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clgn calmegin [ Danio rerio (zebrafish) ]

Gene ID: 556495, updated on 27-Mar-2024

Summary

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Official Symbol
clgnprovided by ZNC
Official Full Name
calmeginprovided by ZNC
Primary source
ZFIN:ZDB-GENE-060929-708
See related
Ensembl:ENSDARG00000009315 AllianceGenome:ZFIN:ZDB-GENE-060929-708
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
canx; fj49d10; wu:fj24b04; wu:fj49d10; zgc:153946
Summary
Predicted to enable calcium ion binding activity. Predicted to be involved in protein folding and ubiquitin-dependent ERAD pathway. Predicted to be located in endoplasmic reticulum and membrane. Predicted to be integral component of membrane. Predicted to be active in endoplasmic reticulum membrane. Is expressed in blood; central nervous system; and ventral mesoderm. Orthologous to human CLGN (calmegin). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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Location:
chromosome: 1
Exon count:
15
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (40572760..40608559, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (39854684..39890485, complement)

Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene mastermind-like transcriptional coactivator 3 Neighboring gene uncharacterized LOC108190121 Neighboring gene short coiled-coil protein a Neighboring gene N-alpha-acetyltransferase 15, NatA auxiliary subunit b Neighboring gene ras-related protein Rab-33B-like Neighboring gene mucin-5AC-like

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. The proteomic study on cellular responses of the testes of zebrafish (Danio rerio) exposed to microcystin-RR. Zhao S, et al. Proteomics, 2012 Jan. PMID 22140076
  2. Whole genome duplications have provided teleosts with many roads to peptide loaded MHC class I molecules. Grimholt U. BMC Evol Biol, 2018 Feb 23. PMID 29471808, Free PMC Article
  3. RNA-seq liver transcriptome analysis reveals an activated MHC-I pathway and an inhibited MHC-II pathway at the early stage of vaccine immunization in zebrafish. Yang D, et al. BMC Genomics, 2012 Jul 17. PMID 22805612, Free PMC Article
  4. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
  5. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC153946

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables unfolded protein binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in ERAD pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in protein folding IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within protein folding IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
calmegin
Names
calnexin

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001077541.1 → NP_001071009.1  calmegin precursor

    See identical proteins and their annotated locations for NP_001071009.1

    Status: PROVISIONAL

    Source sequence(s)
    BC124496
    UniProtKB/TrEMBL
    A0A8M1NAD5, Q08BY9
    Related
    ENSDARP00000092445.4, ENSDART00000101671.5
    Conserved Domains (1) summary
    pfam00262
    Location:72 → 441
    Calreticulin; Calreticulin family

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_007112.7 Reference GRCz11 Primary Assembly

    Range
    40572760..40608559 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005160003.4 → XP_005160060.1  calmegin isoform X1

    UniProtKB/TrEMBL
    A0A8M2B772
    Conserved Domains (1) summary
    pfam00262
    Location:72 → 441
    Calreticulin; Calreticulin family
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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