Snx9 sorting nexin 9 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Snx9provided by RGD
Official Full Name: sorting nexin 9provided by RGD
Primary source: RGD:1584466
See related: EnsemblRapid:ENSRNOG00000046874 AllianceGenome:RGD:1584466
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 several functions, including 1-phosphatidylinositol binding activity; Arp2/3 complex binding activity; and protein homodimerization activity. Involved in regulation of synaptic vesicle endocytosis. Is active in presynapse. Orthologous to human SNX9 (sorting nexin 9). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 306.1), Heart (RPKM 165.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q11

Exon count:: 20

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (48827061..48915215)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (46424897..46510096)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (46780142..46826250)

Chromosome 1 - NC_086019.1 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 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?

The significance of this study lies in reporting the significantly reduced expression of two proteins: histone-lysine N-methyltransferase (SETD2) and sorting nexin-9 (SNX9) at very early stage (13 weeks) of tumorigenesis, while the full-fledged tumors developed after 6 months.
Title: Reduced expression of SETD2 and SNX9 proteins in chemically induced mammary tumorigenesis in Wistar rats: a prognostic histological and proteomic study.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 1-phosphatidylinositol binding	ISO Inferred from Sequence Orthology more info
enables Arp2/3 complex binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables phosphatidylinositol binding	IBA Inferred from Biological aspect of Ancestor more info
enables phosphatidylinositol binding	ISO Inferred from Sequence Orthology more info
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cleavage furrow formation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cleavage furrow formation	ISO Inferred from Sequence Orthology more info
involved_in endocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in endocytosis	ISO Inferred from Sequence Orthology more info
involved_in endosomal transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in endosomal transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within intracellular protein transport	ISO Inferred from Sequence Orthology more info
involved_in intracellular protein transport	ISO Inferred from Sequence Orthology more info
involved_in lipid tube assembly	ISO Inferred from Sequence Orthology more info
involved_in mitotic cytokinesis	ISO Inferred from Sequence Orthology more info
involved_in plasma membrane tubulation	IBA Inferred from Biological aspect of Ancestor more info
involved_in plasma membrane tubulation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of GTPase activity	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of GTPase activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of actin filament polymerization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of membrane protein ectodomain proteolysis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein kinase activity	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein kinase activity	ISO Inferred from Sequence Orthology more info
involved_in protein-containing complex assembly	ISO Inferred from Sequence Orthology more info
involved_in receptor-mediated endocytosis	ISO Inferred from Sequence Orthology more info
involved_in regulation of synaptic vesicle endocytosis	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of synaptic vesicle endocytosis	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in clathrin-coated pit	ISO Inferred from Sequence Orthology more info
located_in clathrin-coated vesicle	ISO Inferred from Sequence Orthology more info
located_in cuticular plate	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasmic vesicle	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic vesicle	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle membrane	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in presynapse	IDA Inferred from Direct Assay more info	PubMed
located_in trans-Golgi network	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: sorting nexin-9

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_001127637.1 → NP_001121109.1 sorting nexin-9

See identical proteins and their annotated locations for NP_001121109.1

Status: PROVISIONAL

Source sequence(s)

BC158878

UniProtKB/TrEMBL

B0BNM3, M0R9L3

Related

ENSRNOP00000066186.4, ENSRNOT00000075268.4

Conserved Domains (3) summary

cd07285
Location:250 → 375

PX_SNX9; The phosphoinositide binding Phox Homology domain of Sorting Nexin 9

cd07668
Location:386 → 595

BAR_SNX9; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9

cd11898
Location:4 → 60

SH3_SNX9; Src Homology 3 domain of Sorting nexin 9

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_086019.1 Reference GRCr8

Range

48827061..48915215

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039090760.2 → XP_038946688.1 sorting nexin-9 isoform X1

UniProtKB/TrEMBL

A0A8I6GJY7

Related

ENSRNOP00000087544.2, ENSRNOT00000100236.2

Conserved Domains (4) summary

cd07285
Location:314 → 439

PX_SNX9; The phosphoinositide binding Phox Homology domain of Sorting Nexin 9

cd07668
Location:450 → 659

BAR_SNX9; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9

cd11898
Location:37 → 93

SH3_SNX9; Src Homology 3 domain of Sorting nexin 9

COG5391
Location:200 → 421

COG5391; Phox homology (PX) domain protein [Intracellular trafficking and secretion / General function prediction only]
XM_039090763.2 → XP_038946691.1 sorting nexin-9 isoform X2

UniProtKB/TrEMBL

A0A8I6A3C7, A0A8I6GJY7

Conserved Domains (4) summary

cd07285
Location:283 → 408

PX_SNX9; The phosphoinositide binding Phox Homology domain of Sorting Nexin 9

cd07668
Location:419 → 628

BAR_SNX9; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9

cd11898
Location:37 → 93

SH3_SNX9; Src Homology 3 domain of Sorting nexin 9

COG5391
Location:169 → 390

COG5391; Phox homology (PX) domain protein [Intracellular trafficking and secretion / General function prediction only]
XM_039090771.2 → XP_038946699.1 sorting nexin-9 isoform X3

UniProtKB/TrEMBL

M0R9L3

Related

ENSRNOP00000091916.2, ENSRNOT00000102774.2

Conserved Domains (4) summary

cd07285
Location:281 → 406

PX_SNX9; The phosphoinositide binding Phox Homology domain of Sorting Nexin 9

cd07668
Location:417 → 626

BAR_SNX9; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9

cd11898
Location:4 → 60

SH3_SNX9; Src Homology 3 domain of Sorting nexin 9

COG5391
Location:167 → 388

COG5391; Phox homology (PX) domain protein [Intracellular trafficking and secretion / General function prediction only]