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SNX9 sorting nexin 9 [ Homo sapiens (human) ]

Gene ID: 51429, updated on 7-Aug-2022

Summary

Official Symbol
SNX9provided by HGNC
Official Full Name
sorting nexin 9provided by HGNC
Primary source
HGNC:HGNC:14973
See related
Ensembl:ENSG00000130340 MIM:605952; AllianceGenome:HGNC:14973
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
SDP1; WISP; SH3PX1; SH3PXD3A
Summary
This gene encodes a member of the sorting nexin family. Members of this family contain a phosphoinositide binding domain, and are involved in intracellular trafficking. The encoded protein does not contain a coiled coil region, like some family members, but does contain a SRC homology domain near its N-terminus. The encoded protein is reported to have a variety of interaction partners, including of adaptor protein 2 , dynamin, tyrosine kinase non-receptor 2, Wiskott-Aldrich syndrome-like, and ARP3 actin-related protein 3. The encoded protein is implicated in several stages of intracellular trafficking, including endocytosis, macropinocytosis, and F-actin nucleation. [provided by RefSeq, Jul 2013]
Expression
Ubiquitous expression in gall bladder (RPKM 27.0), esophagus (RPKM 26.7) and 25 other tissues See more
Orthologs
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Genomic context

See SNX9 in Genome Data Viewer
Location:
6q25.3
Exon count:
19
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (157823246..157945077)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (159069178..159191298)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (158244278..158366109)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 4686 Neighboring gene Sharpr-MPRA regulatory region 7014 Neighboring gene Sharpr-MPRA regulatory region 12251 Neighboring gene SNX9 antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory region 15079 Neighboring gene heat shock protein family E (Hsp10) member 1 pseudogene 26 Neighboring gene RNA, U6 small nuclear 786, pseudogene Neighboring gene CRISPRi-validated cis-regulatory element chr6.5510 Neighboring gene synaptojanin 2 Neighboring gene SYNJ2 intronic transcript 1

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 Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables 1-phosphatidylinositol binding IDA
Inferred from Direct Assay
more info
PubMed 
enables Arp2/3 complex binding IDA
Inferred from Direct Assay
more info
PubMed 
enables cadherin binding HDA PubMed 
enables identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables phosphatidylinositol binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables phosphatidylinositol binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein homodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
enables ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in cleavage furrow formation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cleavage furrow formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in endocytosis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in endocytosis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in endosomal transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in endosomal transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in intracellular protein transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in lipid tube assembly IDA
Inferred from Direct Assay
more info
PubMed 
involved_in mitotic cytokinesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in plasma membrane tubulation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in plasma membrane tubulation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of GTPase activity IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of actin filament polymerization ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of membrane protein ectodomain proteolysis IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of protein kinase activity IDA
Inferred from Direct Assay
more info
PubMed 
involved_in protein-containing complex assembly IDA
Inferred from Direct Assay
more info
PubMed 
involved_in receptor-mediated endocytosis IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
colocalizes_with clathrin-coated vesicle IDA
Inferred from Direct Assay
more info
PubMed 
colocalizes_with cuticular plate ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in cytoplasmic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytoplasmic vesicle IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasmic vesicle membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in extracellular exosome HDA PubMed 
located_in extrinsic component of cytoplasmic side of plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in ruffle IEA
Inferred from Electronic Annotation
more info
 
located_in trans-Golgi network IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
sorting nexin-9
Names
SH3 and PX domain-containing protein 1
SH3 and PX domain-containing protein 3A
Wiskott-Aldrich syndrome protein (WASP) interactor protein

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_016224.5NP_057308.1  sorting nexin-9

    See identical proteins and their annotated locations for NP_057308.1

    Status: REVIEWED

    Source sequence(s)
    AF121859, AL139330, DA336311
    Consensus CDS
    CCDS5253.1
    UniProtKB/Swiss-Prot
    Q9UP20, Q9Y5X1
    Related
    ENSP00000376024.3, ENST00000392185.8
    Conserved Domains (3) summary
    cd07285
    Location:250375
    PX_SNX9; The phosphoinositide binding Phox Homology domain of Sorting Nexin 9
    cd07668
    Location:386595
    BAR_SNX9; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9
    cd11898
    Location:460
    SH3_SNX9; Src Homology 3 domain of Sorting nexin 9

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    157823246..157945077
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011535886.4XP_011534188.1  sorting nexin-9 isoform X1

    Conserved Domains (2) summary
    cd07285
    Location:156281
    PX_SNX9; The phosphoinositide binding Phox Homology domain of Sorting Nexin 9
    cd07668
    Location:292501
    BAR_SNX9; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    159069178..159191298
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)