Human Gene CNN3 (uc001dqz.4) Description and Page Index
  Description: Homo sapiens calponin 3, acidic (CNN3), mRNA.
RefSeq Summary (NM_001839): 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].
Transcript (Including UTRs)
   Position: hg19 chr1:95,362,507-95,392,735 Size: 30,229 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr1:95,363,298-95,392,450 Size: 29,153 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:95,362,507-95,392,735)mRNA (may differ from genome)Protein (329 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedStanford SOURCETreefamUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: CNN3_HUMAN
DESCRIPTION: RecName: Full=Calponin-3; AltName: Full=Calponin, acidic isoform;
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.
TISSUE SPECIFICITY: Expressed in both non-smooth muscle tissues as well as smooth muscle tissues.
SIMILARITY: Belongs to the calponin family.
SIMILARITY: Contains 3 calponin-like repeats.
SIMILARITY: Contains 1 CH (calponin-homology) domain.

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): CNN3
CDC HuGE Published Literature: CNN3

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 159.54 RPKM in Adrenal Gland
Total median expression: 3453.07 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -149.60285-0.525 Picture PostScript Text
3' UTR -167.51791-0.212 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001997 - Calponin
IPR000557 - Calponin_repeat
IPR001715 - CH-domain
IPR003096 - SM22_calponin

Pfam Domains:
PF00307 - Calponin homology (CH) domain
PF00402 - Calponin family repeat

SCOP Domains:
47576 - Calponin-homology domain, CH-domain

ModBase Predicted Comparative 3D Structure on Q15417
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
 Protein SequenceProtein Sequence   
 AlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003779 actin binding
GO:0005516 calmodulin binding
GO:0008017 microtubule binding
GO:0098641 cadherin binding involved in cell-cell adhesion

Biological Process:
GO:0030855 epithelial cell differentiation
GO:0031032 actomyosin structure organization
GO:0032780 negative regulation of ATPase activity
GO:0098609 cell-cell adhesion

Cellular Component:
GO:0005829 cytosol
GO:0005913 cell-cell adherens junction
GO:0005925 focal adhesion
GO:0014069 postsynaptic density
GO:0015629 actin cytoskeleton
GO:0030425 dendrite
GO:0043025 neuronal cell body
GO:0043197 dendritic spine


-  Descriptions from all associated GenBank mRNAs
  BC025372 - Homo sapiens calponin 3, acidic, mRNA (cDNA clone MGC:1775 IMAGE:3505668), complete cds.
S80562 - acidic calponin [human, kidney, mRNA, 1607 nt].
AK294141 - Homo sapiens cDNA FLJ50126 complete cds, highly similar to Calponin-3.
AK298145 - Homo sapiens cDNA FLJ53072 complete cds, highly similar to Calponin-3.
AK316398 - Homo sapiens cDNA, FLJ79297 complete cds, highly similar to Calponin-3.
JD154212 - Sequence 135236 from Patent EP1572962.
JD345320 - Sequence 326344 from Patent EP1572962.
JD058099 - Sequence 39123 from Patent EP1572962.
DQ893013 - Synthetic construct clone IMAGE:100005643; FLH191678.01X; RZPDo839F1077D calponin 3, acidic (CNN3) gene, encodes complete protein.
AK312370 - Homo sapiens cDNA, FLJ92692, Homo sapiens calponin 3, acidic (CNN3), mRNA.
CU692978 - Synthetic construct Homo sapiens gateway clone IMAGE:100021960 5' read CNN3 mRNA.
KJ890945 - Synthetic construct Homo sapiens clone ccsbBroadEn_00339 CNN3 gene, encodes complete protein.
DQ896258 - Synthetic construct Homo sapiens clone IMAGE:100010718; FLH191674.01L; RZPDo839F1067D calponin 3, acidic (CNN3) gene, encodes complete protein.
CR541848 - Homo sapiens full open reading frame cDNA clone RZPDo834F0232D for gene CNN3, calponin 3, acidic; complete cds, without stopcodon.
JD128960 - Sequence 109984 from Patent EP1572962.
JD460558 - Sequence 441582 from Patent EP1572962.
JD067686 - Sequence 48710 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CNN3_HUMAN, NM_001839, NP_001830, Q15417, Q6FHA7
UCSC ID: uc001dqz.4
RefSeq Accession: NM_001839
Protein: Q15417 (aka CNN3_HUMAN)
CCDS: CCDS30775.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001839.3
exon count: 7CDS single in 3' UTR: no RNA size: 2082
ORF size: 990CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2180.00frame shift in genome: no % Coverage: 99.23
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.