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

Gene ID: 76742, updated on 7-May-2024

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 AllianceGenome:MGI:1923992
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; 5730552M22Rik
Summary
Predicted to enable ionotropic glutamate receptor binding activity and phosphatidylinositol-3-phosphate binding activity. Acts upstream of or within endosomal transport. Located in endosome. Is expressed in several structures, including adipose tissue; eye; gut; nervous system; and reproductive system. Orthologous to human SNX27 (sorting nexin 27). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E18 (RPKM 6.3), cerebellum adult (RPKM 5.7) and 28 other tissues See more
Orthologs
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Genomic context

See Snx27 in Genome Data Viewer
Location:
3 F2.1; 3 40.74 cM
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (94404849..94490023, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (94497542..94582736, complement)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene 40S ribosomal protein S2-like Neighboring gene STARR-positive B cell enhancer mm9_chr3:94260392-94260693 Neighboring gene regulatory subunit of type II PKA R-subunit (RIIa) domain containing 1 Neighboring gene CUGBP, Elav-like family member 3 Neighboring gene STARR-seq mESC enhancer starr_08351 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:94386567-94386676 Neighboring gene translation machinery-associated protein 7 pseudogene Neighboring gene ribosomal protein L31, pseudogene 11

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 Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (3)  1 citation

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • mKIAA0488

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables calcium-dependent protein binding ISO
Inferred from Sequence Orthology
more info
 
enables ionotropic glutamate receptor 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-3-phosphate binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in endocytic recycling IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in endocytic recycling ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within endosomal transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in endosomal transport ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within endosome to lysosome transport ISO
Inferred from Sequence Orthology
more info
 
involved_in endosome to plasma membrane protein transport ISO
Inferred from Sequence Orthology
more info
 
involved_in establishment of protein localization to plasma membrane ISO
Inferred from Sequence Orthology
more info
 
involved_in intracellular protein transport IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in intracellular protein transport ISO
Inferred from Sequence Orthology
more info
 
involved_in neurotransmitter receptor transport to plasma membrane ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of AMPA glutamate receptor clustering ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within protein transport IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of postsynaptic membrane neurotransmitter receptor levels IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of postsynaptic membrane neurotransmitter receptor levels IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in regulation of postsynaptic membrane neurotransmitter receptor levels IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in signal transduction IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in Schaffer collateral - CA1 synapse IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in Schaffer collateral - CA1 synapse IEP
Inferred from Expression Pattern
more info
PubMed 
is_active_in Schaffer collateral - CA1 synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
part_of WASH complex ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
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 IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in glutamatergic synapse IEP
Inferred from Expression Pattern
more info
PubMed 
is_active_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in immunological synapse ISO
Inferred from Sequence Orthology
more info
 
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in postsynapse IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in postsynapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
is_active_in postsynaptic early endosome IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in postsynaptic recycling endosome IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in postsynaptic recycling endosome IMP
Inferred from Mutant Phenotype
more info
PubMed 
part_of retromer complex ISO
Inferred from Sequence Orthology
more info
 

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_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, Q7TQL6, Q80TZ1, Q9CYB5
    Related
    ENSMUSP00000102904.2, ENSMUST00000107283.8
    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/TrEMBL
    A0A0G2JF85
    Related
    ENSMUSP00000029783.10, ENSMUST00000029783.16
    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: 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
    94404849..94490023 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030252876.2XP_030108736.1  sorting nexin-27 isoform X1

    Conserved Domains (3) summary
    cd13338
    Location:239340
    FERM-like_C_SNX27; Atypical FERM-like domain C-lobe of Sorting nexin 27
    cd01777
    Location:87179
    FERM_F1_SNX27; FERM (Four.1 protein, Ezrin, Radixin, Moesin) domain, F1 sub-domain, found in sorting nexin protein 27 (SNX27)
    cl02563
    Location:179
    PX_domain; The Phox Homology domain, a phosphoinositide binding module
  2. XM_030252877.2XP_030108737.1  sorting nexin-27 isoform X2

    Conserved Domains (3) summary
    cd13338
    Location:239340
    FERM-like_C_SNX27; Atypical FERM-like domain C-lobe of Sorting nexin 27
    cd01777
    Location:87179
    FERM_F1_SNX27; FERM (Four.1 protein, Ezrin, Radixin, Moesin) domain, F1 sub-domain, found in sorting nexin protein 27 (SNX27)
    cl02563
    Location:179
    PX_domain; The Phox Homology domain, a phosphoinositide binding module
  3. XM_006502258.5XP_006502321.1  sorting nexin-27 isoform X1

    Conserved Domains (3) summary
    cd13338
    Location:239340
    FERM-like_C_SNX27; Atypical FERM-like domain C-lobe of Sorting nexin 27
    cd01777
    Location:87179
    FERM_F1_SNX27; FERM (Four.1 protein, Ezrin, Radixin, Moesin) domain, F1 sub-domain, found in sorting nexin protein 27 (SNX27)
    cl02563
    Location:179
    PX_domain; The Phox Homology domain, a phosphoinositide binding module