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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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