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    Snx12 sorting nexin 12 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 363478, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Snx12provided by RGD
    Official Full Name
    sorting nexin 12provided by RGD
    Primary source
    RGD:1565585
    See related
    Ensembl:ENSRNOG00000004036 AllianceGenome:RGD:1565585
    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
    RGD1565585
    Summary
    Predicted to enable enzyme binding activity and phosphatidylinositol-3-phosphate binding activity. Predicted to be involved in several processes, including endosomal transport; negative regulation of protein metabolic process; and regulation of vesicle-mediated transport. Predicted to be located in early endosome. Predicted to be part of retromer complex. Predicted to be active in early endosome membrane. Orthologous to human SNX12 (sorting nexin 12). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Kidney (RPKM 121.3), Brain (RPKM 94.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Snx12 in Genome Data Viewer
    Location:
    Xq22
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (70267013..70396948, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (66226995..66356945, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (70989822..71127330, complement)

    Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene testis expressed 11 Neighboring gene glutamyl-tRNA amidotransferase subunit C, pseudogene 1 Neighboring gene solute carrier family 7 member 3 Neighboring gene small nucleolar RNA SNORA72 Neighboring gene ribosomal protein S2, pseudogene 24 Neighboring gene uncharacterized LOC102548326 Neighboring gene forkhead box O4

    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. Sorting nexin 12 interacts with BACE1 and regulates BACE1-mediated APP processing. Zhao Y, et al. Mol Neurodegener, 2012 Jun 18. PMID 22709416, Free PMC Article
    2. SNX12 role in endosome membrane transport. Pons V, et al. PLoS One, 2012. PMID 22719997, Free PMC Article
    3. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. Prunotto M, et al. J Proteomics, 2013 Apr 26. PMID 23376485
    4. 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 RGD

    Function Evidence Code Pubs
    enables enzyme binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol-3-phosphate binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in endocytic recycling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in late endosome to Golgi transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of early endosome to late endosome transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of protein processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of protein transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of endocytosis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in early endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in early endosome membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of retromer complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    sorting nexin-12

    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_001108817.2 → NP_001102287.2  sorting nexin-12

      See identical proteins and their annotated locations for NP_001102287.2

      Status: VALIDATED

      Source sequence(s)
      BP500254
      UniProtKB/TrEMBL
      A0A096MJN6
      Conserved Domains (1) summary
      cd07294
      Location:27 → 158
      PX_SNX12; The phosphoinositide binding Phox Homology domain of Sorting Nexin 12

    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_086039.1 Reference GRCr8

      Range
      70267013..70396948 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039099898.2 → XP_038955826.1  sorting nexin-12 isoform X1

      UniProtKB/TrEMBL
      A0A096MJN6
      Conserved Domains (1) summary
      cd07294
      Location:27 → 158
      PX_SNX12; The phosphoinositide binding Phox Homology domain of Sorting Nexin 12

    2. XM_039099899.2 → XP_038955827.1  sorting nexin-12 isoform X6

      UniProtKB/TrEMBL
      A0A096MJN6
      Related
      ENSRNOP00000061412.2
      Conserved Domains (1) summary
      cd07294
      Location:27 → 158
      PX_SNX12; The phosphoinositide binding Phox Homology domain of Sorting Nexin 12

    3. XM_017602108.3 → XP_017457597.1  sorting nexin-12 isoform X2

      UniProtKB/TrEMBL
      A0A096MJN6

    4. XM_063280145.1 → XP_063136215.1  sorting nexin-12 isoform X4

      UniProtKB/TrEMBL
      A0A096MJN6

    5. XM_063280144.1 → XP_063136214.1  sorting nexin-12 isoform X3

      UniProtKB/TrEMBL
      A0A096MJN6, D4A719

    6. XM_006257079.4 → XP_006257141.2  sorting nexin-12 isoform X5

      UniProtKB/TrEMBL
      A0A096MJN6
      Conserved Domains (1) summary
      cd07294
      Location:27 → 158
      PX_SNX12; The phosphoinositide binding Phox Homology domain of Sorting Nexin 12
    Nucleotide Protein Strain
    Heading Accession and Version

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