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SNX2 sorting nexin 2 [ Homo sapiens (human) ]

Gene ID: 6643, updated on 17-Jun-2019

Summary

Official Symbol
SNX2provided by HGNC
Official Full Name
sorting nexin 2provided by HGNC
Primary source
HGNC:HGNC:11173
See related
Ensembl:ENSG00000205302 MIM:605929
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TRG-9
Summary
This gene belongs to the sorting nexin family whose members contain the phosphoinositide-binding phox (PX) domain. The encoded protein is a component of the retromer complex which plays a role in protein sorting in the endocytic pathway. This protein may form oligomeric complexes with other family members. Alternate splicing results in multiple transcript variants of this gene. Pseudogenes associated with this gene are located on chromosomes 1 and 7. [provided by RefSeq, May 2013]
Expression
Ubiquitous expression in thyroid (RPKM 17.2), spleen (RPKM 14.1) and 25 other tissues See more
Orthologs

Genomic context

See SNX2 in Genome Data Viewer
Location:
5q23.2
Exon count:
15
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (122774996..122834543)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (122110691..122170234)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101927357 Neighboring gene long intergenic non-protein coding RNA 2201 Neighboring gene arginine-fifty homeobox pseudogene 1 Neighboring gene uncharacterized LOC105379154 Neighboring gene sorting nexin 24 Neighboring gene uncharacterized LOC107986447 Neighboring gene RNA, 7SL, cytoplasmic 689, pseudogene Neighboring gene peptidylprolyl isomerase C

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Clathrin derived vesicle budding, organism-specific biosystem (from REACTOME)
    Clathrin derived vesicle budding, organism-specific biosystemThere at least two classes of clathrin coated vesicles in cells, one predominantly Golgi-associated, involved in budding from the trans-Golgi network and the other at the plasma membrane. Here the cl...
  • Endocytosis, organism-specific biosystem (from KEGG)
    Endocytosis, organism-specific biosystemEndocytosis is a mechanism for cells to remove ligands, nutrients, and plasma membrane (PM) proteins, and lipids from the cell surface, bringing them into the cell interior. Transmembrane proteins en...
  • Endocytosis, conserved biosystem (from KEGG)
    Endocytosis, conserved biosystemEndocytosis is a mechanism for cells to remove ligands, nutrients, and plasma membrane (PM) proteins, and lipids from the cell surface, bringing them into the cell interior. Transmembrane proteins en...
  • Golgi Associated Vesicle Biogenesis, organism-specific biosystem (from REACTOME)
    Golgi Associated Vesicle Biogenesis, organism-specific biosystemProteins that have been synthesized, processed and sorted eventually reach the final steps of the secretory pathway. This pathway is responsible not only for proteins that are secreted from the cell ...
  • Membrane Trafficking, organism-specific biosystem (from REACTOME)
    Membrane Trafficking, organism-specific biosystemThe secretory membrane system allows a cell to regulate delivery of newly synthesized proteins, carbohydrates, and lipids to the cell surface, a necessity for growth and homeostasis. The system is ma...
  • Vesicle-mediated transport, organism-specific biosystem (from REACTOME)
    Vesicle-mediated transport, organism-specific biosystemThe transit of proteins and other cargo through the cell requires a cellular transport process in which transported substances are moved in membrane-bounded vesicles. Transported substances are enclo...
  • trans-Golgi Network Vesicle Budding, organism-specific biosystem (from REACTOME)
    trans-Golgi Network Vesicle Budding, organism-specific biosystemAfter passing through the Golgi complex, secretory cargo is packaged into post-Golgi transport intermediates (post-Golgi), which translocate plus-end directed along microtubules to the plasma membran...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC5204, FLJ23065

Gene Ontology Provided by GOA

Function Evidence Code Pubs
cadherin binding HDA PubMed 
epidermal growth factor receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
insulin receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
leptin receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
phosphatidylinositol binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein heterodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
protein heterodimerization activity NAS
Non-traceable Author Statement
more info
PubMed 
protein homodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
transferrin receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
early endosome to Golgi transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endocytosis IEA
Inferred from Electronic Annotation
more info
 
intracellular protein transport IEA
Inferred from Electronic Annotation
more info
 
lamellipodium morphogenesis IDA
Inferred from Direct Assay
more info
PubMed 
protein complex oligomerization IDA
Inferred from Direct Assay
more info
PubMed 
retrograde transport, endosome to Golgi IMP
Inferred from Mutant Phenotype
more info
PubMed 
retrograde transport, endosome to Golgi NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IEA
Inferred from Electronic Annotation
more info
 
early endosome membrane IEA
Inferred from Electronic Annotation
more info
 
endosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endosome IDA
Inferred from Direct Assay
more info
 
endosome membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endosome membrane IDA
Inferred from Direct Assay
more info
PubMed 
lamellipodium IEA
Inferred from Electronic Annotation
more info
 
lysosome IDA
Inferred from Direct Assay
more info
 
membrane IDA
Inferred from Direct Assay
more info
PubMed 
protein-containing complex IDA
Inferred from Direct Assay
more info
PubMed 
retromer complex IDA
Inferred from Direct Assay
more info
PubMed 
retromer, tubulation complex IPI
Inferred from Physical Interaction
more info
PubMed 
retromer, tubulation complex NAS
Non-traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
sorting nexin-2
Names
CTB-36H16.2
transformation-related gene 9 protein

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_001278199.1NP_001265128.1  sorting nexin-2 isoform 2

    See identical proteins and their annotated locations for NP_001265128.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and 5' coding region and initiates translation at a downstream start codon, compared to variant 1. It encodes isoform 2 which is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AC008669, AK296596, BC003382, DA738311, DC313082, DC338761
    Consensus CDS
    CCDS64234.1
    UniProtKB/Swiss-Prot
    O60749
    Related
    ENSP00000421663.1, ENST00000514949.1
    Conserved Domains (2) summary
    cd07282
    Location:25148
    PX_SNX2; The phosphoinositide binding Phox Homology domain of Sorting Nexin 2
    cl12013
    Location:166399
    BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature
  2. NM_003100.4NP_003091.2  sorting nexin-2 isoform 1

    See identical proteins and their annotated locations for NP_003091.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the shorter transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC008669, BC003382
    Consensus CDS
    CCDS34217.1
    UniProtKB/Swiss-Prot
    O60749
    Related
    ENSP00000368831.2, ENST00000379516.7
    Conserved Domains (4) summary
    cd07282
    Location:142265
    PX_SNX2; The phosphoinositide binding Phox Homology domain of Sorting Nexin 2
    COG5391
    Location:51509
    COG5391; Phox homology (PX) domain protein [Intracellular trafficking and secretion / General function prediction only]
    pfam03700
    Location:49112
    Sorting_nexin; Sorting nexin, N-terminal domain
    cl12013
    Location:283516
    BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    122774996..122834543
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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