cis-regulatory region binding (GO:0000976)transcription regulator complex (GO:0005667)

Expression (TPM)

TFs regulating NFYC 0 TFs

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

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of NFYC, 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
chr1:40,394,885–40,396,067	296.0 kb	Distal (>10kb) Multiome	153
chr1:40,449,758–40,450,645	241.6 kb	Distal (>10kb) Multiome	807
chr1:40,476,972–40,477,791	214.4 kb	Distal (>10kb) Multiome	683
chr1:40,508,401–40,509,160	182.9 kb	Distal (>10kb) Multiome	805
chr1:40,531,425–40,532,089	160.1 kb	Distal (>10kb) Multiome	724
chr1:40,665,223–40,666,079	26.0 kb	Distal (>10kb) Multiome	465
chr1:40,691,236–40,692,758	219 bp	At TSS Multiome	1088
chr1:40,708,827–40,709,450	17.5 kb	Distal (>10kb) Multiome	526
chr1:40,783,386–40,784,649	92.1 kb	Distal (>10kb) Multiome	448
chr1:40,802,183–40,803,007	110.8 kb	Distal (>10kb) Multiome	455
chr1:40,818,171–40,819,026	127.1 kb	Distal (>10kb) Multiome	236
chr1:40,861,144–40,862,924	170.8 kb	Distal (>10kb) Multiome	724
chr1:40,863,635–40,864,299	172.4 kb	Distal (>10kb) Multiome	331
chr1:40,952,369–40,952,943	260.9 kb	Distal (>10kb) Multiome	442
chr1:40,978,861–40,980,635	288.1 kb	Distal (>10kb) Multiome	809

Genome Browser

Genomic view of the NFYC 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.