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Aliases for CALB2 Gene

Aliases for CALB2 Gene

  • Calbindin 2 2 3 5
  • 29 KDa Calbindin 3 4
  • Calretinin 2 3
  • CAB29 3 4
  • CR 3 4
  • Testicular Secretory Protein Li 8 3
  • Calbindin 2, (29kD, Calretinin) 3
  • Calbindin 2, 29kDa (Calretinin) 2
  • Calbindin D29K 3
  • CAL2 3

External Ids for CALB2 Gene

Previous GeneCards Identifiers for CALB2 Gene

  • GC16P062284
  • GC16P072115
  • GC16P071128
  • GC16P071168
  • GC16P069950
  • GC16P057160

Summaries for CALB2 Gene

Entrez Gene Summary for CALB2 Gene

  • This gene encodes an intracellular calcium-binding protein belonging to the troponin C superfamily. Members of this protein family have six EF-hand domains which bind calcium. This protein plays a role in diverse cellular functions, including message targeting and intracellular calcium buffering. It also functions as a modulator of neuronal excitability, and is a diagnostic marker for some human diseases, including Hirschsprung disease and some cancers. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jun 2010]

GeneCards Summary for CALB2 Gene

CALB2 (Calbindin 2) is a Protein Coding gene. Diseases associated with CALB2 include Adenomatoid Tumor and Adenofibroma. Gene Ontology (GO) annotations related to this gene include calcium ion binding. An important paralog of this gene is CALB1.

UniProtKB/Swiss-Prot for CALB2 Gene

  • Calretinin is a calcium-binding protein which is abundant in auditory neurons.

Gene Wiki entry for CALB2 Gene

Additional gene information for CALB2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CALB2 Gene

Genomics for CALB2 Gene

GeneHancer (GH) Regulatory Elements for CALB2 Gene

Promoters and enhancers for CALB2 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
GH16J071358 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 650.7 -0.1 -112 0.4 DRAP1 ELF3 CTCF MXI1 RB1 BACH1 SIN3A ZNF48 RAD21 RFX5 CALB2 LOC102725168
GH16J071360 Enhancer 0.6 ENCODE 650.7 +1.9 1936 1.1 RFX1 MAFG FOSL1 SP1 JUND ZNF316 IKZF1 FOSL2 NFE2 ZNF24 CALB2 ATXN1L LOC105371332
GH16J071425 Enhancer 1.3 Ensembl ENCODE 10.5 +67.9 67899 1.7 PKNOX1 FOXA2 MLX ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 SLC30A9 TRM-CAT2-1 LINC02136 GC16P071427 DHX38 ZNF23 SF3B3 ZNF19 ATXN1L ENSG00000247324 PHLPP2
GH16J071412 Enhancer 1 Ensembl ENCODE 10.6 +54.0 53965 1 ELF3 NFIB ARID4B DMAP1 ZNF48 RAD21 ZNF614 GLIS2 EGR1 ZNF143 ZNF23 ENSG00000247324 ZNF19 CALB2 ENSG00000262120 LINC02136 LOC105371332
GH16J071492 Enhancer 0.8 ENCODE 10.1 +133.5 133520 0.2 HDAC1 PKNOX1 ATF1 ARNT ZBTB40 CHAMP1 NCOA2 TCF12 ZBTB2 ZBTB11 ZNF23 ENSG00000247324 CALB2 TAT ENSG00000261611 LOC105371335 ZNF19
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around CALB2 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CALB2 gene promoter:

Genomic Locations for CALB2 Gene

Genomic Locations for CALB2 Gene
chr16:71,358,713-71,390,438
(GRCh38/hg38)
Size:
31,726 bases
Orientation:
Plus strand
chr16:71,392,616-71,424,341
(GRCh37/hg19)

Genomic View for CALB2 Gene

Genes around CALB2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CALB2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CALB2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CALB2 Gene

Proteins for CALB2 Gene

  • Protein details for CALB2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P22676-CALB2_HUMAN
    Recommended name:
    Calretinin
    Protein Accession:
    P22676
    Secondary Accessions:
    • A8K4Y1
    • Q53HD2
    • Q96BK4

    Protein attributes for CALB2 Gene

    Size:
    271 amino acids
    Molecular mass:
    31540 Da
    Quaternary structure:
    No Data Available

neXtProt entry for CALB2 Gene

Post-translational modifications for CALB2 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CALB2 Gene

No data available for DME Specific Peptides for CALB2 Gene

Domains & Families for CALB2 Gene

Gene Families for CALB2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted intracellular proteins
  • Transporters

Protein Domains for CALB2 Gene

Suggested Antigen Peptide Sequences for CALB2 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P22676

UniProtKB/Swiss-Prot:

CALB2_HUMAN :
  • Belongs to the calbindin family.
Family:
  • Belongs to the calbindin family.
genes like me logo Genes that share domains with CALB2: view

Function for CALB2 Gene

Molecular function for CALB2 Gene

UniProtKB/Swiss-Prot Function:
Calretinin is a calcium-binding protein which is abundant in auditory neurons.
GENATLAS Biochemistry:
calbindin (29kDa),vitamin D dependent calcium binding protein 2,from the intestine

Phenotypes From GWAS Catalog for CALB2 Gene

Gene Ontology (GO) - Molecular Function for CALB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005509 calcium ion binding IBA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with CALB2: view
genes like me logo Genes that share phenotypes with CALB2: view

Animal Models for CALB2 Gene

MGI Knock Outs for CALB2:

Animal Model Products

miRNA for CALB2 Gene

miRTarBase miRNAs that target CALB2

Clone Products

  • Addgene plasmids for CALB2

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CALB2 Gene

Localization for CALB2 Gene

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 CALB2 gene
Compartment Confidence
cytosol 5
nucleus 4
cytoskeleton 3
extracellular 2
plasma membrane 1
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for CALB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IBA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol IDA --
GO:0005921 gap junction IEA --
GO:0030425 dendrite IBA --
genes like me logo Genes that share ontologies with CALB2: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for CALB2 Gene

Pathways & Interactions for CALB2 Gene

SuperPathways for CALB2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for CALB2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0051480 regulation of cytosolic calcium ion concentration IBA --
GO:0099509 regulation of presynaptic cytosolic calcium ion concentration IBA --
GO:1900271 regulation of long-term synaptic potentiation IBA --
genes like me logo Genes that share ontologies with CALB2: view

No data available for Pathways by source and SIGNOR curated interactions for CALB2 Gene

Drugs & Compounds for CALB2 Gene

(23) Drugs for CALB2 Gene - From: DrugBank, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Approved Nutra 0
Calcium Citrate Approved Pharma Target, ligand 0
Calcium levulinate Approved, Experimental Pharma Target, agonist 0
Calcium Phosphate Approved Pharma Target, ligand 0

(13) Additional Compounds for CALB2 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with CALB2: view

Transcripts for CALB2 Gene

mRNA/cDNA for CALB2 Gene

Unigene Clusters for CALB2 Gene

Calbindin 2:
Representative Sequences:

Clone Products

  • Addgene plasmids for CALB2

Alternative Splicing Database (ASD) splice patterns (SP) for CALB2 Gene

No ASD Table

Relevant External Links for CALB2 Gene

GeneLoc Exon Structure for
CALB2
ECgene alternative splicing isoforms for
CALB2

Expression for CALB2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CALB2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CALB2 Gene

This gene is overexpressed in Brain - Hypothalamus (x11.9), Adipose - Visceral (Omentum) (x4.4), Brain - Cerebellum (x4.3), and Brain - Cerebellar Hemisphere (x4.2).

Protein differential expression in normal tissues from HIPED for CALB2 Gene

This gene is overexpressed in Testis (29.9), Nasopharynx (10.2), and Fetal testis (7.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CALB2 Gene



NURSA nuclear receptor signaling pathways regulating expression of CALB2 Gene:

CALB2

SOURCE GeneReport for Unigene cluster for CALB2 Gene:

Hs.106857

mRNA Expression by UniProt/SwissProt for CALB2 Gene:

P22676-CALB2_HUMAN
Tissue specificity: Brain.

Evidence on tissue expression from TISSUES for CALB2 Gene

  • Nervous system(4.9)
  • Intestine(4.5)
  • Eye(2.8)
  • Lung(2.4)
  • Kidney(2.2)
  • Adrenal gland(2)
genes like me logo Genes that share expression patterns with CALB2: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for CALB2 Gene

Orthologs for CALB2 Gene

This gene was present in the common ancestor of animals.

Orthologs for CALB2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CALB2 34
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia CALB2 34 33
  • 93.68 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia CALB2 34
  • 93 (a)
OneToOne
cow
(Bos Taurus)
Mammalia CALB2 34 33
  • 91.39 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Calb2 33
  • 91.14 (n)
mouse
(Mus musculus)
Mammalia Calb2 16 34 33
  • 91.02 (n)
oppossum
(Monodelphis domestica)
Mammalia CALB2 34
  • 84 (a)
OneToOne
chicken
(Gallus gallus)
Aves CALB2 34 33
  • 81.04 (n)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia calb2 33
  • 72.68 (n)
zebrafish
(Danio rerio)
Actinopterygii calb2a 34 33
  • 73.36 (n)
OneToMany
calb2b 34
  • 72 (a)
OneToMany
-- 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.698 33
fruit fly
(Drosophila melanogaster)
Insecta Cbp53E 34 35
  • 41 (a)
OneToMany
Species where no ortholog for CALB2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CALB2 Gene

ENSEMBL:
Gene Tree for CALB2 (if available)
TreeFam:
Gene Tree for CALB2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for CALB2: view image

Paralogs for CALB2 Gene

Paralogs for CALB2 Gene

(3) SIMAP similar genes for CALB2 Gene using alignment to 4 proteins:

  • CALB2_HUMAN
  • A6NER6_HUMAN
  • H3BMN5_HUMAN
  • H3BN14_HUMAN
genes like me logo Genes that share paralogs with CALB2: view

Variants for CALB2 Gene

Sequence variations from dbSNP and Humsavar for CALB2 Gene

SNP ID Clin Chr 16 pos Variation AA Info Type
rs1000018017 -- 71,364,986(+) C/A intron_variant
rs1000031506 -- 71,358,951(+) G/C intron_variant
rs1000076978 -- 71,362,715(+) T/G intron_variant
rs1000171033 -- 71,374,145(+) A/C intron_variant
rs1000201374 -- 71,368,235(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for CALB2 Gene

Variant ID Type Subtype PubMed ID
esv2640068 CNV insertion 19546169
esv3417792 CNV duplication 20981092
esv3582293 CNV loss 25503493
esv3638971 CNV gain 21293372
nsv572949 CNV loss 21841781
nsv7285 OTHER inversion 18451855

Variation tolerance for CALB2 Gene

Residual Variation Intolerance Score: 29.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.87; 79.42% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CALB2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CALB2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CALB2 Gene

Disorders for CALB2 Gene

MalaCards: The human disease database

(66) MalaCards diseases for CALB2 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
adenomatoid tumor
  • benign localized epithelial mesothelioma
adenofibroma
  • adenofibroma, no icd-o subtype
sertoli cell tumor
  • tubular androblastoma
sex cord-gonadal stromal tumor
  • malignant testicular sex cord-stromal tumor
sertoli-leydig cell tumor
  • sertoli-leydig cell tumors
- elite association - COSMIC cancer census association via MalaCards
Search CALB2 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for CALB2

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with CALB2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CALB2 Gene

Publications for CALB2 Gene

  1. Heterozygosity of SNP513 in intron 9 of the human calretinin gene (CALB2) is a risk factor for colon cancer. (PMID: 18214032) Vonlanthen S … Schwaller B (Anticancer research 2007) 3 22 44 58
  2. Structure of the human brain calcium-binding protein calretinin and its expression in bacteria. (PMID: 2001709) Parmentier M … Lefort A (European journal of biochemistry 1991) 3 4 22 58
  3. The human calbindin D28k (CALB1) and calretinin (CALB2) genes are located at 8q21.3----q22.1 and 16q22----q23, respectively, suggesting a common duplication with the carbonic anhydrase isozyme loci. (PMID: 1906795) Parmentier M … Mattei MG (Cytogenetics and cell genetics 1991) 2 3 22 58
  4. A bipartite butyrate-responsive element in the human calretinin (CALB2) promoter acts as a repressor in colon carcinoma cells but not in mesothelioma cells. (PMID: 19998412) Häner K … Schwaller B (Journal of cellular biochemistry 2010) 3 22 58
  5. Calretinin immunohistochemistry: a simple and efficient tool to diagnose Hirschsprung disease. (PMID: 19648883) Guinard-Samuel V … Berrebi-Binczak D (Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc 2009) 3 22 58

Products for CALB2 Gene

Sources for CALB2 Gene

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