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    Ap5s1 adaptor related protein complex 5 subunit sigma 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 499893, updated on 30-Mar-2024

    Summary

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    Official Symbol
    Ap5s1provided by RGD
    Official Full Name
    adaptor related protein complex 5 subunit sigma 1provided by RGD
    Primary source
    RGD:1561852
    See related
    Ensembl:ENSRNOG00000021249 AllianceGenome:RGD:1561852
    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
    RGD1561852
    Summary
    Predicted to be involved in double-strand break repair via homologous recombination and endosomal transport. Predicted to be located in nucleoplasm. Predicted to be part of AP-type membrane coat adaptor complex. Predicted to be active in cytosol; late endosome; and lysosome. Orthologous to human AP5S1 (adaptor related protein complex 5 subunit sigma 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Heart (RPKM 55.4), Kidney (RPKM 51.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ap5s1 in Genome Data Viewer
    Location:
    3q36
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (138882634..138885940)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (118429618..118432929)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (123754035..123757349)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486156 Neighboring gene cell division cycle 25B Neighboring gene mitochondrial antiviral signaling protein Neighboring gene uncharacterized LOC134486155 Neighboring gene pantothenate kinase 2

    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
    • 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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    Related articles in PubMed

    1. A genome-scale DNA repair RNAi screen identifies SPG48 as a novel gene associated with hereditary spastic paraplegia. Słabicki M, et al. PLoS Biol, 2010 Jun 29. PMID 20613862, Free PMC Article
    2. The fifth adaptor protein complex. Hirst J, et al. PLoS Biol, 2011 Oct. PMID 22022230, Free PMC Article
    3. 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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    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endosomal transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endosomal transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of AP-type membrane coat adaptor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of AP-type membrane coat adaptor complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in late endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in late endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in lysosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in lysosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    AP-5 complex subunit sigma-1
    Names
    adaptor-related protein complex 5, sigma 1 subunit

    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_001398912.1 → NP_001385841.1  AP-5 complex subunit sigma-1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A0A0G2K3F6
      Related
      ENSRNOP00000072616.1, ENSRNOT00000084671.2
      Conserved Domains (1) summary
      pfam15001
      Location:1 → 193
      AP-5_subunit_s1; AP-5 complex subunit sigma-1

    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
      138882634..138885940
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039105699.2 → XP_038961627.1  AP-5 complex subunit sigma-1 isoform X1

      Conserved Domains (1) summary
      pfam15001
      Location:1 → 70
      AP-5_subunit_s1; AP-5 complex subunit sigma-1

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001134618.1: Suppressed sequence

      Description
      NM_001134618.1: This RefSeq was removed because currently there is insufficient support for the transcript.
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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