Human Gene CAPN11 (ENST00000398776.2_4) from GENCODE V47lift37
  Description: calpain 11 (from RefSeq NM_007058.4)
Gencode Transcript: ENST00000398776.2_4
Gencode Gene: ENSG00000137225.13_8
Transcript (Including UTRs)
   Position: hg19 chr6:44,126,557-44,152,138 Size: 25,582 Total Exon Count: 23 Strand: +
Coding Region
   Position: hg19 chr6:44,126,586-44,151,669 Size: 25,084 Coding Exon Count: 23 

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 (chr6:44,126,557-44,152,138)mRNA (may differ from genome)Protein (739 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CAN11_HUMAN
DESCRIPTION: RecName: Full=Calpain-11; EC=3.4.22.-; AltName: Full=Calcium-activated neutral proteinase 11; Short=CANP 11;
FUNCTION: Calcium-regulated non-lysosomal thiol-protease which catalyzes limited proteolysis of substrates involved in cytoskeletal remodeling and signal transduction.
CATALYTIC ACTIVITY: Broad endopeptidase specificity.
SUBUNIT: Heterodimer of a large (catalytic) and a small (regulatory) subunit.
SUBCELLULAR LOCATION: Cytoplasmic vesicle, secretory vesicle, acrosome (By similarity).
TISSUE SPECIFICITY: Highest expression in testis.
SIMILARITY: Belongs to the peptidase C2 family.
SIMILARITY: Contains 1 calpain catalytic domain.
SIMILARITY: Contains 2 EF-hand domains.
SEQUENCE CAUTION: Sequence=AAH33733.1; Type=Erroneous initiation; Sequence=BAG36761.1; Type=Erroneous initiation; Sequence=CAB52137.1; Type=Erroneous initiation;

-  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
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 32.28 RPKM in Testis
Total median expression: 50.66 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 -1.9029-0.066 Picture PostScript Text
3' UTR -169.00469-0.360 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
IPR022684 - Calpain_cysteine_protease
IPR022682 - Calpain_domain_III
IPR022683 - Calpain_III
IPR011992 - EF-hand-like_dom
IPR018247 - EF_Hand_1_Ca_BS
IPR018249 - EF_HAND_2
IPR002048 - EF_hand_Ca-bd
IPR000169 - Pept_cys_AS
IPR001300 - Peptidase_C2_calpain_cat

Pfam Domains:
PF00648 - Calpain family cysteine protease
PF01067 - Calpain large subunit, domain III
PF13833 - EF-hand domain pair

SCOP Domains:
47473 - EF-hand
49758 - Calpain large subunit, middle domain (domain III)
54001 - Cysteine proteinases

ModBase Predicted Comparative 3D Structure on Q9UMQ6
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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:0004198 calcium-dependent cysteine-type endopeptidase activity
GO:0005509 calcium ion binding
GO:0008233 peptidase activity
GO:0008234 cysteine-type peptidase activity
GO:0016787 hydrolase activity
GO:0046872 metal ion binding

Biological Process:
GO:0006508 proteolysis

Cellular Component:
GO:0001669 acrosomal vesicle
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0031410 cytoplasmic vesicle


-  Descriptions from all associated GenBank mRNAs
  AK314054 - Homo sapiens cDNA, FLJ94719, highly similar to Homo sapiens calpain 11 (CAPN11), mRNA.
BC033733 - Homo sapiens calpain 11, mRNA (cDNA clone MGC:45189 IMAGE:5170266), complete cds.
AJ242832 - Homo sapiens mRNA for calpain.
JD163864 - Sequence 144888 from Patent EP1572962.
JD442328 - Sequence 423352 from Patent EP1572962.
CU689718 - Synthetic construct Homo sapiens gateway clone IMAGE:100020029 5' read CAPN11 mRNA.
JF432283 - Synthetic construct Homo sapiens clone IMAGE:100073459 calpain 11 (CAPN11) gene, encodes complete protein.
KJ902206 - Synthetic construct Homo sapiens clone ccsbBroadEn_11600 CAPN11 gene, encodes complete protein.
AK309883 - Homo sapiens cDNA, FLJ99924.
AK300107 - Homo sapiens cDNA FLJ60880 complete cds, highly similar to Calpain-11 (EC 3.4.22.-).

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

Protein Q9UMQ6 (Reactome details) participates in the following event(s):

R-HSA-8848658 CAPN:4xCa2+:CAPNS cleave cytoskeletal proteins
R-HSA-1474228 Degradation of the extracellular matrix
R-HSA-1474244 Extracellular matrix organization

-  Other Names for This Gene
  Alternate Gene Symbols: B2RA64, CAN11_HUMAN, ENST00000398776.1, NM_007058, Q5T3G1, Q8N4R5, Q9UMQ6, uc318zxx.1, uc318zxx.2
UCSC ID: ENST00000398776.2_4
RefSeq Accession: NM_007058.4
Protein: Q9UMQ6 (aka CAN11_HUMAN or CANB_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.