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    Snx6 sorting nexin 6 [ Mus musculus (house mouse) ]

    Gene ID: 72183, updated on 9-Dec-2024

    Summary

    Official Symbol
    Snx6provided by MGI
    Official Full Name
    sorting nexin 6provided by MGI
    Primary source
    MGI:MGI:1919433
    See related
    Ensembl:ENSMUSG00000005656 AllianceGenome:MGI:1919433
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    2010006G21Rik; 2610032J07Rik; 2810425K19Rik
    Summary
    Enables type I transforming growth factor beta receptor binding activity. Involved in regulation of postsynaptic membrane neurotransmitter receptor levels. Is active in glutamatergic synapse and postsynaptic early endosome. Is expressed in brain; cerebral cortex ventricular layer; and cortical plate. Orthologous to human SNX6 (sorting nexin 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in placenta adult (RPKM 45.5), CNS E11.5 (RPKM 30.0) and 26 other tissues See more
    Orthologs
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    Genomic context

    See Snx6 in Genome Data Viewer
    Location:
    12 C1; 12 23.46 cM
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (54793124..54842464, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (54746339..54795749, complement)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 24305 Neighboring gene predicted gene 2412 Neighboring gene predicted gene, 22317 Neighboring gene STARR-seq mESC enhancer starr_32169 Neighboring gene STARR-positive B cell enhancer ABC_E11511 Neighboring gene STARR-positive B cell enhancer ABC_E10748 Neighboring gene cofilin 2, muscle Neighboring gene bromodomain adjacent to zinc finger domain 1A Neighboring gene STARR-seq mESC enhancer starr_32173 Neighboring gene STARR-positive B cell enhancer ABC_E9387 Neighboring gene predicted gene, 51983

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (1)  1 citation

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    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 dynactin binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables phosphatidylinositol binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein homodimerization activity 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 IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in cellular response to amyloid-beta IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to amyloid-beta ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to epidermal growth factor stimulus IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cellular response to epidermal growth factor stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in intracellular protein transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in intracellular protein transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of transforming growth factor beta receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of postsynaptic membrane neurotransmitter receptor levels IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of postsynaptic membrane neurotransmitter receptor levels IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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
     
    involved_in retrograde transport, endosome to Golgi ISS
    Inferred from Sequence or Structural Similarity
    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
     
    located_in early endosome membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in endosome ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    located_in lysosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in lysosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in postsynaptic early endosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of retromer complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of retromer complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in tubular endosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in tubular endosome ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001416020.1NP_001402949.1  sorting nexin-6 isoform 2

      Status: VALIDATED

      Source sequence(s)
      CT030142
    2. NM_026998.4NP_081274.2  sorting nexin-6 isoform 1

      See identical proteins and their annotated locations for NP_081274.2

      Status: VALIDATED

      Source sequence(s)
      CT030142
      Consensus CDS
      CCDS36447.1
      UniProtKB/Swiss-Prot
      Q6P8X1, Q9CZ03
      Related
      ENSMUSP00000005798.9, ENSMUST00000005798.9
      Conserved Domains (2) summary
      cd07292
      Location:30170
      PX_SNX6; The phosphoinositide binding Phox Homology domain of Sorting Nexin 6
      cd07662
      Location:186403
      BAR_SNX6; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 6

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000078.7 Reference GRCm39 C57BL/6J

      Range
      54793124..54842464 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)