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    Snx13 sorting nexin 13 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362731, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Snx13provided by RGD
    Official Full Name
    sorting nexin 13provided by RGD
    Primary source
    RGD:1309778
    See related
    EnsemblRapid:ENSRNOG00000004186 AllianceGenome:RGD:1309778
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable phosphatidylinositol-3-phosphate binding activity. Predicted to be involved in intracellular protein transport and positive regulation of GTPase activity. Predicted to be located in membrane. Predicted to be active in early endosome. Orthologous to human SNX13 (sorting nexin 13). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Muscle (RPKM 155.3), Kidney (RPKM 153.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Snx13 in Genome Data Viewer
    Location:
    6q16
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (57478139..57589624)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (51758258..51862260)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (54487626..54591716)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene histone deacetylase 9 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene phosphoribosyl pyrophosphate synthetase 1-like 1 Neighboring gene heat shock protein 90 beta family member 1, pseudogene 2 Neighboring gene aryl hydrocarbon receptor

    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. How regulators of G protein signaling achieve selective regulation. Xie GX, et al. J Mol Biol, 2007 Feb 16. PMID 17173929, Free PMC Article
    2. RGS-PX1, a GAP for GalphaS and sorting nexin in vesicular trafficking. Zheng B, et al. Science, 2001 Nov 30. PMID 11729322
    3. Structural basis for different phosphoinositide specificities of the PX domains of sorting nexins regulating G-protein signaling. Mas C, et al. J Biol Chem, 2014 Oct 10. PMID 25148684, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables phosphatidylinositol binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphatidylinositol binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol-3-phosphate binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in intracellular protein transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of GTPase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    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 membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    sorting nexin-13

    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_001399693.1 → NP_001386622.1  sorting nexin-13 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      Related
      ENSRNOP00000005637.6, ENSRNOT00000005637.7

    2. NM_001399694.1 → NP_001386623.1  sorting nexin-13 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006

    3. NM_001399695.1 → NP_001386624.1  sorting nexin-13 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006

    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
      57478139..57589624
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006240022.5 → XP_006240084.1  sorting nexin-13 isoform X1

      UniProtKB/TrEMBL
      A0A8I6GI34
      Related
      ENSRNOP00000089422.2, ENSRNOT00000095510.2
      Conserved Domains (4) summary
      cd06873
      Location:733 → 863
      PX_SNX13; The phosphoinositide binding Phox Homology domain of Sorting Nexin 13
      cd08719
      Location:553 → 687
      RGS_SNX13; Regulator of G protein signaling (RGS) domain found in the Sorting Nexin 13 (SNX13) protein
      pfam08628
      Location:979 → 1087
      Nexin_C; Sorting nexin C terminal
      cl02564
      Location:273 → 460
      PXA; PXA domain

    2. XM_039112496.2 → XP_038968424.1  sorting nexin-13 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JUH8
      Conserved Domains (4) summary
      cd06873
      Location:477 → 607
      PX_SNX13; The phosphoinositide binding Phox Homology domain of Sorting Nexin 13
      cd08719
      Location:297 → 431
      RGS_SNX13; Regulator of G protein signaling (RGS) domain found in the Sorting Nexin 13 (SNX13) protein
      pfam08628
      Location:723 → 831
      Nexin_C; Sorting nexin C terminal
      cl02564
      Location:17 → 204
      PXA; PXA domain

    3. XM_039112495.2 → XP_038968423.1  sorting nexin-13 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JUH8
      Related
      ENSRNOP00000069103.3, ENSRNOT00000084661.3
      Conserved Domains (4) summary
      cd06873
      Location:477 → 607
      PX_SNX13; The phosphoinositide binding Phox Homology domain of Sorting Nexin 13
      cd08719
      Location:297 → 431
      RGS_SNX13; Regulator of G protein signaling (RGS) domain found in the Sorting Nexin 13 (SNX13) protein
      pfam08628
      Location:723 → 831
      Nexin_C; Sorting nexin C terminal
      cl02564
      Location:17 → 204
      PXA; PXA domain

    4. XM_063262094.1 → XP_063118164.1  sorting nexin-13 isoform X5

    5. XM_063262095.1 → XP_063118165.1  sorting nexin-13 isoform X6

    6. XM_039112498.2 → XP_038968426.1  sorting nexin-13 isoform X3

      Conserved Domains (4) summary
      cd06873
      Location:354 → 484
      PX_SNX13; The phosphoinositide binding Phox Homology domain of Sorting Nexin 13
      cd08719
      Location:174 → 308
      RGS_SNX13; Regulator of G protein signaling (RGS) domain found in the Sorting Nexin 13 (SNX13) protein
      pfam08628
      Location:600 → 708
      Nexin_C; Sorting nexin C terminal
      cl02564
      Location:46 → 81
      PXA; PXA domain

    7. XM_063262093.1 → XP_063118163.1  sorting nexin-13 isoform X4

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001108708.1: Suppressed sequence

      Description
      NM_001108708.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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