PRKAR1A
protein kinase cAMP-dependent type I regulatory subunit alpha | CNC1, PKR1, PRKAR1, Prkar1alpha, TSE1

cAMP is a signaling molecule important for a variety of cellular functions. cAMP exerts its effects by activating the cAMP-dependent protein kinase, which transduces the signal through phosphorylation of different target proteins. The inactive kinase holoenzyme is a tetramer composed of two regulatory and two catalytic subunits. cAMP causes the dissociation of the inactive holoenzyme into a dimer of regulatory subunits bound to four cAMP and two free monomeric catalytic subunits. Four different regulatory subunits and three catalytic subunits have been identified in humans. This gene encodes one of the regulatory subunits. This protein was found to be a tissue-specific extinguisher that down-regulates the expression of seven liver genes in hepatoma x fibroblast hybrids. Mutations in this gene cause Carney complex (CNC). This gene can fuse to the RET protooncogene by gene rearrangement and form the thyroid tumor-specific chimeric oncogene known as PTC2. A nonconventional nuclear localization sequence (NLS) has been found for this protein which suggests a role in DNA replication via the protein serving as a nuclear transport protein for the second subunit of the Replication Factor C (RFC40). Several alternatively spliced transcript variants encoding two different isoforms have been observed. [provided by RefSeq, Jan 2013]

Member of: DE-1 DE-1.3
Biological processes 59 terms
activation of protein kinase A activity (GO:0034199)adenylate cyclase-activating G protein-coupled receptor signaling pathway (GO:0007189)adenylate cyclase-activating G protein-coupled receptor signaling pathway (GO:0007189)axoneme (GO:0005930)cAMP binding (GO:0030552)cAMP binding (GO:0030552)cAMP binding (GO:0030552)cAMP-dependent protein kinase complex (GO:0005952)cAMP-dependent protein kinase complex (GO:0005952)cAMP-dependent protein kinase inhibitor activity (GO:0004862)cAMP-dependent protein kinase inhibitor activity (GO:0004862)cAMP-dependent protein kinase inhibitor activity (GO:0004862)cAMP-dependent protein kinase regulator activity (GO:0008603)cAMP-dependent protein kinase regulator activity (GO:0008603)cAMP-dependent protein kinase regulator activity (GO:0008603)cellular response to glucagon stimulus (GO:0071377)cellular response to glucagon stimulus (GO:0071377)centrosome (GO:0005813)chemical synaptic transmission (GO:0007268)chemical synaptic transmission (GO:0007268)ciliary base (GO:0097546)ciliary base (GO:0097546)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytosol (GO:0005829)cytosol (GO:0005829)cytosol (GO:0005829)glutamatergic synapse (GO:0098978)immunological synapse (GO:0001772)intracellular signal transduction (GO:0035556)membrane (GO:0016020)multivesicular body (GO:0005771)negative regulation of activated T cell proliferation (GO:0046007)negative regulation of cAMP/PKA signal transduction (GO:0141162)negative regulation of cAMP/PKA signal transduction (GO:0141162)negative regulation of gene expression (GO:0010629)negative regulation of inflammatory response to antigenic stimulus (GO:0002862)negative regulation of inflammatory response to antigenic stimulus (GO:0002862)negative regulation of smoothened signaling pathway (GO:0045879)neuromuscular junction (GO:0031594)nucleotide-activated protein kinase complex (GO:0031588)plasma membrane (GO:0005886)plasma membrane (GO:0005886)plasma membrane raft (GO:0044853)protein binding (GO:0005515)protein domain specific binding (GO:0019904)protein kinase A catalytic subunit binding (GO:0034236)protein kinase A catalytic subunit binding (GO:0034236)protein kinase A catalytic subunit binding (GO:0034236)protein serine/threonine kinase inhibitor activity (GO:0030291)protein-containing complex (GO:0032991)regulation of transcription by RNA polymerase II (GO:0006357)renal water homeostasis (GO:0003091)renal water homeostasis (GO:0003091)sperm head-tail coupling apparatus (GO:0120212)synapse (GO:0045202)ubiquitin protein ligase binding (GO:0031625)vascular endothelial cell response to laminar fluid shear stress (GO:0097700)vascular endothelial cell response to laminar fluid shear stress (GO:0097700)
Expression (TPM)
PRKAR1A — as a Regulated Gene

TFs regulating PRKAR1A 0 TFs

Transcription factors with Perturb-seq knockdown data for PRKAR1A. 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 = PRKAR1A upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to PRKAR1A

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of PRKAR1A, 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.

Accessibility Element Dist. to TSS Link type TFs
chr17:68,247,371–68,248,543 264.0 kb Distal (>10kb) Multiome 986
chr17:68,291,089–68,292,878 220.5 kb Distal (>10kb) Multiome 972
chr17:68,456,319–68,458,376 54.3 kb Distal (>10kb) Multiome 914
chr17:68,462,644–68,463,284 48.9 kb Distal (>10kb) Multiome 394
chr17:68,511,401–68,513,461 372 bp At TSS Multiome 1112
chr17:68,599,584–68,601,475 88.4 kb Distal (>10kb) Multiome 707
chr17:68,700,732–68,701,756 189.2 kb Distal (>10kb) Multiome 188
chr17:68,732,063–68,732,967 220.5 kb Distal (>10kb) Multiome 284
chr17:68,759,447–68,760,388 247.9 kb Distal (>10kb) Multiome HiCAR 801
chr17:68,777,450–68,779,000 266.4 kb Distal (>10kb) Multiome 533

Genome Browser

Genomic view of the PRKAR1A 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.

chr17:68,237,371 – 68,789,000
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq