Snx16 sorting nexin 16 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Snx16provided by RGD
Official Full Name: sorting nexin 16provided by RGD
Primary source: RGD:620295
See related: EnsemblRapid:ENSRNOG00000009953 AllianceGenome:RGD:620295
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 identical protein binding activity and phosphatidylinositol binding activity. Involved in early endosome to late endosome transport. Predicted to be located in intracellular membrane-bounded organelle. Predicted to be active in early endosome and late endosome. Predicted to be extrinsic component of endosome membrane. Orthologous to human SNX16 (sorting nexin 16). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 68.2), Kidney (RPKM 44.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q23

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (93242779..93265048)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (91335896..91357622)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (93518796..93541056)

Chromosome 2 - NC_086020.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

SNX16 directs the sorting of EGFR to the endosomal compartment and thus regulates EGF-induced cell signaling.
Title: Sorting nexin 16 regulates EGF receptor trafficking by phosphatidylinositol-3-phosphate interaction with the Phox domain.
SNX16 is a sorting nexin that may function in the trafficking of proteins between the early and late endosomal compartments
Title: Evidence for a role of SNX16 in regulating traffic between the early and later endosomal compartments.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables identical protein binding	IEA Inferred from Electronic Annotation 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	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

Process	Evidence Code	Pubs
involved_in early endosome to late endosome transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in early endosome to late endosome transport	IDA Inferred from Direct Assay more info	PubMed
involved_in early endosome to late endosome transport	IEA Inferred from Electronic Annotation more info
involved_in early endosome to late endosome transport	ISO Inferred from Sequence Orthology more info
involved_in endosome to lysosome transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in endosome to lysosome transport	IEA Inferred from Electronic Annotation more info
involved_in endosome to lysosome transport	ISO Inferred from Sequence Orthology more info
involved_in endosome to lysosome transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein targeting to lysosome	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein targeting to lysosome	IEA Inferred from Electronic Annotation more info
involved_in protein targeting to lysosome	ISO Inferred from Sequence Orthology more info
involved_in protein targeting to lysosome	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
is_active_in early endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in early endosome	IEA Inferred from Electronic Annotation more info
located_in early endosome	ISO Inferred from Sequence Orthology more info
located_in early endosome	ISS Inferred from Sequence or Structural Similarity more info
located_in early endosome membrane	IEA Inferred from Electronic Annotation more info
located_in endosome membrane	IEA Inferred from Electronic Annotation 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
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
is_active_in late endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in late endosome	IEA Inferred from Electronic Annotation more info
located_in late endosome	ISO Inferred from Sequence Orthology more info
located_in late endosome	ISS Inferred from Sequence or Structural Similarity more info
located_in late endosome membrane	IEA Inferred from Electronic Annotation more info
located_in lysosome	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: sorting nexin-16

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_022289.3 → NP_071625.2 sorting nexin-16

See identical proteins and their annotated locations for NP_071625.2

Status: PROVISIONAL

Source sequence(s)

BC061554

UniProtKB/Swiss-Prot

P57769, Q6P7R2

UniProtKB/TrEMBL

A6IH36

Related

ENSRNOP00000093980.2, ENSRNOT00000096600.2

Conserved Domains (1) summary

cd07276
Location:105 → 214

PX_SNX16; The phosphoinositide binding Phox Homology domain of Sorting Nexin 16

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_086020.1 Reference GRCr8

Range

93242779..93265048

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006232135.5 → XP_006232197.1 sorting nexin-16 isoform X1

UniProtKB/Swiss-Prot

P57769, Q6P7R2

UniProtKB/TrEMBL

A0A8L2QN20, A6IH36

Related

ENSRNOP00000041690.4, ENSRNOT00000050987.6

Conserved Domains (1) summary

cd07276
Location:105 → 214

PX_SNX16; The phosphoinositide binding Phox Homology domain of Sorting Nexin 16
XM_039103035.2 → XP_038958963.1 sorting nexin-16 isoform X2

Conserved Domains (1) summary

cd07276
Location:105 → 208

PX_SNX16; The phosphoinositide binding Phox Homology domain of Sorting Nexin 16