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    hm13 histocompatibility (minor) 13 [ Danio rerio (zebrafish) ]

    Gene ID: 259190, updated on 25-Apr-2024

    Summary

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    Official Symbol
    hm13provided by ZNC
    Official Full Name
    histocompatibility (minor) 13provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-020802-3
    See related
    Ensembl:ENSDARG00000037846 AllianceGenome:ZFIN:ZDB-GENE-020802-3
    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
    H13; SPP; cb228; zgc:56660; zgc:86862; wu:fc11a06
    Summary
    Predicted to enable aspartic endopeptidase activity, intramembrane cleaving. Acts upstream of or within regulation of neuron apoptotic process. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be integral component of cytoplasmic side of endoplasmic reticulum membrane and integral component of lumenal side of endoplasmic reticulum membrane. Is expressed in several structures, including alar plate midbrain region; axial mesoderm; digestive system; immature eye; and nervous system. Orthologous to human HM13 (histocompatibility minor 13). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See hm13 in Genome Data Viewer
    Location:
    chromosome: 23
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (480433..493392, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 23 NC_007134.6 (467640..480599, complement)

    Chromosome 23 - NC_007134.7Genomic Context describing neighboring genes Neighboring gene tetraspanin 2b Neighboring gene si:ch73-181d5.4 Neighboring gene collagen, type IX, alpha 3 Neighboring gene SAM domain and HD domain 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. Differential localization and identification of a critical aspartate suggest non-redundant proteolytic functions of the presenilin homologues SPPL2b and SPPL3. Krawitz P, et al. J Biol Chem, 2005 Nov 25. PMID 15998642
    2. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. 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
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables aspartic endopeptidase activity, intramembrane cleaving IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables aspartic endopeptidase activity, intramembrane cleaving IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables endopeptidase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in membrane protein proteolysis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of neuron apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in signal peptide processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasmic side of endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in lumenal side of 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
    minor histocompatibility antigen H13
    Names
    histocompatibility 13
    intramembrane aspartyl protease
    signal peptide peptidase
    NP_997737.2
    XP_005161947.1

    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_212572.2 → NP_997737.2  minor histocompatibility antigen H13

      See identical proteins and their annotated locations for NP_997737.2

      Status: PROVISIONAL

      Source sequence(s)
      BC071503
      UniProtKB/TrEMBL
      F6NH42, Q5BP98, Q6IQA7
      Related
      ENSDARP00000109113.2, ENSDART00000128433.3
      Conserved Domains (1) summary
      pfam04258
      Location:65 → 353
      Peptidase_A22B; Signal peptide peptidase

    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_007134.7 Reference GRCz11 Primary Assembly

      Range
      480433..493392 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005161890.4 → XP_005161947.1  minor histocompatibility antigen H13 isoform X1

      UniProtKB/TrEMBL
      A0A8M2B8N4
      Conserved Domains (1) summary
      pfam04258
      Location:65 → 353
      Peptidase_A22B; Signal peptide peptidase
    Nucleotide Protein Strain
    Heading Accession and Version

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