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    Snx10 sorting nexin 10 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 297096, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Snx10provided by RGD
    Official Full Name
    sorting nexin 10provided by RGD
    Primary source
    RGD:1305782
    See related
    EnsemblRapid:ENSRNOG00000011944 AllianceGenome:RGD:1305782
    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 1-phosphatidylinositol binding activity; ATPase binding activity; and phosphatidylinositol phosphate binding activity. Predicted to be involved in several processes, including endosome organization; osteoclast differentiation; and protein localization to organelle. Predicted to act upstream of or within several processes, including bone mineralization involved in bone maturation; bone resorption; and cellular response to leukemia inhibitory factor. Predicted to be located in several cellular components, including apical cytoplasm; centrosome; and secretory granule. Predicted to be extrinsic component of endosome membrane. Predicted to be active in endosome. Human ortholog(s) of this gene implicated in autosomal recessive osteopetrosis 8. Orthologous to human SNX10 (sorting nexin 10). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 263.1), Lung (RPKM 101.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Snx10 in Genome Data Viewer
    Location:
    4q24
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (81943262..82007667)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (80612648..80677005)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (81311490..81375248)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene chromobox 3 Neighboring gene igE-binding protein-like Neighboring gene translocase of outer mitochondrial membrane 20 like 2 Neighboring gene MICOS complex subunit MIC13-like Neighboring gene uncharacterized LOC120102272 Neighboring gene uncharacterized LOC120102273 Neighboring gene uncharacterized LOC120102274 Neighboring gene uncharacterized LOC134486768

    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 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. Downregulation of sorting nexin 10 is associated with overexpression of miR-30d during liver cancer progression in rats. Cervantes-Anaya N, et al. Tumour Biol, 2017 Apr. PMID 28381192
    2. Sorting nexin 10 induces giant vacuoles in mammalian cells. Qin B, et al. J Biol Chem, 2006 Dec 1. PMID 17012226
    3. SNX10 is required for osteoclast formation and resorption activity. Zhu CH, et al. J Cell Biochem, 2012 May. PMID 22174188
    4. Osteopetrorickets due to Snx10 deficiency in mice results from both failed osteoclast activity and loss of gastric acid-dependent calcium absorption. Ye L, et al. PLoS Genet, 2015 Mar. PMID 25811986, Free PMC Article
    5. A SNX10/V-ATPase pathway regulates ciliogenesis in vitro and in vivo. Chen Y, et al. Cell Res, 2012 Feb. PMID 21844891, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. the binomial miRNA 30d- SNX10 acts as a potential tumor oncogene suppressor by behaving as a dual tumor marker and a dual therapeutic target in liver cancer.
      Title: Downregulation of sorting nexin 10 is associated with overexpression of miR-30d during liver cancer progression in rats.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC109202

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 1-phosphatidylinositol binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ATPase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol phosphate binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within bone mineralization involved in bone maturation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within bone remodeling ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within bone resorption ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within calcium ion homeostasis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within cellular homeostasis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within cellular response to leukemia inhibitory factor ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cilium assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cilium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within endocytosis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endosome organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within establishment of localization in cell ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within gastric acid secretion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in osteoclast differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to cilium ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within ruffle assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within tooth eruption ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in vesicle organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in apical cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extrinsic component of endosome membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in secretory granule ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    sorting nexin-10

    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_001013085.1 → NP_001013103.1  sorting nexin-10

      See identical proteins and their annotated locations for NP_001013103.1

      Status: PROVISIONAL

      Source sequence(s)
      BC091290
      UniProtKB/TrEMBL
      A0A8I6APC8, Q5BJX4
      Conserved Domains (1) summary
      cd06898
      Location:12 → 109
      PX_SNX10; The phosphoinositide binding Phox Homology domain of Sorting Nexin 10

    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_086022.1 Reference GRCr8

      Range
      81943262..82007667
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039107307.2 → XP_038963235.1  sorting nexin-10 isoform X1

      UniProtKB/TrEMBL
      A0A8I6APC8, Q5BJX4
      Related
      ENSRNOP00000095533.2, ENSRNOT00000117927.2
      Conserved Domains (1) summary
      cd06898
      Location:12 → 109
      PX_SNX10; The phosphoinositide binding Phox Homology domain of Sorting Nexin 10

    2. XM_006236486.5 → XP_006236548.1  sorting nexin-10 isoform X1

      See identical proteins and their annotated locations for XP_006236548.1

      UniProtKB/TrEMBL
      A0A8I6APC8, Q5BJX4
      Related
      ENSRNOP00000016265.6, ENSRNOT00000016265.7
      Conserved Domains (1) summary
      cd06898
      Location:12 → 109
      PX_SNX10; The phosphoinositide binding Phox Homology domain of Sorting Nexin 10

    3. XM_006236490.3 → XP_006236552.1  sorting nexin-10 isoform X1

      See identical proteins and their annotated locations for XP_006236552.1

      UniProtKB/TrEMBL
      A0A8I6APC8, Q5BJX4
      Conserved Domains (1) summary
      cd06898
      Location:12 → 109
      PX_SNX10; The phosphoinositide binding Phox Homology domain of Sorting Nexin 10

    4. XM_006236489.5 → XP_006236551.1  sorting nexin-10 isoform X1

      See identical proteins and their annotated locations for XP_006236551.1

      UniProtKB/TrEMBL
      A0A8I6APC8, Q5BJX4
      Conserved Domains (1) summary
      cd06898
      Location:12 → 109
      PX_SNX10; The phosphoinositide binding Phox Homology domain of Sorting Nexin 10

    5. XM_006236488.5 → XP_006236550.1  sorting nexin-10 isoform X1

      See identical proteins and their annotated locations for XP_006236550.1

      UniProtKB/TrEMBL
      A0A8I6APC8, Q5BJX4
      Conserved Domains (1) summary
      cd06898
      Location:12 → 109
      PX_SNX10; The phosphoinositide binding Phox Homology domain of Sorting Nexin 10
    Nucleotide Protein Strain
    Heading Accession and Version

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