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

Gene ID: 74718, updated on 16-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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See Snx16 in Genome Data Viewer
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

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