Human Gene CAPN5 (ENST00000648180.1_5) from GENCODE V47lift37
  Description: calpain 5 (from RefSeq NM_004055.5)
Gencode Transcript: ENST00000648180.1_5
Gencode Gene: ENSG00000149260.18_13
Transcript (Including UTRs)
   Position: hg19 chr11:76,778,018-76,837,201 Size: 59,184 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr11:76,795,933-76,834,916 Size: 38,984 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesMicroarray 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 (chr11:76,778,018-76,837,201)mRNA (may differ from genome)Protein (640 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CAN5_HUMAN
DESCRIPTION: RecName: Full=Calpain-5; EC=3.4.22.-; AltName: Full=Calpain htra-3; AltName: Full=New calpain 3; Short=nCL-3;
CATALYTIC ACTIVITY: Broad endopeptidase specificity.
TISSUE SPECIFICITY: Expressed in many tissues.
SIMILARITY: Belongs to the peptidase C2 family.
SIMILARITY: Contains 1 C2 domain.
SIMILARITY: Contains 1 calpain catalytic 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


-  MalaCards Disease Associations
  MalaCards Gene Search: CAPN5
Diseases sorted by gene-association score: vitreoretinopathy, neovascular inflammatory* (1694), posterior uveitis (17), uveitis (14), macular dystrophy, dominant cystoid (10), retinal detachment (6), macular retinal edema (6), retinitis pigmentosa (1), diabetes mellitus, noninsulin-dependent (1)
* = Manually curated disease association

-  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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+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -83.90159-0.528 Picture PostScript Text
3' UTR -857.802285-0.375 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
IPR000008 - C2_Ca-dep
IPR008973 - C2_Ca/lipid-bd_dom_CaLB
IPR022684 - Calpain_cysteine_protease
IPR022682 - Calpain_domain_III
IPR022683 - Calpain_III
IPR000169 - Pept_cys_AS
IPR001300 - Peptidase_C2_calpain_cat

Pfam Domains:
PF00168 - C2 domain
PF00648 - Calpain family cysteine protease
PF01067 - Calpain large subunit, domain III

SCOP Domains:
49758 - Calpain large subunit, middle domain (domain III)
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
54001 - Cysteine proteinases

ModBase Predicted Comparative 3D Structure on O15484
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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    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004198 calcium-dependent cysteine-type endopeptidase activity
GO:0008233 peptidase activity
GO:0008234 cysteine-type peptidase activity
GO:0016787 hydrolase activity

Biological Process:
GO:0006508 proteolysis
GO:0007165 signal transduction

Cellular Component:
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0005925 focal adhesion
GO:0009986 cell surface
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  BC018123 - Homo sapiens calpain 5, mRNA (cDNA clone MGC:9155 IMAGE:3904914), complete cds.
HM005714 - Homo sapiens clone HTL-T-91mP testis tissue sperm-binding protein Li 91mP mRNA, complete cds.
AK313132 - Homo sapiens cDNA, FLJ93620.
AK128124 - Homo sapiens cDNA FLJ46245 fis, clone TESTI4020596, highly similar to Homo sapiens calpain 5 (CAPN5).
AK310978 - Homo sapiens cDNA, FLJ18020.
AK094150 - Homo sapiens cDNA FLJ36831 fis, clone ASTRO2010615, highly similar to Calpain-5 (EC 3.4.22.-).
U94346 - Homo sapiens calpain-like protease (htra-3) mRNA, complete cds.
AB209087 - Homo sapiens mRNA for Hypothetical protein FLJ46245 variant protein.
Y10552 - H.sapiens mRNA for calpain-like protease.
DQ891602 - Synthetic construct clone IMAGE:100004232; FLH178548.01X; RZPDo839E05128D calpain 5 (CAPN5) gene, encodes complete protein.
EU176587 - Synthetic construct Homo sapiens clone IMAGE:100011418; FLH178547.01L; RZPDo839D02254D calpain 5 (CAPN5) gene, encodes complete protein.
AB384839 - Synthetic construct DNA, clone: pF1KB3700, Homo sapiens CAPN5 gene for calpain-5, complete cds, without stop codon, in Flexi system.
KJ890793 - Synthetic construct Homo sapiens clone ccsbBroadEn_00187 CAPN5 gene, encodes complete protein.
JD127088 - Sequence 108112 from Patent EP1572962.
JD416811 - Sequence 397835 from Patent EP1572962.
AK092880 - Homo sapiens cDNA FLJ35561 fis, clone SPLEN2005227, highly similar to Human calpain-like protease (htra-3) mRNA.
JD260191 - Sequence 241215 from Patent EP1572962.
JD156625 - Sequence 137649 from Patent EP1572962.
JD266764 - Sequence 247788 from Patent EP1572962.
JD219679 - Sequence 200703 from Patent EP1572962.
JD367341 - Sequence 348365 from Patent EP1572962.
JD528744 - Sequence 509768 from Patent EP1572962.
JD327088 - Sequence 308112 from Patent EP1572962.
JD157360 - Sequence 138384 from Patent EP1572962.
JD392148 - Sequence 373172 from Patent EP1572962.
JD066875 - Sequence 47899 from Patent EP1572962.

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

Protein O15484 (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: CAN5_HUMAN, NCL3, NM_004055, O00263, O15484, uc328olt.1, uc328olt.2
UCSC ID: ENST00000648180.1_5
RefSeq Accession: NM_004055.5
Protein: O15484 (aka CAN5_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.