SYMPK

symplekin scaffold protein | Pta1, SPK, SYM

This gene encodes a nuclear protein that functions in the regulation of polyadenylation and promotes gene expression. The protein forms a high-molecular weight complex with components of the polyadenylation machinery. It is thought to serve as a scaffold for recruiting regulatory factors to the polyadenylation complex. It also participates in 3'-end maturation of histone mRNAs, which do not undergo polyadenylation. The protein also localizes to the cytoplasmic plaques of tight junctions in some cell types. [provided by RefSeq, Jul 2008]

Member of: DE-5 Developmental clusters: GC2

Biological processes 17 terms

anchoring junction (GO:0070161)bicellular tight junction (GO:0005923)cytoplasm (GO:0005737)cytoskeleton (GO:0005856)mRNA 3'-end processing (GO:0031124)mRNA cleavage and polyadenylation specificity factor complex (GO:0005847)negative regulation of protein binding (GO:0032091)nuclear body (GO:0016604)nuclear histone mRNA catabolic process (GO:0071045)nuclear stress granule (GO:0097165)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)plasma membrane (GO:0005886)plasma membrane (GO:0005886)protein binding (GO:0005515)

Expression (TPM)

TFs regulating SYMPK 0 TFs

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

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of SYMPK, 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
chr19:45,528,315–45,529,353	334.3 kb	Distal (>10kb) Multiome	425
chr19:45,584,026–45,585,251	278.5 kb	Distal (>10kb) Multiome	907
chr19:45,607,096–45,607,695	255.7 kb	Distal (>10kb) Multiome	526
chr19:45,615,654–45,616,944	247.0 kb	Distal (>10kb) Multiome	480
chr19:45,632,406–45,633,148	230.4 kb	Distal (>10kb) Multiome	358
chr19:45,638,965–45,639,696	223.8 kb	Distal (>10kb) Multiome	477
chr19:45,640,813–45,642,557	220.9 kb	Distal (>10kb) Multiome	865
chr19:45,643,187–45,644,012	219.6 kb	Distal (>10kb) Multiome	542
chr19:45,645,389–45,646,343	217.3 kb	Distal (>10kb) Multiome	566
chr19:45,667,856–45,668,417	195.1 kb	Distal (>10kb) Multiome	386
chr19:45,668,914–45,669,719	193.8 kb	Distal (>10kb) Multiome	611
chr19:45,670,481–45,671,446	192.1 kb	Distal (>10kb) Multiome	361
chr19:45,676,875–45,678,209	185.6 kb	Distal (>10kb) Multiome	418
chr19:45,681,530–45,682,004	181.5 kb	Distal (>10kb) Multiome	648
chr19:45,691,622–45,693,062	170.8 kb	Distal (>10kb) Multiome	943
chr19:45,716,851–45,718,343	145.6 kb	Distal (>10kb) Multiome	895
chr19:45,730,200–45,731,219	132.2 kb	Distal (>10kb) Multiome	740
chr19:45,767,223–45,771,892	93.7 kb	Distal (>10kb) Multiome	1161
chr19:45,779,258–45,780,150	83.6 kb	Distal (>10kb) Multiome	445
chr19:45,792,338–45,793,273	70.3 kb	Distal (>10kb) Multiome	609
chr19:45,814,954–45,815,368	1.8 kb	Proximal (<10kb)	110
chr19:45,815,484–45,818,073	47.3 kb	Distal (>10kb) Multiome	623
chr19:45,862,559–45,864,765	1.3 kb	Proximal (<10kb) Multiome	976
chr19:45,881,480–45,883,645	19.0 kb	Distal (>10kb) Multiome	990
chr19:45,885,092–45,887,294	23.5 kb	Distal (>10kb) Multiome	913
chr19:45,901,212–45,903,471	39.7 kb	Distal (>10kb) Multiome	780
chr19:45,952,967–45,953,485	89.9 kb	Distal (>10kb) Multiome	329
chr19:45,973,761–45,974,227	110.9 kb	Distal (>10kb) Multiome	201
chr19:45,994,774–45,995,740	132.1 kb	Distal (>10kb) Multiome	660
chr19:46,014,941–46,015,784	152.2 kb	Distal (>10kb) Multiome	220
chr19:46,016,414–46,017,078	153.7 kb	Distal (>10kb) Multiome	364
chr19:46,076,819–46,077,882	214.5 kb	Distal (>10kb) Multiome	516
chr19:46,133,049–46,133,620	270.3 kb	Distal (>10kb) Multiome	189

Genome Browser

Genomic view of the SYMPK 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.