Snx1 sorting nexin 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Snx1provided by RGD
Official Full Name: sorting nexin 1provided by RGD
Primary source: RGD:68935
See related: Ensembl:ENSRNOG00000017029 AllianceGenome:RGD:68935
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable phosphatidylinositol binding activity; protein dimerization activity; and signaling receptor binding activity. Involved in endosomal transport and positive regulation of protein catabolic process. Located in cytosol and membrane. Colocalizes with early endosome. Orthologous to human SNX1 (sorting nexin 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 243.7), Kidney (RPKM 224.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 8q24

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	8	NC_086026.1 (75515780..75565487, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	8	NC_051343.1 (66630086..66670418, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	8	NC_005107.4 (71745687..71786182, complement)

Chromosome 8 - NC_086026.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HkRP1 is involved in the process of tubulation of sorting nexin-1 positive membranes from early endosome subdomains
Title: A novel hook-related protein family and the characterization of hook-related protein 1.
PX domain-dependent/early endosomal association of SNX1 is important for its ability to regulate the targeting of internalized epidermal growth factor receptor for lysosomal degradation
Title: The phox homology (PX) domain-dependent, 3-phosphoinositide-mediated association of sorting nexin-1 with an early sorting endosomal compartment is required for its ability to regulate epidermal growth factor receptor degradation.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

UniSTS:236171 (e-PCR)
- UniSTS:236171

UniSTS:478959 (e-PCR)
- UniSTS:478959

Snx1 (e-PCR), detects polymorphism
- UniSTS:478959

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables epidermal growth factor receptor binding	IEA Inferred from Electronic Annotation more info
enables epidermal growth factor receptor binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables insulin receptor binding	IEA Inferred from Electronic Annotation more info
enables insulin receptor binding	ISO Inferred from Sequence Orthology more info
enables leptin receptor binding	IEA Inferred from Electronic Annotation more info
enables leptin receptor binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylinositol binding	IBA Inferred from Biological aspect of Ancestor more info
enables phosphatidylinositol binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylinositol binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein heterodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein heterodimerization activity	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables transferrin receptor binding	IEA Inferred from Electronic Annotation more info
enables transferrin receptor binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in early endosome to Golgi transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in early endosome to Golgi transport	IEA Inferred from Electronic Annotation more info
involved_in early endosome to Golgi transport	ISO Inferred from Sequence Orthology more info
involved_in endosomal transport	IEP Inferred from Expression Pattern more info	PubMed
involved_in intracellular protein transport	IEA Inferred from Electronic Annotation more info
involved_in intracellular protein transport	ISO Inferred from Sequence Orthology more info
involved_in lamellipodium morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in lamellipodium morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in lamellipodium morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of transforming growth factor beta receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in receptor internalization	IEA Inferred from Electronic Annotation more info
involved_in receptor internalization	ISO Inferred from Sequence Orthology more info
involved_in receptor internalization	ISS Inferred from Sequence or Structural Similarity more info
involved_in retrograde transport, endosome to Golgi	ISO Inferred from Sequence Orthology more info
involved_in retrograde transport, endosome to Golgi	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in dendritic spine	ISO Inferred from Sequence Orthology more info
located_in early endosome	IDA Inferred from Direct Assay more info	PubMed
located_in early endosome	ISO Inferred from Sequence Orthology more info
located_in early endosome membrane	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
located_in endosome	ISO Inferred from Sequence Orthology more info
is_active_in endosome membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in endosome membrane	ISO Inferred from Sequence Orthology more info
located_in endosome membrane	ISS Inferred from Sequence or Structural Similarity more info
is_active_in extrinsic component of postsynaptic endosome membrane	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in lamellipodium	IEA Inferred from Electronic Annotation more info
located_in lysosome	IEA Inferred from Electronic Annotation more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density, intracellular component	ISO Inferred from Sequence Orthology more info
located_in presynapse	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info
part_of retromer complex	ISO Inferred from Sequence Orthology more info
part_of retromer, tubulation complex	IEA Inferred from Electronic Annotation more info
part_of retromer, tubulation complex	ISO Inferred from Sequence Orthology more info
located_in vesicle	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: sorting nexin-1

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_053411.1 → NP_445863.1 sorting nexin-1

See identical proteins and their annotated locations for NP_445863.1

Status: PROVISIONAL

Source sequence(s)

AF218916

UniProtKB/Swiss-Prot

Q56A25, Q99N27

UniProtKB/TrEMBL

A0A8L2QBU0, A6J5H5

Related

ENSRNOP00000088585.1, ENSRNOT00000099946.1

Conserved Domains (3) summary

cd07281
Location:145 → 268

PX_SNX1; The phosphoinositide binding Phox Homology domain of Sorting Nexin 1

cd07665
Location:286 → 519

BAR_SNX1; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1

pfam03700
Location:11 → 90

Sorting_nexin; Sorting nexin, N-terminal domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086026.1 Reference GRCr8

Range

75515780..75565487 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063266236.1 → XP_063122306.1 sorting nexin-1 isoform X3
XM_006243317.5 → XP_006243379.1 sorting nexin-1 isoform X1

UniProtKB/TrEMBL

A0A8I5Y518, A0A8L2QBU0

Related

ENSRNOP00000076840.1

Conserved Domains (3) summary

cd07281
Location:97 → 220

PX_SNX1; The phosphoinositide binding Phox Homology domain of Sorting Nexin 1

cd07665
Location:238 → 471

BAR_SNX1; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1

pfam03700
Location:4 → 81

Sorting_nexin; Sorting nexin, N-terminal domain
XM_063266235.1 → XP_063122305.1 sorting nexin-1 isoform X2