U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

si:ch211-202f3.3 si:ch211-202f3.3 [ Danio rerio (zebrafish) ]

Gene ID: 553353, updated on 27-Mar-2024

Summary

Go to the top of the page Help
Official Symbol
si:ch211-202f3.3provided by ZNC
Official Full Name
si:ch211-202f3.3provided by ZNC
Primary source
ZFIN:ZDB-GENE-080917-19
See related
Ensembl:ENSDARG00000052917 AllianceGenome:ZFIN:ZDB-GENE-080917-19
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
capn1; im:7154842
Summary
Predicted to enable calcium-dependent cysteine-type endopeptidase activity. Predicted to be involved in proteolysis. Predicted to be active in cytoplasm. Is expressed in epidermis. [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
chromosome: 17
Exon count:
25
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (45567665..45599191)
105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (45594096..45615985)

Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene thrombomodulin-like Neighboring gene complement component C1q receptor Neighboring gene si:ch211-202f3.4 Neighboring gene valosin containing protein lysine (K) methyltransferase

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. PTC-bearing mRNA elicits a genetic compensation response via Upf3a and COMPASS components. Ma Z, et al. Nature, 2019 Apr. PMID 30944473
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

Pathways from PubChem

Go to the top of the page

General gene information

Go to the top of the page Help

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables calcium-dependent cysteine-type endopeptidase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables calcium-dependent cysteine-type endopeptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables cysteine-type peptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables peptidase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in proteolysis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within proteolysis IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

Go to the top of the page Help
Preferred Names
calpain-1 catalytic subunit

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007128.7 Reference GRCz11 Primary Assembly

    Range
    45567665..45599191
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017351848.2 → XP_017207337.2  calpain-1 catalytic subunit

    UniProtKB/TrEMBL
    A0A8M6Z1T3
    Related
    ENSDARP00000069340.2, ENSDART00000074854.3
    Conserved Domains (3) summary
    pfam00648
    Location:198 → 487
    Peptidase_C2; Calpain family cysteine protease
    pfam01067
    Location:509 → 647
    Calpain_III; Calpain large subunit, domain III
    cd16195
    Location:683 → 846
    EFh_PEF_CAPN13_14; Penta-EF hand, calcium binding motifs, found in calpain-13 (CAPN13), calpain-14 (CAPN14), and similar proteins
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.