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    Snx16 sorting nexin 16 [ Mus musculus (house mouse) ]

    Gene ID: 74718, updated on 21-Apr-2024

    Summary

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    Official Symbol
    Snx16provided by MGI
    Official Full Name
    sorting nexin 16provided by MGI
    Primary source
    MGI:MGI:1921968
    See related
    Ensembl:ENSMUSG00000027534 AllianceGenome:MGI:1921968
    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
    4930522N22Rik
    Summary
    Predicted to enable identical protein binding activity and phosphatidylinositol binding activity. Predicted to be involved in early endosome to late endosome transport; endosome to lysosome transport; and protein targeting to lysosome. Predicted to act upstream of or within protein transport. Predicted to be located in intracellular membrane-bounded organelle. Predicted to be active in early endosome and late endosome. Predicted to be extrinsic component of endosome membrane. Orthologous to human SNX16 (sorting nexin 16). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in CNS E18 (RPKM 13.8), whole brain E14.5 (RPKM 7.3) and 12 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    3 A1; 3 2.66 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (10482877..10505194, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (10417817..10440131, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E7900 Neighboring gene STARR-positive B cell enhancer mm9_chr3:10351257-10351557 Neighboring gene STARR-seq mESC enhancer starr_06944 Neighboring gene zinc finger, AN1-type domain 1 Neighboring gene charged multivesicular body protein 4C Neighboring gene STARR-seq mESC enhancer starr_06952 Neighboring gene STARR-seq mESC enhancer starr_06953 Neighboring gene STARR-seq mESC enhancer starr_06954 Neighboring gene STARR-seq mESC enhancer starr_06955 Neighboring gene STARR-seq mESC enhancer starr_06956 Neighboring gene STARR-seq mESC enhancer starr_06957 Neighboring gene STARR-seq mESC enhancer starr_06958 Neighboring gene STARR-seq mESC enhancer starr_06959 Neighboring gene von Hippel-Lindau binding protein 1 pseudogene Neighboring gene STARR-seq mESC enhancer starr_06960 Neighboring gene predicted gene, 33551

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Evidence for a role of SNX16 in regulating traffic between the early and later endosomal compartments. Hanson BJ, et al. J Biol Chem, 2003 Sep 5. PMID 12813048
    2. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
    3. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    4. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article
    5. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (1) 
    • Endonuclease-mediated (3) 

    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 MGI

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables lipid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphatidylinositol binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphatidylinositol binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in early endosome to late endosome transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in early endosome to late endosome transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endosome to lysosome transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endosome to lysosome transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein targeting to lysosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein targeting to lysosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in early endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in early endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endosome membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle 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
    		  
    located_in lysosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    sorting nexin-16

    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_001127191.2 → NP_001120663.1  sorting nexin-16 isoform b

      See identical proteins and their annotated locations for NP_001120663.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 3' coding region compared to variant 1. It encodes isoform b which is shorter than isoform a.
      Source sequence(s)
      AC125006, AI117577
      Consensus CDS
      CCDS50862.1
      UniProtKB/TrEMBL
      Q3TLM7
      Related
      ENSMUSP00000096828.5, ENSMUST00000099223.11
      Conserved Domains (1) summary
      cd07276
      Location:105 → 214
      PX_SNX16; The phosphoinositide binding Phox Homology domain of Sorting Nexin 16

    2. NM_029068.4 → NP_083344.3  sorting nexin-16 isoform a

      See identical proteins and their annotated locations for NP_083344.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
      Source sequence(s)
      AC125006, AI117577, AK032055, BY009391
      Consensus CDS
      CCDS17244.1
      UniProtKB/Swiss-Prot
      Q8C080, Q9D525
      Related
      ENSMUSP00000029047.7, ENSMUST00000029047.12
      Conserved Domains (1) summary
      cd07276
      Location:105 → 214
      PX_SNX16; The phosphoinositide binding Phox Homology domain of Sorting Nexin 16

    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_000069.7 Reference GRCm39 C57BL/6J

      Range
      10482877..10505194 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036163365.1 → XP_036019258.1  sorting nexin-16 isoform X2

      UniProtKB/TrEMBL
      Q3TLM7
      Conserved Domains (1) summary
      cd07276
      Location:105 → 214
      PX_SNX16; The phosphoinositide binding Phox Homology domain of Sorting Nexin 16

    2. XM_036163364.1 → XP_036019257.1  sorting nexin-16 isoform X1

      UniProtKB/Swiss-Prot
      Q8C080, Q9D525
      Conserved Domains (1) summary
      cd07276
      Location:105 → 214
      PX_SNX16; The phosphoinositide binding Phox Homology domain of Sorting Nexin 16

    RNA

    1. XR_003954417.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8C080.2 GenPept UniProtKB/Swiss-Prot:Q8C080

    Gene LinkOut

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

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