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    Snx27 sorting nexin family member 27 [ Mus musculus (house mouse) ]

    Gene ID: 76742, updated on 28-Aug-2018

    Summary

    Official Symbol
    Snx27provided by MGI
    Official Full Name
    sorting nexin family member 27provided by MGI
    Primary source
    MGI:MGI:1923992
    See related
    Ensembl:ENSMUSG00000028136 Vega:OTTMUSG00000019563
    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
    ESTM45; ESTM47; R75405; 5730552M22Rik
    Expression
    Ubiquitous expression in CNS E18 (RPKM 6.3), cerebellum adult (RPKM 5.7) and 28 other tissues See more
    Orthologs

    Genomic context

    See Snx27 in Genome Data Viewer
    Location:
    3; 3 F2.1
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 3 NC_000069.6 (94497542..94582716, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 3 NC_000069.5 (94301466..94386624, complement)

    Chromosome 3 - NC_000069.6Genomic Context describing neighboring genes Neighboring gene regulatory subunit of type II PKA R-subunit (RIIa) domain containing 1 Neighboring gene predicted gene, 46813 Neighboring gene CUGBP, Elav-like family member 3 Neighboring gene ribosomal protein L31, pseudogene 11 Neighboring gene tuftelin 1

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • mKIAA0488

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    ionotropic glutamate receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    lipid binding IEA
    Inferred from Electronic Annotation
    more info
     
    phosphatidylinositol binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    phosphatidylinositol-3-phosphate binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    endosomal transport IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    endosomal transport ISO
    Inferred from Sequence Orthology
    more info
     
    endosome to lysosome transport ISO
    Inferred from Sequence Orthology
    more info
     
    endosome to plasma membrane protein transport ISO
    Inferred from Sequence Orthology
    more info
     
    establishment of protein localization to plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    intracellular protein transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    intracellular protein transport ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of inward rectifier potassium channel activity ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of AMPA glutamate receptor clustering ISO
    Inferred from Sequence Orthology
    more info
     
    protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    retrograde transport, endosome to plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    retrograde transport, endosome to plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    signal transduction IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    colocalizes_with WASH complex ISO
    Inferred from Sequence Orthology
    more info
     
    cell ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    early endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    early endosome ISO
    Inferred from Sequence Orthology
    more info
     
    endosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    immunological synapse ISO
    Inferred from Sequence Orthology
    more info
     
    intracellular ISO
    Inferred from Sequence Orthology
    more info
     
    membrane IEA
    Inferred from Electronic Annotation
    more info
     
    nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    postsynaptic density ISO
    Inferred from Sequence Orthology
    more info
     
    colocalizes_with retromer complex ISO
    Inferred from Sequence Orthology
    more info
     

    NCBI Reference Sequences (RefSeq)

    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_001082484.2NP_001075953.1  sorting nexin-27 isoform 1

      See identical proteins and their annotated locations for NP_001075953.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the shorter transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC127252, AK043074, AK147452, AV490246, BC053495
      Consensus CDS
      CCDS38537.1
      UniProtKB/Swiss-Prot
      Q3UHD6
      Related
      ENSMUSP00000102904.1, OTTMUSP00000021102, ENSMUST00000107283.7, OTTMUST00000046711
      Conserved Domains (4) summary
      cd06886
      Location:158263
      PX_SNX27; The phosphoinositide binding Phox Homology domain of Sorting Nexin 27
      cd01777
      Location:272358
      SNX27_RA; Ubiquitin domain of SNX27 (sorting nexin protein 27)
      cd00992
      Location:39131
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd13338
      Location:423524
      FERM-like_C_SNX27; Atypical FERM-like domain C-lobe of Sorting nexin 27
    2. NM_029721.2NP_083997.1  sorting nexin-27 isoform 2

      See identical proteins and their annotated locations for NP_083997.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate 3' terminal exon which results in a frameshift compared to variant 1. It encodes isoform 2 which has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AC122808, AC127252, AK147452, AV490246
      Consensus CDS
      CCDS38538.1
      UniProtKB/Swiss-Prot
      Q3UHD6
      Related
      ENSMUSP00000029783.9, OTTMUSP00000021101, ENSMUST00000029783.15, OTTMUST00000046710
      Conserved Domains (4) summary
      cd06886
      Location:158263
      PX_SNX27; The phosphoinositide binding Phox Homology domain of Sorting Nexin 27
      cd01777
      Location:272358
      SNX27_RA; Ubiquitin domain of SNX27 (sorting nexin protein 27)
      cd00992
      Location:39131
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd13338
      Location:423524
      FERM-like_C_SNX27; Atypical FERM-like domain C-lobe of Sorting nexin 27

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000069.6 Reference GRCm38.p4 C57BL/6J

      Range
      94497542..94582716 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006502258.3XP_006502321.1  sorting nexin-27 isoform X1

      Conserved Domains (3) summary
      cd01777
      Location:88174
      SNX27_RA; Ubiquitin domain of SNX27 (sorting nexin protein 27)
      cd13338
      Location:239340
      FERM-like_C_SNX27; Atypical FERM-like domain C-lobe of Sorting nexin 27
      cl02563
      Location:179
      PX_domain; The Phox Homology domain, a phosphoinositide binding module
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