Human Gene CNN2 (ENST00000263097.9_5) from GENCODE V47lift37
  Description: calponin 2, transcript variant 1 (from RefSeq NM_004368.4)
Gencode Transcript: ENST00000263097.9_5
Gencode Gene: ENSG00000064666.15_16
Transcript (Including UTRs)
   Position: hg19 chr19:1,026,607-1,039,064 Size: 12,458 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr19:1,026,661-1,037,899 Size: 11,239 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:1,026,607-1,039,064)mRNA (may differ from genome)Protein (309 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CNN2_HUMAN
DESCRIPTION: RecName: Full=Calponin-2; AltName: Full=Calponin H2, smooth muscle; AltName: Full=Neutral calponin;
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: Heart and smooth muscle.
SIMILARITY: Belongs to the calponin family.
SIMILARITY: Contains 3 calponin-like repeats.
SIMILARITY: Contains 1 CH (calponin-homology) domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 162.83 RPKM in Whole Blood
Total median expression: 1822.88 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -9.5054-0.176 Picture PostScript Text
3' UTR -421.601165-0.362 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
116907 - Hook domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1WYN - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q99439
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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003779 actin binding
GO:0005516 calmodulin binding
GO:0045296 cadherin binding

Biological Process:
GO:0007010 cytoskeleton organization
GO:0031032 actomyosin structure organization
GO:0032970 regulation of actin filament-based process
GO:0035722 interleukin-12-mediated signaling pathway
GO:0043312 neutrophil degranulation
GO:0071260 cellular response to mechanical stimulus

Cellular Component:
GO:0001725 stress fiber
GO:0005576 extracellular region
GO:0005856 cytoskeleton
GO:0005911 cell-cell junction
GO:0005925 focal adhesion
GO:0016020 membrane
GO:0035580 specific granule lumen
GO:1904724 tertiary granule lumen


-  Descriptions from all associated GenBank mRNAs
  AK295271 - Homo sapiens cDNA FLJ52495 complete cds, highly similar to Calponin-2.
AK126391 - Homo sapiens cDNA FLJ44427 fis, clone UTERU2007724, highly similar to Homo sapiens calponin 2 (CNN2), transcript variant 2, mRNA.
AK297774 - Homo sapiens cDNA FLJ52701 complete cds, highly similar to Calponin-2.
AK293171 - Homo sapiens cDNA FLJ52469 complete cds, highly similar to Calponin-2.
AK024835 - Homo sapiens cDNA: FLJ21182 fis, clone CAS11560, highly similar to D83735 Homo sapiens mRNA for neutral calponin.
AK057960 - Homo sapiens cDNA FLJ25231 fis, clone STM01762.
BC141818 - Homo sapiens calponin 2, mRNA (cDNA clone MGC:164915 IMAGE:40148129), complete cds.
BC141833 - Homo sapiens calponin 2, mRNA (cDNA clone MGC:165052 IMAGE:40148834), complete cds.
D83735 - Homo sapiens mRNA for neutral calponin, complete cds.
AK222924 - Homo sapiens mRNA for calponin 2 isoform a variant, clone: HRC06034.
AK300788 - Homo sapiens cDNA FLJ52765 complete cds, highly similar to Calponin-2.
D86059 - Homo sapiens mRNA for h2-calponin, partial cds.
KJ896621 - Synthetic construct Homo sapiens clone ccsbBroadEn_06015 CNN2 gene, encodes complete protein.
CR541831 - Homo sapiens full open reading frame cDNA clone RZPDo834C0732D for gene CNN2, calponin 2; complete cds, without stopcodon.
CR541810 - Homo sapiens full open reading frame cDNA clone RZPDo834E0831D for gene CNN2, calponin 2; complete cds, incl. stopcodon.
BC148264 - Homo sapiens calponin 2 (CNN2) mRNA, partial cds.
AY927514 - Homo sapiens mRNA sequence.
AY927510 - Homo sapiens mRNA sequence.
AK093630 - Homo sapiens cDNA FLJ36311 fis, clone THYMU2005046, highly similar to CALPONIN H2, SMOOTH MUSCLE.
JD425962 - Sequence 406986 from Patent EP1572962.
JD100622 - Sequence 81646 from Patent EP1572962.
JD351992 - Sequence 333016 from Patent EP1572962.
JD157003 - Sequence 138027 from Patent EP1572962.
JD522691 - Sequence 503715 from Patent EP1572962.
JD334544 - Sequence 315568 from Patent EP1572962.
JD455879 - Sequence 436903 from Patent EP1572962.
JD392979 - Sequence 374003 from Patent EP1572962.
JD282412 - Sequence 263436 from Patent EP1572962.
JD272830 - Sequence 253854 from Patent EP1572962.
JD214447 - Sequence 195471 from Patent EP1572962.
JD283501 - Sequence 264525 from Patent EP1572962.
JD139682 - Sequence 120706 from Patent EP1572962.
JD181029 - Sequence 162053 from Patent EP1572962.
JD203079 - Sequence 184103 from Patent EP1572962.
JD146062 - Sequence 127086 from Patent EP1572962.
JD055466 - Sequence 36490 from Patent EP1572962.
JD329574 - Sequence 310598 from Patent EP1572962.
JD222533 - Sequence 203557 from Patent EP1572962.
JD494892 - Sequence 475916 from Patent EP1572962.
JD386330 - Sequence 367354 from Patent EP1572962.
JD377181 - Sequence 358205 from Patent EP1572962.
JD087129 - Sequence 68153 from Patent EP1572962.
JD262135 - Sequence 243159 from Patent EP1572962.
JD165288 - Sequence 146312 from Patent EP1572962.
JD560997 - Sequence 542021 from Patent EP1572962.
JD542985 - Sequence 524009 from Patent EP1572962.
JD059685 - Sequence 40709 from Patent EP1572962.
JD534588 - Sequence 515612 from Patent EP1572962.
JD070426 - Sequence 51450 from Patent EP1572962.
JD398630 - Sequence 379654 from Patent EP1572962.
JD242900 - Sequence 223924 from Patent EP1572962.
JD374878 - Sequence 355902 from Patent EP1572962.
JD064625 - Sequence 45649 from Patent EP1572962.
JD333309 - Sequence 314333 from Patent EP1572962.
JD333310 - Sequence 314334 from Patent EP1572962.
JD255574 - Sequence 236598 from Patent EP1572962.
JD355574 - Sequence 336598 from Patent EP1572962.
JD459938 - Sequence 440962 from Patent EP1572962.
JD086236 - Sequence 67260 from Patent EP1572962.
JD406309 - Sequence 387333 from Patent EP1572962.
JD108358 - Sequence 89382 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q99439 (Reactome details) participates in the following event(s):

R-HSA-6798749 Exocytosis of specific granule lumen proteins
R-HSA-6798745 Exocytosis of tertiary granule lumen proteins
R-HSA-8950505 Gene and protein expression by JAK-STAT signaling after Interleukin-12 stimulation
R-HSA-6798695 Neutrophil degranulation
R-HSA-9020591 Interleukin-12 signaling
R-HSA-168249 Innate Immune System
R-HSA-447115 Interleukin-12 family signaling
R-HSA-168256 Immune System
R-HSA-449147 Signaling by Interleukins
R-HSA-1280215 Cytokine Signaling in Immune system

-  Other Names for This Gene
  Alternate Gene Symbols: A5D8U8, A6NFI4, CNN2_HUMAN, D6W5X9, ENST00000263097.1, ENST00000263097.2, ENST00000263097.3, ENST00000263097.4, ENST00000263097.5, ENST00000263097.6, ENST00000263097.7, ENST00000263097.8, NM_004368, Q92578, Q99439, uc317hgq.1, uc317hgq.2
UCSC ID: ENST00000263097.9_5
RefSeq Accession: NM_004368.4
Protein: Q99439 (aka CNN2_HUMAN)

-  Gene Model Information
  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.