Free for academic non-profit institutions. Other users need a Commercial license

Aliases for CNN3 Gene

Aliases for CNN3 Gene

  • Calponin 3 2 3 5
  • Calponin, Acidic Isoform 3 4
  • Calponin 3, Acidic 2 3
  • DJ639P13.2.2 (Acidic Calponin 3) 3
  • Calponin-3 3

External Ids for CNN3 Gene

Previous GeneCards Identifiers for CNN3 Gene

  • GC01M095763
  • GC01M094568
  • GC01M094713
  • GC01M094834
  • GC01M095074
  • GC01M095135
  • GC01M095362
  • GC01M093484

Summaries for CNN3 Gene

Entrez Gene Summary for CNN3 Gene

  • This gene encodes a protein with a markedly acidic C terminus; the basic N-terminus is highly homologous to the N-terminus of a related gene, CNN1. Members of the CNN gene family all contain similar tandemly repeated motifs. This encoded protein is associated with the cytoskeleton but is not involved in contraction. [provided by RefSeq, Jul 2008]

GeneCards Summary for CNN3 Gene

CNN3 (Calponin 3) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include actin binding and calmodulin binding. An important paralog of this gene is CNN1.

UniProtKB/Swiss-Prot for CNN3 Gene

  • Thin filament-associated protein that is implicated in the regulation and modulation of smooth muscle contraction. It is capable of binding to actin, calmodulin, troponin C and tropomyosin. The interaction of calponin with actin inhibits the actomyosin Mg-ATPase activity.

Additional gene information for CNN3 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CNN3 Gene

Genomics for CNN3 Gene

GeneHancer (GH) Regulatory Elements for CNN3 Gene

Promoters and enhancers for CNN3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J094921 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 655.9 +1.4 1437 8.3 FOXA2 ARID4B SIN3A FEZF1 ZNF2 YY1 ZNF143 SP3 NFYC MXD4 LOC729970 CNN3 LOC105378862 RWDD3 LINC01760 LINC01650 LINC01761 ENSG00000233482 GAPDHP29 LOC101928098
GH01J094416 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 10.6 +509.0 508983 3.6 HDGF PKNOX1 MLX ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 YY1 ABCD3 CNN3 ENSG00000230439 RWDD3 ENSG00000228852 DNTTIP2 SLC44A3 GC01P094517
GH01J095020 Enhancer 1 Ensembl ENCODE dbSUPER 15.7 -95.6 -95571 3.9 JUN HLF ZFHX2 JUND ZFP3 SCRT2 FOS KLF13 ZBTB12 PRDM1 CNN3 LOC729970 ALG14 RWDD3 ENSG00000228852 LOC105378863 GC01M094925 GC01M094924
GH01J094862 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 11.1 +62.3 62310 5.8 SAP130 JUN ZNF384 TEAD3 GATA3 ZNF213 RBAK POLR2A RCOR1 FOSL2 RWDD3 ENSG00000228852 LOC729970 CNN3 LOC101928098 SLC44A3 LOC101928118 SLC44A3-AS1 GC01P094917
GH01J094986 Promoter/Enhancer 0.9 EPDnew ENCODE 16.2 -60.2 -60216 1.6 SMAD4 RARA RXRB TMEM56 CNN3 LOC729970 LOC101928098 ALG14 GC01M094925 GC01M094924
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around CNN3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the CNN3 gene promoter:
  • ER-alpha
  • p53
  • XBP-1
  • Nkx2-5
  • C/EBPalpha
  • AML1a
  • c-Myb
  • AP-4
  • Pax-5

Genomic Locations for CNN3 Gene

Genomic Locations for CNN3 Gene
30,330 bases
Minus strand
30,328 bases
Minus strand

Genomic View for CNN3 Gene

Genes around CNN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CNN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CNN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CNN3 Gene

Proteins for CNN3 Gene

  • Protein details for CNN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B4DFK6
    • B4DP09
    • F8WA86
    • Q6FHA7

    Protein attributes for CNN3 Gene

    329 amino acids
    Molecular mass:
    36414 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for CNN3 Gene


neXtProt entry for CNN3 Gene

Post-translational modifications for CNN3 Gene

  • Ubiquitination at Lys256
  • Modification sites at PhosphoSitePlus

Other Protein References for CNN3 Gene

No data available for DME Specific Peptides for CNN3 Gene

Domains & Families for CNN3 Gene

Gene Families for CNN3 Gene

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

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the calponin family.
  • Belongs to the calponin family.
genes like me logo Genes that share domains with CNN3: view

Function for CNN3 Gene

Molecular function for CNN3 Gene

UniProtKB/Swiss-Prot Function:
Thin filament-associated protein that is implicated in the regulation and modulation of smooth muscle contraction. It is capable of binding to actin, calmodulin, troponin C and tropomyosin. The interaction of calponin with actin inhibits the actomyosin Mg-ATPase activity.
GENATLAS Biochemistry:
calponin,acidic,36kDa,cytoskeletal protein,ubiquitously expressed in smooth muscle and non smooth muscle tissues,actin,calmodulin,tropomyosin binding,downregulated during dedifferentiation of vascular smooth muscle cell

Phenotypes From GWAS Catalog for CNN3 Gene

Gene Ontology (GO) - Molecular Function for CNN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003779 actin binding IEA --
GO:0005515 protein binding IEA --
GO:0005516 calmodulin binding IEA --
GO:0008017 microtubule binding IEA --
GO:0098641 cadherin binding involved in cell-cell adhesion IDA 25468996
genes like me logo Genes that share ontologies with CNN3: view

Phenotypes for CNN3 Gene

genes like me logo Genes that share phenotypes with CNN3: view

Animal Models for CNN3 Gene

MGI Knock Outs for CNN3:
  • Cnn3 Cnn3<tm1.2Hjum>

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for CNN3 Gene

Localization for CNN3 Gene

Subcellular locations from

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 CNN3 gene
Compartment Confidence
cytoskeleton 5
cytosol 5
nucleus 2
extracellular 1
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Actin filaments (4)
  • Cytosol (4)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for CNN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol IDA --
GO:0005913 cell-cell adherens junction IDA 25468996
GO:0005925 focal adhesion HDA 21423176
GO:0014069 postsynaptic density IEA --
GO:0015629 actin cytoskeleton IDA --
genes like me logo Genes that share ontologies with CNN3: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for CNN3 Gene

Pathways & Interactions for CNN3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for CNN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030855 epithelial cell differentiation IEP 21492153
GO:0031032 actomyosin structure organization IEA --
GO:0032780 negative regulation of ATPase activity IEA --
GO:0098609 cell-cell adhesion IEA --
genes like me logo Genes that share ontologies with CNN3: view

No data available for Pathways by source and SIGNOR curated interactions for CNN3 Gene

Drugs & Compounds for CNN3 Gene

No Compound Related Data Available

Transcripts for CNN3 Gene

Unigene Clusters for CNN3 Gene

Calponin 3, acidic:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for CNN3 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10a · 10b ^ 11a · 11b
SP1: - - - - - - -
SP2: - - - - -
SP3: -
SP4: -
SP7: - - - - -

Relevant External Links for CNN3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for CNN3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CNN3 Gene

Protein differential expression in normal tissues from HIPED for CNN3 Gene

This gene is overexpressed in Bone marrow stromal cell (13.8) and Uterus (11.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for CNN3 Gene

Protein tissue co-expression partners for CNN3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CNN3 Gene:


SOURCE GeneReport for Unigene cluster for CNN3 Gene:


mRNA Expression by UniProt/SwissProt for CNN3 Gene:

Tissue specificity: Expressed in both non-smooth muscle tissues as well as smooth muscle tissues.

Evidence on tissue expression from TISSUES for CNN3 Gene

  • Nervous system(4.9)
  • Kidney(4.4)
  • Liver(4.4)
  • Lung(2.8)
  • Skin(2.5)
  • Muscle(2.3)
  • Adrenal gland(2.2)
  • Gall bladder(2.1)
  • Heart(2)
genes like me logo Genes that share expression patterns with CNN3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for CNN3 Gene

Orthologs for CNN3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for CNN3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia CNN3 34 33
  • 99.8 (n)
(Monodelphis domestica)
Mammalia CNN3 34
  • 96 (a)
(Ornithorhynchus anatinus)
Mammalia CNN3 34
  • 95 (a)
(Bos Taurus)
Mammalia CNN3 34 33
  • 94.83 (n)
(Canis familiaris)
Mammalia CNN3 34 33
  • 91.53 (n)
(Mus musculus)
Mammalia Cnn3 16 34 33
  • 90.07 (n)
(Rattus norvegicus)
Mammalia Cnn3 33
  • 90.07 (n)
(Gallus gallus)
Aves CNN3 34 33
  • 83.6 (n)
(Anolis carolinensis)
Reptilia CNN3 34
  • 87 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia cnn3 33
  • 79.13 (n)
MGC76140 33
African clawed frog
(Xenopus laevis)
Amphibia cnn3-prov 33
(Danio rerio)
Actinopterygii cnn3b 34
  • 81 (a)
cnn3a 33
  • 74.92 (n)
wufe49h10 33
fruit fly
(Drosophila melanogaster)
Insecta Chd64 33
  • 49.07 (n)
Mp20 34
  • 37 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001313 33
  • 47.51 (n)
(Caenorhabditis elegans)
Secernentea cpn-2 34
  • 37 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SCP1 34
  • 26 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.7148 34
  • 44 (a)
Species where no ortholog for CNN3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for CNN3 Gene

Gene Tree for CNN3 (if available)
Gene Tree for CNN3 (if available)
Evolutionary constrained regions (ECRs) for CNN3: view image

Paralogs for CNN3 Gene

Paralogs for CNN3 Gene

(14) SIMAP similar genes for CNN3 Gene using alignment to 5 proteins:

  • F8WA86_HUMAN
  • Q9BWY6_HUMAN Pseudogenes for CNN3 Gene

genes like me logo Genes that share paralogs with CNN3: view

Variants for CNN3 Gene

Sequence variations from dbSNP and Humsavar for CNN3 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000079613 -- 94,922,757(-) A/T intron_variant
rs1000142140 -- 94,925,419(-) C/T intron_variant
rs1000274083 -- 94,897,685(-) C/T 3_prime_UTR_variant
rs1000420728 -- 94,904,847(-) G/C intron_variant
rs1000455963 -- 94,927,451(-) G/T upstream_transcript_variant

Variation tolerance for CNN3 Gene

Residual Variation Intolerance Score: 48.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.74; 32.94% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for CNN3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for CNN3 Gene

Disorders for CNN3 Gene

Additional Disease Information for CNN3

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for CNN3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CNN3 Gene

Publications for CNN3 Gene

  1. Molecular cloning and gene mapping of human basic and acidic calponins. (PMID: 8526917) Maguchi M … Hiwada K (Biochemical and biophysical research communications 1995) 2 3 4 58
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
  3. An emerin "proteome": purification of distinct emerin-containing complexes from HeLa cells suggests molecular basis for diverse roles including gene regulation, mRNA splicing, signaling, mechanosensing, and nuclear architecture. (PMID: 17620012) Holaska JM … Wilson KL (Biochemistry 2007) 3 22 58
  4. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 58
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58

Products for CNN3 Gene

Sources for CNN3 Gene

Loading form....