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    si:ch211-202f3.4 si:ch211-202f3.4 [ Danio rerio (zebrafish) ]

    Gene ID: 560088, updated on 27-Mar-2024

    Summary

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    Official Symbol
    si:ch211-202f3.4provided by ZNC
    Official Full Name
    si:ch211-202f3.4provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-131120-116
    See related
    Ensembl:ENSDARG00000091723 AllianceGenome:ZFIN:ZDB-GENE-131120-116
    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
    Summary
    Predicted to enable calcium-dependent cysteine-type endopeptidase activity. Predicted to be involved in proteolysis. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in eosinophilic esophagitis. Orthologous to several human genes including CAPN14 (calpain 14). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    See si:ch211-202f3.4 in Genome Data Viewer
    Location:
    chromosome: 17
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (45602373..45620966)
    105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (45619366..45637714)

    Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene complement component C1q receptor Neighboring gene si:ch211-202f3.3 Neighboring gene valosin containing protein lysine (K) methyltransferase Neighboring gene zgc:162184

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    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. Understanding the complexity of epimorphic regeneration in zebrafish caudal fin tissue: A transcriptomic and proteomic approach. Banu S, et al. Genomics, 2022 Mar. PMID 35134499
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    4. 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

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    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 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

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    Preferred Names
    calpain-1 catalytic subunit-like; calpain-2 catalytic subunit-like

    NCBI Reference Sequences (RefSeq)

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    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
      45602373..45620966
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009293271.3 → XP_009291546.1  calpain-1 catalytic subunit-like isoform X1

      UniProtKB/TrEMBL
      A0A8M3AJ87, E7F0H3, X1WD73
      Related
      ENSDARP00000128170.1, ENSDART00000153822.3
      Conserved Domains (2) summary
      pfam00648
      Location:44 → 339
      Peptidase_C2; Calpain family cysteine protease
      pfam01067
      Location:354 → 513
      Calpain_III; Calpain large subunit, domain III

    2. XM_021467476.1 → XP_021323151.1  calpain-2 catalytic subunit-like isoform X2

      UniProtKB/TrEMBL
      A0A8M9PLL2
      Conserved Domains (2) summary
      pfam00648
      Location:1 → 220
      Peptidase_C2; Calpain family cysteine protease
      pfam01067
      Location:242 → 394
      Calpain_III; Calpain large subunit, domain III
    Nucleotide Protein
    Heading Accession and Version

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