CXXC5

CXXC finger protein 5 | HSPC195, RINF, WID

The protein encoded by this gene is a retinoid-inducible nuclear protein containing a CXXC-type zinc finger motif. The encoded protein is involved in myelopoiesis, is required for DNA damage-induced p53 activation, regulates the differentiation of C2C12 myoblasts into myocytes, and negatively regulates cutaneous wound healing. Several transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Nov 2015]

Member of: DE-7 DE-7.1 Developmental clusters: GC4

Biological processes 15 terms

DNA binding (GO:0003677)DNA-binding transcription factor binding (GO:0140297)cytoplasm (GO:0005737)methyl-CpG binding (GO:0008327)methyl-CpG binding (GO:0008327)negative regulation of transcription by RNA polymerase II (GO:0000122)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of canonical NF-kappaB signal transduction (GO:0043123)regulation of generation of precursor metabolites and energy (GO:0043467)sequence-specific DNA binding (GO:0043565)zinc ion binding (GO:0008270)zinc ion binding (GO:0008270)

Expression (TPM)

TFs regulating CXXC5 0 TFs

Transcription factors with Perturb-seq knockdown data for CXXC5. 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 = CXXC5 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 CXXC5

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of CXXC5, 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
chr5:139,378,115–139,378,885	269.9 kb	Distal (>10kb) Multiome	122
chr5:139,391,978–139,393,556	255.6 kb	Distal (>10kb) Multiome	424
chr5:139,396,045–139,397,275	251.5 kb	Distal (>10kb) Multiome	134
chr5:139,403,383–139,404,694	244.3 kb	Distal (>10kb) Multiome	772
chr5:139,438,861–139,439,913	209.0 kb	Distal (>10kb) Multiome	726
chr5:139,517,739–139,518,561	130.2 kb	Distal (>10kb) Multiome	1046
chr5:139,523,548–139,524,678	124.2 kb	Distal (>10kb) Multiome	320
chr5:139,560,824–139,562,261	87.1 kb	Distal (>10kb) Multiome	970
chr5:139,637,254–139,638,208	10.7 kb	Distal (>10kb) Multiome	890
chr5:139,646,902–139,649,971	177 bp	At TSS Multiome	723
chr5:139,650,427–139,650,655	2.1 kb	Proximal (<10kb)	354
chr5:139,650,999–139,651,819	2.7 kb	Proximal (<10kb)	490
chr5:139,651,946–139,652,158	3.6 kb	Proximal (<10kb)	298
chr5:139,668,261–139,668,827	20.1 kb	Distal (>10kb) Multiome	388
chr5:139,696,560–139,698,449	49.1 kb	Distal (>10kb) Multiome HiCAR	789
chr5:139,698,576–139,699,204	50.6 kb	Distal (>10kb) Multiome HiCAR	291
chr5:139,700,801–139,701,790	53.1 kb	Distal (>10kb) Multiome HiCAR	520
chr5:139,708,355–139,712,383	61.1 kb	Distal (>10kb) Multiome HiCAR	1075
chr5:139,745,172–139,748,271	97.9 kb	Distal (>10kb) Multiome HiCAR	872
chr5:139,755,957–139,756,675	107.9 kb	Distal (>10kb) Multiome HiCAR	431
chr5:139,765,531–139,766,197	117.4 kb	Distal (>10kb) Multiome HiCAR	676
chr5:139,774,955–139,775,575	126.9 kb	Distal (>10kb) Multiome	435
chr5:139,787,176–139,788,865	139.5 kb	Distal (>10kb) Multiome	596
chr5:139,847,851–139,848,888	200.0 kb	Distal (>10kb) Multiome	252
chr5:139,897,165–139,897,870	249.1 kb	Distal (>10kb) Multiome	20
chr5:139,903,738–139,904,936	256.0 kb	Distal (>10kb) Multiome	298

Genome Browser

Genomic view of the CXXC5 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.