SKP1

S-phase kinase associated protein 1 | EMC19, MGC34403, OCP-II, OCP2, TCEB1L, p19A, SKP1A

This gene encodes a component of SCF complexes, which are composed of this protein, cullin 1, a ring-box protein, and one member of the F-box family of proteins. This protein binds directly to the F-box motif found in F-box proteins. SCF complexes are involved in the regulated ubiquitination of specific protein substrates, which targets them for degradation by the proteosome. Specific F-box proteins recognize different target protein(s), and many specific SCF substrates have been identified including regulators of cell cycle progression and development. Studies have also characterized the protein as an RNA polymerase II elongation factor. Alternative splicing of this gene results in two transcript variants. A related pseudogene has been identified on chromosome 7. [provided by RefSeq, Jul 2008]

Member of: DE-1 DE-1.29 Developmental clusters: GC5

Biological processes 62 terms

Cul7-RING ubiquitin ligase complex (GO:0031467)Cul7-RING ubiquitin ligase complex (GO:0031467)F-box domain binding (GO:1990444)G1/S transition of mitotic cell cycle (GO:0000082)PcG protein complex (GO:0031519)SCF ubiquitin ligase complex (GO:0019005)SCF ubiquitin ligase complex (GO:0019005)SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)SCF-dependent proteasomal ubiquitin-dependent protein catabolic process (GO:0031146)beta-catenin binding (GO:0008013)centrosome (GO:0005813)centrosome (GO:0005813)centrosome duplication (GO:0051298)chromatin (GO:0000785)chromatin remodeling (GO:0006338)cilium assembly (GO:0060271)cullin family protein binding (GO:0097602)cullin family protein binding (GO:0097602)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytosol (GO:0005829)cytosol (GO:0005829)heterochromatin formation (GO:0031507)intracellular iron ion homeostasis (GO:0006879)limb development (GO:0060173)maintenance of protein location in nucleus (GO:0051457)molecular function activator activity (GO:0140677)negative regulation of DNA-templated transcription (GO:0045892)neural crest cell differentiation (GO:0014033)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)proteasome-mediated ubiquitin-dependent protein catabolic process (GO:0043161)protein K48-linked ubiquitination (GO:0070936)protein binding (GO:0005515)protein domain specific binding (GO:0019904)protein polyubiquitination (GO:0000209)protein ubiquitination (GO:0016567)protein ubiquitination (GO:0016567)regulation of BMP signaling pathway (GO:0030510)regulation of DNA damage checkpoint (GO:2000001)regulation of DNA-templated transcription (GO:0006355)regulation of TOR signaling (GO:0032006)regulation of apoptotic process (GO:0042981)regulation of cell cycle (GO:0051726)regulation of cell cycle process (GO:0010564)regulation of centrosome duplication (GO:0010824)regulation of circadian rhythm (GO:0042752)regulation of inflammatory response (GO:0050727)regulation of mitophagy (GO:1901524)regulation of mitotic cell cycle (GO:0007346)regulation of xenophagy (GO:1904415)synaptic assembly at neuromuscular junction (GO:0051124)ubiquitin ligase activator activity (GO:1990757)ubiquitin ligase complex scaffold activity (GO:0160072)ubiquitin-dependent protein catabolic process (GO:0006511)ubiquitin-like ligase-substrate adaptor activity (GO:1990756)

Expression (TPM)

TFs regulating SKP1 0 TFs

Transcription factors with Perturb-seq knockdown data for SKP1. 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 = SKP1 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 SKP1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of SKP1, 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
chr5:133,968,103–133,968,907	208.3 kb	Distal (>10kb) Multiome	861
chr5:134,004,027–134,006,483	172.1 kb	Distal (>10kb) Multiome	948
chr5:134,039,553–134,040,013	137.2 kb	Distal (>10kb) Multiome	576
chr5:134,070,573–134,071,963	105.7 kb	Distal (>10kb) Multiome	666
chr5:134,099,891–134,100,749	76.8 kb	Distal (>10kb) Multiome	227
chr5:134,101,617–134,102,291	74.8 kb	Distal (>10kb) Multiome	334
chr5:134,113,043–134,116,112	61.2 kb	Distal (>10kb) Multiome	637
chr5:134,140,528–134,140,995	36.2 kb	Distal (>10kb) Multiome	342
chr5:134,176,142–134,177,562	71 bp	At TSS Multiome	952
chr5:134,184,086–134,184,650	7.4 kb	Proximal (<10kb) Multiome	289
chr5:134,225,248–134,227,248	49.3 kb	Distal (>10kb) Multiome	1043
chr5:134,366,722–134,367,362	190.2 kb	Distal (>10kb) Multiome	682
chr5:134,370,722–134,372,303	194.3 kb	Distal (>10kb) Multiome	1080
chr5:134,411,465–134,412,433	235.0 kb	Distal (>10kb) Multiome	989
chr5:134,465,626–134,467,213	289.0 kb	Distal (>10kb) Multiome	926
chr5:134,586,828–134,587,543	410.2 kb	Distal (>10kb) Multiome HiCAR	407

Genome Browser

Genomic view of the SKP1 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.