Human Gene CAPN15 (ENST00000219611.7_4) from GENCODE V47lift37
  Description: calpain 15 (from RefSeq NM_005632.3)
Gencode Transcript: ENST00000219611.7_4
Gencode Gene: ENSG00000103326.12_13
Transcript (Including UTRs)
   Position: hg19 chr16:577,712-604,636 Size: 26,925 Total Exon Count: 14 Strand: +
Coding Region
   Position: hg19 chr16:596,839-603,516 Size: 6,678 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsGene 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 (chr16:577,712-604,636)mRNA (may differ from genome)Protein (1086 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
MalacardsMGIOMIMPubMedReactomeUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CAN15_HUMAN
DESCRIPTION: RecName: Full=Calpain-15; EC=3.4.22.-; AltName: Full=Small optic lobes homolog;
TISSUE SPECIFICITY: Widely expressed with higher expression in brain.
SIMILARITY: Belongs to the peptidase C2 family.
SIMILARITY: Contains 1 calpain catalytic domain.
SIMILARITY: Contains 5 RanBP2-type zinc fingers.

-  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: CAPN15
Diseases sorted by gene-association score: spastic hemiplegia (16), polyradiculopathy (5), spastic cerebral palsy (5)

+  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: 22.59 RPKM in Brain - Cerebellum
Total median expression: 433.12 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 -304.20507-0.600 Picture PostScript Text
3' UTR -488.001120-0.436 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
IPR000169 - Pept_cys_AS
IPR001300 - Peptidase_C2_calpain_cat
IPR001876 - Znf_RanBP2

Pfam Domains:
PF00641 - Zn-finger in Ran binding protein and others
PF00648 - Calpain family cysteine protease

SCOP Domains:
54001 - Cysteine proteinases
57501 - Cystine-knot cytokines
90209 - Ran binding protein zinc finger-like

ModBase Predicted Comparative 3D Structure on O75808
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 Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsembl WormBase 
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0004198 calcium-dependent cysteine-type endopeptidase activity
GO:0008233 peptidase activity
GO:0008234 cysteine-type peptidase activity
GO:0016787 hydrolase activity
GO:0046872 metal ion binding

Biological Process:
GO:0006355 regulation of transcription, DNA-templated
GO:0006508 proteolysis

Cellular Component:
GO:0005622 intracellular
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  BC112918 - Homo sapiens small optic lobes homolog (Drosophila), mRNA (cDNA clone IMAGE:7469837), complete cds.
LF385172 - JP 2014500723-A/192675: Polycomb-Associated Non-Coding RNAs.
U85647 - Homo sapiens small optic lobes homolog (SOLH) mRNA, complete cds.
JD336814 - Sequence 317838 from Patent EP1572962.
JD525709 - Sequence 506733 from Patent EP1572962.
BC032648 - Homo sapiens small optic lobes homolog (Drosophila), mRNA (cDNA clone IMAGE:5518093).
JD129395 - Sequence 110419 from Patent EP1572962.
JD179011 - Sequence 160035 from Patent EP1572962.
JD073106 - Sequence 54130 from Patent EP1572962.
JD372151 - Sequence 353175 from Patent EP1572962.
JD216311 - Sequence 197335 from Patent EP1572962.
JD155997 - Sequence 137021 from Patent EP1572962.
JD247219 - Sequence 228243 from Patent EP1572962.
JD107195 - Sequence 88219 from Patent EP1572962.
BC111932 - Synthetic construct Homo sapiens clone IMAGE:40080752, MGC:133465 SOLH protein (SOLH) mRNA, encodes complete protein.
BC118501 - Synthetic construct Homo sapiens clone IMAGE:40080761, MGC:155334 SOLH protein (SOLH) mRNA, encodes complete protein.
AB384353 - Synthetic construct DNA, clone: pF1KSDB0004, Homo sapiens SOLH gene for calpain-15, complete cds, without stop codon, in Flexi system.
LF340821 - JP 2014500723-A/148324: Polycomb-Associated Non-Coding RNAs.
LF340820 - JP 2014500723-A/148323: Polycomb-Associated Non-Coding RNAs.
BC021854 - Homo sapiens, Similar to small optic lobes homolog (Drosophila), clone IMAGE:4996424, mRNA, partial cds.
BC044259 - Homo sapiens small optic lobes homolog (Drosophila), mRNA (cDNA clone IMAGE:6150279), partial cds.
BC001869 - Homo sapiens, Similar to small optic lobes (Drosophila) homolog, clone IMAGE:3534992, mRNA, partial cds.
JD216035 - Sequence 197059 from Patent EP1572962.
LF340819 - JP 2014500723-A/148322: Polycomb-Associated Non-Coding RNAs.
JD399038 - Sequence 380062 from Patent EP1572962.
JD151371 - Sequence 132395 from Patent EP1572962.
JD529298 - Sequence 510322 from Patent EP1572962.
BC040169 - Homo sapiens, clone IMAGE:6065999, mRNA.
JD162073 - Sequence 143097 from Patent EP1572962.
JD099754 - Sequence 80778 from Patent EP1572962.
JD255270 - Sequence 236294 from Patent EP1572962.
JD423266 - Sequence 404290 from Patent EP1572962.
JD329447 - Sequence 310471 from Patent EP1572962.
JD443257 - Sequence 424281 from Patent EP1572962.
JD180600 - Sequence 161624 from Patent EP1572962.
JD226629 - Sequence 207653 from Patent EP1572962.
BC011939 - Homo sapiens cDNA clone IMAGE:4304703, partial cds.
MA620749 - JP 2018138019-A/192675: Polycomb-Associated Non-Coding RNAs.
MA576398 - JP 2018138019-A/148324: Polycomb-Associated Non-Coding RNAs.
MA576397 - JP 2018138019-A/148323: Polycomb-Associated Non-Coding RNAs.
MA576396 - JP 2018138019-A/148322: Polycomb-Associated Non-Coding RNAs.

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

Protein O75808 (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: B1B1M4, CAN15_HUMAN, ENST00000219611.1, ENST00000219611.2, ENST00000219611.3, ENST00000219611.4, ENST00000219611.5, ENST00000219611.6, NM_005632, O75808, Q2KHS2, Q8WTY9, Q9BUW0, SOLH, uc317cya.1, uc317cya.2
UCSC ID: ENST00000219611.7_4
RefSeq Accession: NM_005632.3
Protein: O75808 (aka CAN15_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.