Snx6 sorting nexin 6 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Snx6provided by MGI
Official Full Name: sorting nexin 6provided by MGI
Primary source: MGI:MGI:1919433
See related: Ensembl:ENSMUSG00000005656 AllianceGenome:MGI:1919433
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: 2010006G21Rik; 2610032J07Rik; 2810425K19Rik
Summary: Enables type I transforming growth factor beta receptor binding activity. Predicted to be involved in several processes, including cellular response to amyloid-beta; cellular response to epidermal growth factor stimulus; and negative regulation of transforming growth factor beta receptor signaling pathway. Predicted to act upstream of or within protein transport. Predicted to be located in early endosome membrane and tubular endosome. Predicted to be part of retromer complex. Predicted to be active in endosome. Orthologous to human SNX6 (sorting nexin 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in placenta adult (RPKM 45.5), CNS E11.5 (RPKM 30.0) and 26 other tissues See more
Orthologs: human all
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Genomic context

Location:: 12; 12 C1

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	12	NC_000078.7 (54793124..54842663, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	12	NC_000078.6 (54746339..54795749, complement)

Chromosome 12 - NC_000078.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

This study identified sorting nexin 6 (SNX6), an endosomal sorting component and BAR domain-containing protein, as a host cell interactor of Lmol656.
Title: Lmo1656 is a secreted virulence factor of Listeria monocytogenes that interacts with the sorting nexin 6-BAR complex.
The authors show that SNX6 functions independently of retromer to regulate distribution of Homer1b/c in the dendritic shaft.
Title: Ablation of SNX6 leads to defects in synaptic function of CA1 pyramidal neurons and spatial memory.
These results identify SNX6 as a key regulator of lamin A synthesis and incorporation into the nuclear envelope.
Title: Sorting nexin 6 enhances lamin a synthesis and incorporation into the nuclear envelope.
These data demonstrate an endosomal, EGF-regulated interaction between SNX6 and GIT1 that enhances degradation of the EGFR, and thereby alters EGFR signaling.
Title: An epidermal growth factor (EGF) -dependent interaction between GIT1 and sorting nexin 6 promotes degradation of the EGF receptor.

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Variation

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Alleles

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

Targeted (1) 1 citation
Endonuclease-mediated (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH136517 (e-PCR)
- UniSTS:210499

RH127247 (e-PCR)
- UniSTS:208802

Homology

Homologs of the Snx6 gene: The Snx6 gene is conserved in human, chimpanzee, dog, rat, chicken, zebrafish, fruit fly, mosquito, C.elegans, and frog.
Orthologs from Annotation Pipeline: 477 organisms have orthologs with human gene Snx6
Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables dynactin binding	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables dynactin binding	ISO Inferred from Sequence Orthology more info
enables lipid binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol binding	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables type I transforming growth factor beta receptor binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in cellular response to amyloid-beta	ISO Inferred from Sequence Orthology more info
involved_in cellular response to epidermal growth factor stimulus	ISO Inferred from Sequence Orthology more info
involved_in intracellular protein transport	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transforming growth factor beta receptor signaling pathway	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	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in retrograde transport, endosome to Golgi	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle	IEA Inferred from Electronic Annotation more info
located_in early endosome membrane	ISO Inferred from Sequence Orthology more info
is_active_in endosome	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in endosome	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
part_of retromer complex	ISO Inferred from Sequence Orthology more info
located_in tubular endosome	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: sorting nexin-6

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)

NM_001416020.1 → NP_001402949.1 sorting nexin-6 isoform 2

Status: VALIDATED

Source sequence(s)

CT030142
NM_026998.4 → NP_081274.2 sorting nexin-6 isoform 1

See identical proteins and their annotated locations for NP_081274.2

Status: VALIDATED

Source sequence(s)

CT030142

Consensus CDS

CCDS36447.1

UniProtKB/Swiss-Prot

Q6P8X1, Q9CZ03

Related

ENSMUSP00000005798.9, ENSMUST00000005798.9

Conserved Domains (2) summary

cd07292
Location:30 → 170

PX_SNX6; The phosphoinositide binding Phox Homology domain of Sorting Nexin 6

cd07662
Location:186 → 403

BAR_SNX6; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 6

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...

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

Reference GRCm39 C57BL/6J

Genomic

NC_000078.7 Reference GRCm39 C57BL/6J

Range

54793124..54842663 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006516253.5 → XP_006516316.1 sorting nexin-6 isoform X1

Conserved Domains (2) summary

cl02563
Location:30 → 133

PX_domain; The Phox Homology domain, a phosphoinositide binding module

cl12013
Location:149 → 366

BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature