KLHDC3

kelch domain containing 3 | PEAS, dJ20C7.3, hPeas

The protein encoded by this gene contains six repeated kelch motifs that are structurally similar to recombination activating gene 2, a protein involved in the activation of the V(D)J recombination. In mouse, this gene is found to be expressed specifically in testis. Its expression in pachytene spermatocytes is localized to cytoplasma and meiotic chromatin, suggesting that this gene may be involved in meiotic recombination. [provided by RefSeq, Jun 2012]

Biological processes 18 terms

Cul2-RING ubiquitin ligase complex (GO:0031462)chromatin (GO:0000785)chromatin (GO:0000785)chromatin binding (GO:0003682)chromatin binding (GO:0003682)chromatin binding (GO:0003682)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytosol (GO:0005829)nucleoplasm (GO:0005654)proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)protein binding (GO:0005515)protein ubiquitination (GO:0016567)reciprocal meiotic recombination (GO:0007131)ubiquitin-dependent protein catabolic process via the C-end degron rule pathway (GO:0140627)ubiquitin-dependent protein catabolic process via the C-end degron rule pathway (GO:0140627)ubiquitin-like ligase-substrate adaptor activity (GO:1990756)

Expression (TPM)

TFs regulating KLHDC3 0 TFs

Transcription factors with Perturb-seq knockdown data for KLHDC3. 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 = KLHDC3 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 KLHDC3

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of KLHDC3, 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
chr6:42,745,261–42,747,361	268.1 kb	Distal (>10kb) Multiome	1101
chr6:42,770,933–42,771,516	243.0 kb	Distal (>10kb) Multiome	283
chr6:42,782,323–42,783,894	231.3 kb	Distal (>10kb) Multiome	960
chr6:42,879,371–42,880,327	134.4 kb	Distal (>10kb) Multiome	982
chr6:42,890,329–42,891,383	123.4 kb	Distal (>10kb) Multiome	1066
chr6:42,911,181–42,912,079	102.5 kb	Distal (>10kb) Multiome	327
chr6:42,928,809–42,930,153	84.8 kb	Distal (>10kb) Multiome	1111
chr6:42,960,347–42,961,147	53.6 kb	Distal (>10kb) Multiome	597
chr6:42,978,475–42,979,742	35.0 kb	Distal (>10kb) Multiome	914
chr6:42,983,832–42,985,046	29.8 kb	Distal (>10kb) Multiome	737
chr6:43,013,264–43,014,790	152 bp	At TSS Multiome	874
chr6:43,020,970–43,021,878	7.3 kb	Proximal (<10kb) Multiome	766
chr6:43,053,156–43,054,116	39.6 kb	Distal (>10kb) Multiome	1033
chr6:43,059,118–43,060,383	45.3 kb	Distal (>10kb) Multiome	906
chr6:43,075,612–43,077,611	63.1 kb	Distal (>10kb) Multiome	744
chr6:43,096,382–43,096,822	82.2 kb	Distal (>10kb) Multiome	290
chr6:43,143,296–43,143,802	129.4 kb	Distal (>10kb) Multiome	638
chr6:43,170,289–43,172,815	157.0 kb	Distal (>10kb) Multiome	1025
chr6:43,173,720–43,174,910	160.3 kb	Distal (>10kb) Multiome	765
chr6:43,181,838–43,182,555	167.9 kb	Distal (>10kb) Multiome	874
chr6:43,228,982–43,229,794	215.2 kb	Distal (>10kb) Multiome	918
chr6:43,246,576–43,247,616	233.0 kb	Distal (>10kb) Multiome	750
chr6:43,267,244–43,268,167	253.4 kb	Distal (>10kb) Multiome	772
chr6:43,285,054–43,285,508	271.1 kb	Distal (>10kb) Multiome	68
chr6:43,308,219–43,309,149	294.6 kb	Distal (>10kb) Multiome	462

Genome Browser

Genomic view of the KLHDC3 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.