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Aliases for CALR Gene

Aliases for CALR Gene

  • Calreticulin 2 3 3 5
  • Sicca Syndrome Antigen A (Autoantigen Ro; Calreticulin) 2 3
  • Endoplasmic Reticulum Resident Protein 60 3 4
  • Calregulin 3 4
  • CRP55 3 4
  • ERp60 3 4
  • HACBP 3 4
  • Grp60 3 4
  • Epididymis Secretory Sperm Binding Protein Li 99n 3
  • Autoantigen Ro 2
  • HEL-S-99n 3
  • CC1qR 3
  • CRTC 4
  • CRT 3
  • SSA 3
  • RO 3

External Ids for CALR Gene

Previous GeneCards Identifiers for CALR Gene

  • GC19P013180
  • GC19P013272
  • GC19P012894
  • GC19P012910
  • GC19P013049
  • GC19P012621

Summaries for CALR Gene

Entrez Gene Summary for CALR Gene

  • Calreticulin is a multifunctional protein that acts as a major Ca(2+)-binding (storage) protein in the lumen of the endoplasmic reticulum. It is also found in the nucleus, suggesting that it may have a role in transcription regulation. Calreticulin binds to the synthetic peptide KLGFFKR, which is almost identical to an amino acid sequence in the DNA-binding domain of the superfamily of nuclear receptors. Calreticulin binds to antibodies in certain sera of systemic lupus and Sjogren patients which contain anti-Ro/SSA antibodies, it is highly conserved among species, and it is located in the endoplasmic and sarcoplasmic reticulum where it may bind calcium. The amino terminus of calreticulin interacts with the DNA-binding domain of the glucocorticoid receptor and prevents the receptor from binding to its specific glucocorticoid response element. Calreticulin can inhibit the binding of androgen receptor to its hormone-responsive DNA element and can inhibit androgen receptor and retinoic acid receptor transcriptional activities in vivo, as well as retinoic acid-induced neuronal differentiation. Thus, calreticulin can act as an important modulator of the regulation of gene transcription by nuclear hormone receptors. Systemic lupus erythematosus is associated with increased autoantibody titers against calreticulin but calreticulin is not a Ro/SS-A antigen. Earlier papers referred to calreticulin as an Ro/SS-A antigen but this was later disproven. Increased autoantibody titer against human calreticulin is found in infants with complete congenital heart block of both the IgG and IgM classes. [provided by RefSeq, Jul 2008]

CIViC summary for CALR Gene

GeneCards Summary for CALR Gene

CALR (Calreticulin) is a Protein Coding gene. Diseases associated with CALR include Myelofibrosis and Essential Thrombocythemia. Among its related pathways are Calnexin/calreticulin cycle and HTLV-I infection. Gene Ontology (GO) annotations related to this gene include ubiquitin protein ligase binding. An important paralog of this gene is CALR3.

UniProtKB/Swiss-Prot for CALR Gene

  • Calcium-binding chaperone that promotes folding, oligomeric assembly and quality control in the endoplasmic reticulum (ER) via the calreticulin/calnexin cycle. This lectin interacts transiently with almost all of the monoglucosylated glycoproteins that are synthesized in the ER. Interacts with the DNA-binding domain of NR3C1 and mediates its nuclear export. Involved in maternal gene expression regulation. May participate in oocyte maturation via the regulation of calcium homeostasis (By similarity).

Gene Wiki entry for CALR Gene

Additional gene information for CALR Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CALR Gene

Genomics for CALR Gene

GeneHancer (GH) Regulatory Elements for CALR Gene

Promoters and enhancers for CALR Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19J012936 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 655.5 +0.6 554 5.8 HDGF PKNOX1 CLOCK FOXA2 SMAD1 ARNT ARID4B NEUROD1 SIN3A DMAP1 CALR MIR6515 ZNF136 TRMT1 CCDC130 ZNF625 ZNF763 ZNF44 ZNF799 RPS6P25
GH19J013011 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 5.8 +81.6 81617 17.2 HDGF FOXA2 MLX ARNT ARID4B FEZF1 DMAP1 ZNF2 YY1 ZNF213 NFIX ZNF136 TRMT1 CCDC130 ZNF791 ZNF709 MRI1 ZNF564 ZNF44 ZNF625
GH19J012880 Promoter/Enhancer 2.7 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 5 -55.0 -55017 6.1 HDGF PKNOX1 CLOCK SMAD1 ARNT ARID4B SIN3A DMAP1 ZNF2 ZBTB7B DNASE2 ZNF700 CCDC130 ZNF44 WDR83OS ZNF564 MRI1 ZNF791 ZNF878 ZNF20
GH19J013050 Enhancer 2.1 VISTA FANTOM5 Ensembl ENCODE dbSUPER 5.7 +117.7 117700 12.1 CLOCK FOXA2 MLX ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 LYL1 NACC1 TRMT1 MAST1 STX10 CALR GCDH ENSG00000267610 PIR45233 NFIX
GH19J012943 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 5.1 +8.3 8334 6.8 CLOCK MLX FEZF1 DMAP1 IRF4 YY1 SLC30A9 ZNF213 E2F8 ZNF143 RAD23A CCDC130 ZNF136 ZNF564 WDR83OS TRMT1 ZNF442 TRIR MRI1 ZNF844
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CALR on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CALR gene promoter:
  • ATF-2
  • c-Jun
  • p53
  • AP-1
  • Nkx2-5
  • CUTL1

Genomic Locations for CALR Gene

Genomic Locations for CALR Gene
chr19:12,938,578-12,944,490
(GRCh38/hg38)
Size:
5,913 bases
Orientation:
Plus strand
chr19:13,049,392-13,055,304
(GRCh37/hg19)
Size:
5,913 bases
Orientation:
Plus strand

Genomic View for CALR Gene

Genes around CALR on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CALR Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CALR Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CALR Gene

Proteins for CALR Gene

  • Protein details for CALR Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P27797-CALR_HUMAN
    Recommended name:
    Calreticulin
    Protein Accession:
    P27797
    Secondary Accessions:
    • Q6IAT4
    • Q9UDG2

    Protein attributes for CALR Gene

    Size:
    417 amino acids
    Molecular mass:
    48142 Da
    Quaternary structure:
    • Monomer. Component of an EIF2 complex at least composed of CELF1/CUGBP1, CALR, CALR3, EIF2S1, EIF2S2, HSP90B1 and HSPA5. Interacts with PDIA3/ERp57 and SPACA9 (By similarity). Interacts with TRIM21 (PubMed:8666824). Interacts with NR3C1 (PubMed:11149926). Interacts with PPIB (PubMed:20801878). Interacts (via P-domain) with PDIA5 (PubMed:23614004). Interacts with GABARAP (PubMed:19154346).

    Three dimensional structures from OCA and Proteopedia for CALR Gene

neXtProt entry for CALR Gene

Post-translational modifications for CALR Gene

  • Glycosylation at posLast=344344
  • Ubiquitination at posLast=159159, Lys55, Lys48, and Lys24
  • Modification sites at PhosphoSitePlus

Other Protein References for CALR Gene

Antibody Products

No data available for DME Specific Peptides for CALR Gene

Domains & Families for CALR Gene

Gene Families for CALR Gene

Human Protein Atlas (HPA):
  • Cancer-related genes
  • Plasma proteins
  • Predicted intracellular proteins
  • Predicted secreted proteins

Suggested Antigen Peptide Sequences for CALR Gene

Graphical View of Domain Structure for InterPro Entry

P27797

UniProtKB/Swiss-Prot:

CALR_HUMAN :
  • Can be divided into a N-terminal globular domain, a proline-rich P-domain forming an elongated arm-like structure and a C-terminal acidic domain. The P-domain binds one molecule of calcium with high affinity, whereas the acidic C-domain binds multiple calcium ions with low affinity.
  • Belongs to the calreticulin family.
Domain:
  • Can be divided into a N-terminal globular domain, a proline-rich P-domain forming an elongated arm-like structure and a C-terminal acidic domain. The P-domain binds one molecule of calcium with high affinity, whereas the acidic C-domain binds multiple calcium ions with low affinity.
  • The interaction with glycans occurs through a binding site in the globular lectin domain.
  • The zinc binding sites are localized to the N-domain.
  • Associates with PDIA3 through the tip of the extended arm formed by the P-domain.
Family:
  • Belongs to the calreticulin family.
genes like me logo Genes that share domains with CALR: view

Function for CALR Gene

Molecular function for CALR Gene

UniProtKB/Swiss-Prot Function:
Calcium-binding chaperone that promotes folding, oligomeric assembly and quality control in the endoplasmic reticulum (ER) via the calreticulin/calnexin cycle. This lectin interacts transiently with almost all of the monoglucosylated glycoproteins that are synthesized in the ER. Interacts with the DNA-binding domain of NR3C1 and mediates its nuclear export. Involved in maternal gene expression regulation. May participate in oocyte maturation via the regulation of calcium homeostasis (By similarity).
GENATLAS Biochemistry:
calreticulin,calcium binding protein of endoplasmic and sarcoplasmic reticulum,48kDa

Phenotypes From GWAS Catalog for CALR Gene

Gene Ontology (GO) - Molecular Function for CALR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001849 complement component C1q binding TAS 15474971
GO:0003677 DNA binding NAS 11149926
GO:0003723 RNA binding HDA 22658674
GO:0003729 mRNA binding IDA 14726956
GO:0005178 integrin binding IPI 1911778
genes like me logo Genes that share ontologies with CALR: view
genes like me logo Genes that share phenotypes with CALR: view

Human Phenotype Ontology for CALR Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for CALR Gene

MGI Knock Outs for CALR:

miRNA for CALR Gene

miRTarBase miRNAs that target CALR

Clone Products

  • Addgene plasmids for CALR

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for CALR Gene

Localization for CALR Gene

Subcellular locations from UniProtKB/Swiss-Prot for CALR Gene

Endoplasmic reticulum lumen. Cytoplasm, cytosol. Secreted, extracellular space, extracellular matrix. Cell surface. Sarcoplasmic reticulum lumen. Note=Also found in cell surface (T cells), cytosol and extracellular matrix (PubMed:10358038). Associated with the lytic granules in the cytolytic T-lymphocytes. {ECO:0000269 PubMed:10358038, ECO:0000269 PubMed:8418194}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CALR gene
Compartment Confidence
extracellular 5
nucleus 5
endoplasmic reticulum 5
cytosol 5
plasma membrane 4
golgi apparatus 3
cytoskeleton 2
mitochondrion 2
lysosome 2
endosome 1

Gene Ontology (GO) - Cellular Components for CALR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001669 acrosomal vesicle IEA --
GO:0005576 extracellular region TAS --
GO:0005615 extracellular space IMP,IEA 22377355
GO:0005622 intracellular TAS 7841019
GO:0005634 nucleus IEA,IDA 8107809
genes like me logo Genes that share ontologies with CALR: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for CALR Gene

Pathways & Interactions for CALR Gene

genes like me logo Genes that share pathways with CALR: view

Gene Ontology (GO) - Biological Process for CALR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription by RNA polymerase II IDA 8107809
GO:0002474 antigen processing and presentation of peptide antigen via MHC class I TAS --
GO:0002479 antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent TAS --
GO:0002502 peptide antigen assembly with MHC class I protein complex ISS 11825569
GO:0006355 regulation of transcription, DNA-templated TAS 8107808
genes like me logo Genes that share ontologies with CALR: view

No data available for SIGNOR curated interactions for CALR Gene

Drugs & Compounds for CALR Gene

(50) Drugs for CALR Gene - From: DrugBank, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Melatonin Approved, Vet_approved Nutra Antagonist, Full agonist, Agonist, Target Melatonin receptors MT inhibitor, Endogenous hormone; agonist at MT1 and MT2 292
calcium Approved Nutra 0
Antihemophilic factor, human recombinant Approved, Investigational Pharma Target, chaperone 0
Calcium Citrate Approved Pharma Target, ligand 0
Calcium Phosphate Approved Pharma Target, ligand 0

(37) Additional Compounds for CALR Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CALR: view

Transcripts for CALR Gene

mRNA/cDNA for CALR Gene

(1) REFSEQ mRNAs :
(14) Additional mRNA sequences :
(1816) Selected AceView cDNA sequences:
(7) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CALR Gene

Calreticulin:
Representative Sequences:

Clone Products

  • Addgene plasmids for CALR

Alternative Splicing Database (ASD) splice patterns (SP) for CALR Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b ^ 9 ^ 10a · 10b
SP1:
SP2: -
SP3:
SP4:

Relevant External Links for CALR Gene

GeneLoc Exon Structure for
CALR
ECgene alternative splicing isoforms for
CALR

Expression for CALR Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CALR Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CALR Gene



Protein tissue co-expression partners for CALR Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CALR Gene:

CALR

SOURCE GeneReport for Unigene cluster for CALR Gene:

Hs.515162

Evidence on tissue expression from TISSUES for CALR Gene

  • Skin(4.9)
  • Nervous system(4.9)
  • Eye(4.8)
  • Liver(4.8)
  • Pancreas(4.8)
  • Lung(4.7)
  • Intestine(4.4)
  • Kidney(4.1)
  • Spleen(3.7)
  • Blood(3.6)
  • Heart(3.6)
  • Muscle(3.4)
  • Stomach(3.4)
  • Bone marrow(3.3)
  • Lymph node(3.3)
  • Thyroid gland(3.1)
  • Bone(2.8)
  • Adrenal gland(2.5)
  • Gall bladder(2.1)

Phenotype-based relationships between genes and organs from Gene ORGANizer for CALR Gene

Germ Layers:
  • ectoderm
  • endoderm
  • mesoderm
Systems:
  • cardiovascular
  • immune
  • integumentary
  • lymphatic
  • nervous
  • respiratory
  • skeleton
Regions:
Head and neck:
  • brain
  • ear
  • eye
  • head
  • jaw
  • mandible
  • maxilla
  • mouth
  • neck
  • skull
Thorax:
  • chest wall
  • clavicle
  • heart
  • lung
  • rib
  • rib cage
  • scapula
  • sternum
Abdomen:
  • liver
  • spleen
Pelvis:
  • pelvis
Limb:
  • ankle
  • arm
  • digit
  • elbow
  • femur
  • fibula
  • finger
  • foot
  • forearm
  • hand
  • hip
  • humerus
  • knee
  • lower limb
  • radius
  • shin
  • shoulder
  • thigh
  • tibia
  • toe
  • ulna
  • upper limb
  • wrist
General:
  • blood
  • blood vessel
  • bone marrow
  • coagulation system
  • peripheral nerve
  • peripheral nervous system
  • red blood cell
  • skin
  • spinal column
  • vertebrae
  • white blood cell
genes like me logo Genes that share expression patterns with CALR: view

No data available for mRNA differential expression in normal tissues , Protein differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for CALR Gene

Orthologs for CALR Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for CALR Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CALR 34 33
  • 99.9 (n)
OneToOne
dog
(Canis familiaris)
Mammalia CALR 34 33
  • 90.61 (n)
OneToOne
cow
(Bos Taurus)
Mammalia CALR 34 33
  • 89.56 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Calr 16 34 33
  • 88.21 (n)
rat
(Rattus norvegicus)
Mammalia Calr 33
  • 87.73 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia CALR 34
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia CALR 34
  • 83 (a)
OneToOne
chicken
(Gallus gallus)
Aves CALR 34
  • 88 (a)
OneToOne
CALR3 33
  • 66.38 (n)
lizard
(Anolis carolinensis)
Reptilia CALR 34
  • 80 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia calr 33
  • 76.55 (n)
Str.538 33
African clawed frog
(Xenopus laevis)
Amphibia calr-prov 33
zebrafish
(Danio rerio)
Actinopterygii calrl2 34 33
  • 73.72 (n)
OneToOne
calr 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.9141 33
fruit fly
(Drosophila melanogaster)
Insecta Crc 34 35 33
  • 69.9 (n)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP004212 33
  • 69.31 (n)
worm
(Caenorhabditis elegans)
Secernentea crt-1 34 35 33
  • 67.35 (n)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CNE1 34
  • 22 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons CRT1b 33
  • 59.61 (n)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.1564 33
rice
(Oryza sativa)
Liliopsida Os07g0246200 33
  • 62.81 (n)
Os.7158 33
barley
(Hordeum vulgare)
Liliopsida Hv.1770 33
corn
(Zea mays)
Liliopsida Zm.1288 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10660 34
  • 68 (a)
OneToMany
Cin.3623 33
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.3623 33
Species where no ortholog for CALR was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CALR Gene

ENSEMBL:
Gene Tree for CALR (if available)
TreeFam:
Gene Tree for CALR (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CALR: view image

Paralogs for CALR Gene

Paralogs for CALR Gene

(2) SIMAP similar genes for CALR Gene using alignment to 4 proteins:

  • CALR_HUMAN
  • K7EJB9_HUMAN
  • K7EL50_HUMAN
  • K7ELE2_HUMAN

Pseudogenes.org Pseudogenes for CALR Gene

genes like me logo Genes that share paralogs with CALR: view

Variants for CALR Gene

Sequence variations from dbSNP and Humsavar for CALR Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000233859 -- 12,938,499(+) C/ upstream_transcript_variant
rs1000416138 -- 12,941,902(+) C/T intron_variant
rs1000468582 -- 12,942,199(+) T/C intron_variant
rs1000629156 -- 12,942,229(+) G/C intron_variant
rs1000646103 -- 12,936,789(+) G/A upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for CALR Gene

Variant ID Type Subtype PubMed ID
nsv1160589 CNV duplication 26073780
nsv833754 CNV loss 17160897
nsv953977 CNV deletion 24416366

Variation tolerance for CALR Gene

Residual Variation Intolerance Score: 43.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.89; 35.24% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CALR Gene

Human Gene Mutation Database (HGMD)
CALR
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CALR

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CALR Gene

Disorders for CALR Gene

MalaCards: The human disease database

(32) MalaCards diseases for CALR Gene - From: HGMD, OMIM, ClinVar, GTR, Orphanet, DISEASES, Novoseek, and GeneCards