CALR

calreticulin | CALR1, CRT, FLJ26680, RO, SSA, cC1qR

Calreticulin is a highly conserved chaperone protein which resides primarily in the endoplasmic reticulum, and is involved in a variety of cellular processes, among them, cell adhesion. Additionally, it functions in protein folding quality control and calcium homeostasis. Calreticulin is also found in the nucleus, suggesting that it may have a role in transcription regulation. Systemic lupus erythematosus is associated with increased autoantibody titers against calreticulin. Recurrent mutations in calreticulin have been linked to various neoplasms, including the myeloproliferative type.[provided by RefSeq, May 2020]

Member of: DE-1 DE-1.16

Biological processes 127 terms

DNA binding (GO:0003677)ERAD pathway (GO:0036503)MHC class I peptide loading complex (GO:0042824)MHC class I peptide loading complex (GO:0042824)MHC class I peptide loading complex (GO:0042824)RNA binding (GO:0003723)acrosomal vesicle (GO:0001669)calcium ion binding (GO:0005509)calcium ion binding (GO:0005509)calcium ion binding (GO:0005509)calcium ion binding (GO:0005509)calcium ion binding (GO:0005509)calcium ion binding (GO:0005509)carbohydrate binding (GO:0030246)carbohydrate binding (GO:0030246)cardiac muscle cell differentiation (GO:0055007)cell surface (GO:0009986)cell surface (GO:0009986)cellular response to electrical stimulus (GO:0071257)cellular response to lithium ion (GO:0071285)cellular response to virus (GO:0098586)cellular senescence (GO:0090398)cellular senescence (GO:0090398)complement component C1q complex binding (GO:0001849)complement component C1q complex binding (GO:0001849)cortical granule (GO:0060473)cortical granule (GO:0060473)cytolytic granule (GO:0044194)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytosol (GO:0005829)cytosol (GO:0005829)endocytic vesicle lumen (GO:0071682)endomembrane system (GO:0012505)endoplasmic reticulum (GO:0005783)endoplasmic reticulum (GO:0005783)endoplasmic reticulum (GO:0005783)endoplasmic reticulum lumen (GO:0005788)endoplasmic reticulum lumen (GO:0005788)endoplasmic reticulum lumen (GO:0005788)endoplasmic reticulum membrane (GO:0005789)endoplasmic reticulum quality control compartment (GO:0044322)endoplasmic reticulum-Golgi intermediate compartment membrane (GO:0033116)external side of plasma membrane (GO:0009897)extracellular exosome (GO:0070062)extracellular matrix (GO:0031012)extracellular region (GO:0005576)extracellular region (GO:0005576)extracellular region (GO:0005576)extracellular region (GO:0005576)focal adhesion (GO:0005925)glutamatergic synapse (GO:0098978)hormone binding (GO:0042562)integrin binding (GO:0005178)intracellular calcium ion homeostasis (GO:0006874)iron ion binding (GO:0005506)lumenal side of endoplasmic reticulum membrane (GO:0098553)mRNA binding (GO:0003729)mRNA binding (GO:0003729)membrane (GO:0016020)membrane (GO:0016020)mitochondrion (GO:0005739)molecular sequestering activity (GO:0140313)negative regulation of DNA-templated transcription (GO:0045892)negative regulation of intracellular steroid hormone receptor signaling pathway (GO:0033144)negative regulation of neuron differentiation (GO:0045665)negative regulation of retinoic acid receptor signaling pathway (GO:0048387)negative regulation of transcription by RNA polymerase II (GO:0000122)negative regulation of translation (GO:0017148)negative regulation of translation (GO:0017148)negative regulation of trophoblast cell migration (GO:1901164)nuclear androgen receptor binding (GO:0050681)nuclear envelope (GO:0005635)nuclear envelope (GO:0005635)nuclear export signal receptor activity (GO:0005049)nuclear receptor-mediated glucocorticoid signaling pathway (GO:0042921)nucleus (GO:0005634)nucleus (GO:0005634)peptide antigen assembly with MHC class I protein complex (GO:0002502)peptide antigen assembly with MHC class I protein complex (GO:0002502)peptide antigen assembly with MHC class I protein complex (GO:0002502)peptide binding (GO:0042277)perinuclear region of cytoplasm (GO:0048471)perinuclear region of cytoplasm (GO:0048471)phagocytic vesicle membrane (GO:0030670)positive regulation of cell cycle (GO:0045787)positive regulation of cell cycle (GO:0045787)positive regulation of cell population proliferation (GO:0008284)positive regulation of dendritic cell chemotaxis (GO:2000510)positive regulation of endothelial cell migration (GO:0010595)positive regulation of gene expression (GO:0010628)positive regulation of phagocytosis (GO:0050766)positive regulation of phagocytosis (GO:0050766)positive regulation of substrate adhesion-dependent cell spreading (GO:1900026)postsynapse (GO:0098794)protein binding (GO:0005515)protein export from nucleus (GO:0006611)protein folding (GO:0006457)protein folding (GO:0006457)protein folding (GO:0006457)protein folding chaperone (GO:0044183)protein folding chaperone (GO:0044183)protein folding in endoplasmic reticulum (GO:0034975)protein localization to nucleus (GO:0034504)protein localization to nucleus (GO:0034504)protein maturation (GO:0051604)protein stabilization (GO:0050821)protein stabilization (GO:0050821)protein stabilization (GO:0050821)protein stabilization (GO:0050821)protein-containing complex (GO:0032991)regulation of DNA-templated transcription (GO:0006355)regulation of apoptotic process (GO:0042981)response to biphenyl (GO:1904614)response to estradiol (GO:0032355)response to glycoside (GO:1903416)response to peptide (GO:1901652)response to testosterone (GO:0033574)response to xenobiotic stimulus (GO:0009410)ribosome (GO:0005840)sarcoplasmic reticulum (GO:0016529)sarcoplasmic reticulum lumen (GO:0033018)smooth endoplasmic reticulum (GO:0005790)spermatogenesis (GO:0007283)ubiquitin protein ligase binding (GO:0031625)unfolded protein binding (GO:0051082)zinc ion binding (GO:0008270)

Expression (TPM)

TFs regulating CALR 0 TFs

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

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of CALR, 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
chr19:12,639,899–12,640,614	298.4 kb	Distal (>10kb) Multiome	454
chr19:12,647,538–12,648,022	290.9 kb	Distal (>10kb) Multiome	126
chr19:12,656,871–12,657,566	281.4 kb	Distal (>10kb) Multiome	254
chr19:12,666,317–12,667,225	271.8 kb	Distal (>10kb) Multiome	495
chr19:12,669,351–12,669,939	269.1 kb	Distal (>10kb) Multiome	777
chr19:12,681,003–12,682,117	257.2 kb	Distal (>10kb) Multiome	994
chr19:12,696,035–12,696,970	242.0 kb	Distal (>10kb) Multiome	806
chr19:12,702,968–12,703,602	235.4 kb	Distal (>10kb) Multiome	121
chr19:12,721,692–12,723,084	216.2 kb	Distal (>10kb) Multiome	807
chr19:12,723,726–12,724,142	214.5 kb	Distal (>10kb) Multiome	539
chr19:12,734,221–12,735,284	203.9 kb	Distal (>10kb) Multiome	882
chr19:12,736,470–12,737,780	201.5 kb	Distal (>10kb) Multiome	742
chr19:12,757,454–12,758,297	180.8 kb	Distal (>10kb) Multiome	588
chr19:12,765,876–12,766,545	172.3 kb	Distal (>10kb) Multiome	557
chr19:12,774,659–12,776,025	163.2 kb	Distal (>10kb) Multiome	803
chr19:12,777,481–12,778,589	160.7 kb	Distal (>10kb) Multiome	661
chr19:12,782,418–12,783,038	155.9 kb	Distal (>10kb) Multiome	699
chr19:12,789,543–12,790,654	148.6 kb	Distal (>10kb) Multiome	717
chr19:12,790,960–12,793,231	147.1 kb	Distal (>10kb) Multiome	1015
chr19:12,793,340–12,794,240	144.9 kb	Distal (>10kb) Multiome	808
chr19:12,801,120–12,802,290	136.7 kb	Distal (>10kb) Multiome	901
chr19:12,806,212–12,806,984	132.1 kb	Distal (>10kb) Multiome	827
chr19:12,825,565–12,826,186	112.8 kb	Distal (>10kb) Multiome	436
chr19:12,832,484–12,833,101	106.0 kb	Distal (>10kb) Multiome	970
chr19:12,833,638–12,834,477	104.7 kb	Distal (>10kb) Multiome	310
chr19:12,838,114–12,838,869	100.2 kb	Distal (>10kb) Multiome	377
chr19:12,840,071–12,841,485	97.8 kb	Distal (>10kb) Multiome	391
chr19:12,847,633–12,848,090	90.9 kb	Distal (>10kb) Multiome	535
chr19:12,867,327–12,868,022	71.0 kb	Distal (>10kb) Multiome	315
chr19:12,872,968–12,873,990	65.3 kb	Distal (>10kb) Multiome	263
chr19:12,880,834–12,881,875	57.1 kb	Distal (>10kb) Multiome	656
chr19:12,884,836–12,886,381	53.2 kb	Distal (>10kb) Multiome	717
chr19:12,890,614–12,891,603	47.6 kb	Distal (>10kb) Multiome	841
chr19:12,913,054–12,913,584	25.3 kb	Distal (>10kb) Multiome	373
chr19:12,919,018–12,919,719	19.2 kb	Distal (>10kb) Multiome	732
chr19:12,933,441–12,934,086	4.8 kb	Proximal (<10kb) Multiome	789
chr19:12,937,426–12,939,166	167 bp	At TSS Multiome	943
chr19:12,945,275–12,946,647	7.3 kb	Proximal (<10kb) Multiome	1015
chr19:12,956,801–12,957,360	18.6 kb	Distal (>10kb) Multiome	747
chr19:12,964,998–12,965,862	26.8 kb	Distal (>10kb) Multiome	733
chr19:12,983,506–12,983,997	45.1 kb	Distal (>10kb) Multiome	688
chr19:13,051,485–13,052,169	113.2 kb	Distal (>10kb) Multiome	649
chr19:13,061,195–13,061,672	122.9 kb	Distal (>10kb) Multiome	544
chr19:13,069,469–13,070,306	131.2 kb	Distal (>10kb) Multiome	334
chr19:13,093,620–13,094,260	155.3 kb	Distal (>10kb) Multiome	411
chr19:13,095,079–13,096,870	156.9 kb	Distal (>10kb) Multiome	501
chr19:13,102,495–13,103,074	164.2 kb	Distal (>10kb) Multiome	606
chr19:13,116,411–13,117,080	178.1 kb	Distal (>10kb) Multiome	812
chr19:13,117,979–13,119,416	179.6 kb	Distal (>10kb) Multiome	699
chr19:13,149,468–13,156,577	211.7 kb	Distal (>10kb) Multiome	1333
chr19:13,162,579–13,165,523	226.1 kb	Distal (>10kb) Multiome	1112
chr19:13,167,359–13,168,023	229.1 kb	Distal (>10kb) Multiome	764

Genome Browser

Genomic view of the CALR 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.