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mhc1lca major histocompatibility complex class I LCA [ Danio rerio (zebrafish) ]

Gene ID: 100000140, updated on 9-Dec-2024

Summary

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Official Symbol
mhc1lcaprovided by ZNC
Official Full Name
major histocompatibility complex class I LCAprovided by ZNC
Primary source
ZFIN:ZDB-GENE-140820-4
See related
Ensembl:ENSDARG00000055813 AllianceGenome:ZFIN:ZDB-GENE-140820-4
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
sb:eu2458; si:dkey-225f5.5
Summary
Predicted to be located in membrane. Human ortholog(s) of this gene implicated in pulmonary tuberculosis. Orthologous to several human genes including CD1A (CD1a molecule); CD1B (CD1b molecule); and CD1C (CD1c molecule). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs
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Genomic context

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See mhc1lca in Genome Data Viewer
Location:
chromosome: 3
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (23471184..23474405, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (23340624..23343870, complement)

Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene casc3 exon junction complex subunit Neighboring gene MSL complex subunit 1a Neighboring gene si:dkey-225f5.4 Neighboring gene nuclear receptor subfamily 1, group d, member 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
  • 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. 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
  2. The MHC class I genes of zebrafish. Dirscherl H, et al. Dev Comp Immunol, 2014 Sep. PMID 24631581, Free PMC Article
  3. Immune gene variation associated with chromosome-scale differences among individual zebrafish genomes. McConnell SC, et al. Sci Rep, 2023 May 13. PMID 37179373, Free PMC Article
  4. The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Braasch I, et al. Nat Genet, 2016 Apr. PMID 26950095, Free PMC Article
  5. Contrasted innate responses to two viruses in zebrafish: insights into the ancestral repertoire of vertebrate IFN-stimulated genes. Briolat V, et al. J Immunol, 2014 May 1. PMID 24683187

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Homology

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-related gene protein; uncharacterized protein LOC100000140

NCBI Reference Sequences (RefSeq)

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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_007114.7 Reference GRCz11 Primary Assembly

    Range
    23471184..23474405 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_001340377.8 → XP_001340413.4  major histocompatibility complex class I-related gene protein

    UniProtKB/TrEMBL
    A0A0R4IZK4, A0A8M1Q7J4, A0A8M9PDN6
    Related
    ENSDARP00000141825.1, ENSDART00000161672.2
    Conserved Domains (2) summary
    cd07698
    Location:198 → 295
    IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
    cl08246
    Location:20 → 192
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
Nucleotide Protein Strain
Heading Accession and Version

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Research Materials