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    Hm13 histocompatibility minor 13 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 311545, updated on 14-Nov-2024

    Summary

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    Official Symbol
    Hm13provided by RGD
    Official Full Name
    histocompatibility minor 13provided by RGD
    Primary source
    RGD:1308946
    See related
    EnsemblRapid:ENSRNOG00000007738 AllianceGenome:RGD:1308946
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    H13
    Summary
    Predicted to enable aspartic endopeptidase activity, intramembrane cleaving; protein homodimerization activity; and ubiquitin protein ligase binding activity. Predicted to be involved in membrane protein proteolysis involved in retrograde protein transport, ER to cytosol and signal peptide processing. Predicted to act upstream of or within in utero embryonic development. Predicted to be located in cell surface; endoplasmic reticulum membrane; and rough endoplasmic reticulum. Predicted to be part of Derlin-1 retrotranslocation complex. Predicted to be active in cytoplasmic side of endoplasmic reticulum membrane and lumenal side of endoplasmic reticulum membrane. Orthologous to human HM13 (histocompatibility minor 13). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 295.2), Spleen (RPKM 229.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Hm13 in Genome Data Viewer
    Location:
    3q41
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (161606059..161641382)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (141145792..141183557)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (148150695..148189623)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102553281 Neighboring gene defensin beta 25 Neighboring gene RRAD and GEM like GTPase 1 Neighboring gene MCTS family member 2 Neighboring gene uncharacterized LOC134486187 Neighboring gene uncharacterized LOC134486188 Neighboring gene inhibitor of DNA binding 1 Neighboring gene cytochrome c oxidase subunit 4i2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables aspartic endopeptidase activity, intramembrane cleaving IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables aspartic endopeptidase activity, intramembrane cleaving ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables peptidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin protein ligase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within in utero embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT involved_in membrane protein ectodomain proteolysis ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT involved_in membrane protein intracellular domain proteolysis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in membrane protein proteolysis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in membrane protein proteolysis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in membrane protein proteolysis involved in retrograde protein transport, ER to cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in signal peptide processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of Derlin-1 retrotranslocation complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasmic side of endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasmic side of endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in lumenal side of endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in lumenal side of endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in rough endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    minor histocompatibility antigen H13
    Names
    histocompatibility 13
    NP_001386465.1
    NP_001386466.1
    XP_063139893.1

    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_001399536.1 → NP_001386465.1  minor histocompatibility antigen H13 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A0A8I6A6G8, A6KHQ0
      Related
      ENSRNOP00000086681.1, ENSRNOT00000099070.2
      Conserved Domains (1) summary
      pfam04258
      Location:62 → 350
      Peptidase_A22B; Signal peptide peptidase

    2. NM_001399537.1 → NP_001386466.1  minor histocompatibility antigen H13 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A6KHP9
      Related
      ENSRNOP00000010251.6, ENSRNOT00000010251.7
      Conserved Domains (1) summary
      pfam04258
      Location:62 → 350
      Peptidase_A22B; Signal peptide peptidase

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086021.1 Reference GRCr8

      Range
      161606059..161641382
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063283823.1 → XP_063139893.1  minor histocompatibility antigen H13 isoform X1

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001107789.1: Suppressed sequence

      Description
      NM_001107789.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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