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    Snx6 sorting nexin 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362738, updated on 17-Aug-2024

    Summary

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    Official Symbol
    Snx6provided by RGD
    Official Full Name
    sorting nexin 6provided by RGD
    Primary source
    RGD:1304647
    See related
    EnsemblRapid:ENSRNOG00000005249 AllianceGenome:RGD:1304647
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable dynactin binding activity; protein homodimerization activity; and type I transforming growth factor beta receptor binding activity. Involved in cellular response to epidermal growth factor stimulus. Located in endosome. Orthologous to human SNX6 (sorting nexin 6). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Kidney (RPKM 459.2), Lung (RPKM 224.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Snx6 in Genome Data Viewer
    Location:
    6q23
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (77966141..78009343, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (72230950..72274157, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (75626927..75670172, complement)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102548522 Neighboring gene U1 spliceosomal RNA Neighboring gene U1 spliceosomal RNA Neighboring gene uncharacterized LOC102548461 Neighboring gene uncharacterized LOC120093210 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene

    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. miR-98-5p Acts as a Target for Alzheimer's Disease by Regulating Aβ Production Through Modulating SNX6 Expression. Li Q, et al. J Mol Neurosci, 2016 Dec. PMID 27541017
    2. Sorting nexin 6 interacts with breast cancer metastasis suppressor-1 and promotes transcriptional repression. Rivera J, et al. J Cell Biochem, 2010 Dec 15. PMID 20830743
    3. The retromer component SNX6 interacts with dynactin p150(Glued) and mediates endosome-to-TGN transport. Hong Z, et al. Cell Res, 2009 Dec. PMID 19935774
    4. An epidermal growth factor (EGF) -dependent interaction between GIT1 and sorting nexin 6 promotes degradation of the EGF receptor. Cavet ME, et al. FASEB J, 2008 Oct. PMID 18523162, Free PMC Article
    5. SNX25 regulates TGF-β signaling by enhancing the receptor degradation. Hao X, et al. Cell Signal, 2011 May. PMID 21266196

    See all (11) citations in PubMed

    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 dynactin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables dynactin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables type I transforming growth factor beta receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cellular response to amyloid-beta ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cellular response to epidermal growth factor stimulus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in intracellular protein transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of neuron apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transforming growth factor beta receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT involved_in regulation of histamine secretion by mast cell ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of postsynaptic membrane neurotransmitter receptor levels ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in retrograde transport, endosome to Golgi IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in retrograde transport, endosome to Golgi ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in early endosome membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in lysosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in lysosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic early endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of retromer complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in tubular endosome ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    sorting nexin-6

    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_001108711.1 → NP_001102181.1  sorting nexin-6

      See identical proteins and their annotated locations for NP_001102181.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473947
      UniProtKB/TrEMBL
      A0A8I5ZS69, B5DEY8
      Related
      ENSRNOP00000081270.2, ENSRNOT00000117817.2
      Conserved Domains (2) summary
      cd07292
      Location:30 → 170
      PX_SNX6; The phosphoinositide binding Phox Homology domain of Sorting Nexin 6
      cd07662
      Location:186 → 403
      BAR_SNX6; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 6

    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_086024.1 Reference GRCr8

      Range
      77966141..78009343 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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