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mhc1zca major histocompatibility complex class I ZCA [ Danio rerio (zebrafish) ]

Gene ID: 556341, updated on 12-Sep-2024

Summary

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Official Symbol
mhc1zcaprovided by ZNC
Official Full Name
major histocompatibility complex class I ZCAprovided by ZNC
Primary source
ZFIN:ZDB-GENE-070424-4
See related
Ensembl:ENSDARG00000069471 AllianceGenome:ZFIN:ZDB-GENE-070424-4
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
dZ63M10.1; zgc:111893; zgc:136614; si:ch211-287j19.5
Summary
Predicted to be involved in immune response. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in external side of plasma membrane and extracellular space. Is expressed in gill. Human ortholog(s) of this gene implicated in several diseases, including acute porphyria (multiple); arthritis (multiple); bone marrow cancer (multiple); hemochromatosis (multiple); and liver disease (multiple). Orthologous to several human genes including AZGP1 (alpha-2-glycoprotein 1, zinc-binding); HFE (homeostatic iron regulator); and HLA-E (major histocompatibility complex, class I, E). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See mhc1zca in Genome Data Viewer
Location:
chromosome: 1
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (47140788..47151803, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (46449556..46460570, complement)

Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene major histocompatibility complex class I ZEA Neighboring gene major histocompatibility complex class I ZDA Neighboring gene major histocompatibility complex class I ZBA Neighboring gene carbonyl reductase 1

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 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. Characterization of novel zebrafish MHC class I U lineage genes and their haplotype. Honjo Y, et al. Dev Comp Immunol, 2021 Mar. PMID 33279476
  2. Characterization of the Z lineage Major histocompatability complex class I genes in zebrafish. Dirscherl H, et al. Immunogenetics, 2014 Mar. PMID 24287892, Free PMC Article
  3. Multiple divergent haplotypes express completely distinct sets of class I MHC genes in zebrafish. McConnell SC, et al. Immunogenetics, 2014 Mar. PMID 24291825, Free PMC Article
  4. A nonclassical MHC class I U lineage locus in zebrafish with a null haplotypic variant. Dirscherl H, et al. Immunogenetics, 2015 Sep. PMID 26254596, Free PMC Article
  5. The MHC class I genes of zebrafish. Dirscherl H, et al. Dev Comp Immunol, 2014 Sep. PMID 24631581, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Clone Names

  • MGC111893

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
involved_in immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in extracellular space 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
major histocompatibility complex class I ZCA
Names
MHC class I antigen ZCA
dZ63M10.1 (novel MHC class I antigen)

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_001083545.1 → NP_001077014.1  major histocompatibility complex class I ZCA precursor

    See identical proteins and their annotated locations for NP_001077014.1

    Status: PROVISIONAL

    Source sequence(s)
    BC115196
    UniProtKB/TrEMBL
    A4FUM4, U6BRB7
    Related
    ENSDARP00000063528.6, ENSDART00000063529.8
    Conserved Domains (2) summary
    cd07698
    Location:209 → 303
    IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
    cl08246
    Location:22 → 205
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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
    47140788..47151803 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021474930.2 → XP_021330605.1  major histocompatibility complex class I ZCA isoform X1

    UniProtKB/TrEMBL
    F1QEW6, U6BNA4
    Related
    ENSDARP00000039383.7, ENSDART00000039459.8
    Conserved Domains (1) summary
    cl08246
    Location:22 → 205
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2

RNA

  1. XR_002458102.2 RNA Sequence

Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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