Gene: CAPN3

LinkedOmicsKB © 2022-2023 Zhang Lab

Basic information

Full name
calpain 3
Ensembl
ENSG00000092529.25
Summary
Calpain, a heterodimer consisting of a large and a small subunit, is a major intracellular protease, although its function has not been well established. This gene encodes a muscle-specific member of the calpain large subunit family that specifically binds to titin. Mutations in this gene are associated with limb-girdle muscular dystrophies type 2A. Alternate promoters and alternative splicing result in multiple transcript variants encoding different isoforms and some variants are ubiquitously expressed. [provided by RefSeq, Jul 2008]

Protein product

  • ENST00000397163.8 Primary ENSP00000380349.3 (3 phosphosites)
  • ENST00000673743.1
  • ENST00000357568.8
  • ENST00000318023.11
  • ENST00000349748.8
  • ENST00000397200.8
  • ENST00000674052.1
  • ENST00000673978.1
  • ENST00000673750.1
  • ENST00000561817.5
  • ENST00000674139.1
  • ENST00000673886.1
  • ENST00000674093.1
  • ENST00000674146.1
  • ENST00000674149.1
  • ENST00000674018.1
  • ENST00000673851.1
  • ENST00000673928.1
  • ENST00000673771.1
  • ENST00000673890.1
  • ENST00000673936.1
  • ENST00000337571.9
  • ENST00000356316.7
  • ENST00000397204.9
  • ENST00000674119.1
  • ENST00000569136.6
  • ENST00000673692.1
Phosphosites on the primary protein product

Tumor and normal comparison

Signed p-values
Data type Meta P BRCA CCRCC COAD GBM HNSCC LSCC LUAD OV PDAC UCEC

* P-values are from Wilcoxon rank sum test and can be clicked to show the box plots. Positive values mean higher abundance in tumor. BRCA and GBM do not have normal samples.

mRNA expression at gene level
Protein expression

* Mild outlier: filled circle; Extreme outlier: empty circle.

Phenotype and mutation association

Manhattan plot summarizing associations of phenotypes and mutations across all cohorts and omics data types

* Data points of significant associations above and below the dotted lines can be hovered to show the phenotype.

Associations of the protein abundance of CAPN3 with phenotypes and mutations

Signed p-values
Phenotype Meta P BRCA CCRCC COAD GBM HNSCC LSCC LUAD OV PDAC UCEC

* P-values could be from test for Spearman correlation, Wilcoxon rank sum test, Jonckheere-Terpstra trend test or Cox regression depending on the data type. P-values for individual cohorts can be clicked to show the data plots. The matrix icons in each row can be clicked to show a heatmap summary of associations across all cohorts and omics. The rows in the table can be expanded to show results from other omics.

Cis-association

Associations between omics data of CAPN3

* The numbers are Spearman correlation coefficients and can be clicked to show the scatter plots. The color and size of the circles correlate with the coefficients.

Trans-association

Associations of the protein abundance of CAPN3 and the protein abundance of other genes

Signed p-values
Gene Meta P BRCA CCRCC COAD GBM HNSCC LSCC LUAD OV PDAC UCEC

* P-values are from test for Spearman correlation. P-values for individual cohorts can be clicked to show the data plots. The matrix icons in each row can be clicked to show a heatmap summary of associations across all cohorts and omics. The rows in the table can be expanded to show results from other omics.

Gene set enrichment analysis

Submit genes and the common logarithm of the p-values of their association with to WebGestalt.