Sort1 sortilin 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sort1provided by RGD
Official Full Name: sortilin 1provided by RGD
Primary source: RGD:619999
See related: EnsemblRapid:ENSRNOG00000031814 AllianceGenome:RGD:619999
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Nt3; Nts3
Summary: Predicted to enable several functions, including nerve growth factor binding activity; nerve growth factor receptor activity; and neurotensin receptor activity, non-G protein-coupled. Involved in positive regulation of epithelial cell apoptotic process. Located in several cellular components, including dendrite; neuronal cell body; and plasma membrane. Is integral component of membrane. Orthologous to human SORT1 (sortilin 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 454.1), Lung (RPKM 384.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (198609466..198690481)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (195924033..196002354)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (211078092..211156312)

Chromosome 2 - NC_086020.1 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?

Sortilin inhibition in microglial cells cannot alleviate ischemia and hypoxia-induced neuronal injury in co-culture.
Title: Sortilin inhibition in microglial cells cannot alleviate ischemia and hypoxia-induced neuronal injury in co-culture.
Sortilin knock-down alters the expression and distribution of cathepsin D and prosaposin and up-regulates the cation-dependent mannose-6-phosphate receptor in rat epididymal cells.
Title: Sortilin knock-down alters the expression and distribution of cathepsin D and prosaposin and up-regulates the cation-dependent mannose-6-phosphate receptor in rat epididymal cells.
Sortilin regulates blood-brain barrier integrity.
Title: Sortilin regulates blood-brain barrier integrity.
A luciferase reporter assay confirmed that SORT1 is the direct target of miR-182. Our study suggests that SORT1 plays a vital role in the development of arterial calcification and is regulated by miR-182.
Title: The miR-182/SORT1 axis regulates vascular smooth muscle cell calcification in vitro and in vivo.
Data suggest that sortilin expression in both gastrocnemius and extensor digitorum longus muscle is down-regulated by 17-18h of fasting/food deprivation; pathological levels of high blood glucose, as in streptozotocin-induced diabetes, do not alter sortilin expression in skeletal muscle; sortilin expression is elevated during differentiation of myocyte cell line or in presence of high concentration of glucose.
Title: Glucose deprivation attenuates sortilin levels in skeletal muscle cells.
Reduced sortilin levels associate with lower VLDL apo B secretion. Sortilin facilitates VLDL-B100 secretion by insulin sensitive McArdle RH7777 cells.
Title: Sortilin facilitates VLDL-B100 secretion by insulin sensitive McArdle RH7777 cells.
Compared to the rats in the control group, the rats in the HF group had the expression levels of 12 genes with significant changes, Agrp, Ghrl, and Nr3c1, Apoa4, Cntf, Ghr, IL-1beta, Ins1, Lepr,Sort, Adcyap1r1 and Adrb1.
Title: Green tea polyphenols reduce body weight in rats by modulating obesity-related genes.
sortilin expression characterizes human atheromatous lesions and rat aortic post-injury neointima, and suggest that sortilin represents an important regulator of proNGF-induced SMC apoptosis and arterial remodeling.
Title: Sortilin expression is essential for pro-nerve growth factor-induced apoptosis of rat vascular smooth muscle cells.
the regulation of sortilin shedding and identify a novel mechanism by which sortilin ectodomain shedding acts as a regulatory switch for delivery of BDNF to the secretory pathway or to the lysosome, thus modulating the bioavailability of endogenous BDNF.
Title: Neuronal brain-derived neurotrophic factor is synthesized in excess, with levels regulated by sortilin-mediated trafficking and lysosomal degradation.
Results suggest that proneurotrophin-3 and proBDNF may play important roles in the response to noise-induced injuries or ototoxic damage via the Sortilin:p75(NTR) death-signalling complex.
Title: Proneurotrophin-3 may induce Sortilin-dependent death in inner ear neurons.

Submit: New GeneRIF Correction See all GeneRIFs (15)

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables G protein-coupled neurotensin receptor activity	TAS Traceable Author Statement more info	PubMed
enables enzyme binding	IEA Inferred from Electronic Annotation more info
enables enzyme binding	ISO Inferred from Sequence Orthology more info
enables nerve growth factor binding	IEA Inferred from Electronic Annotation more info
enables nerve growth factor binding	ISO Inferred from Sequence Orthology more info
enables nerve growth factor receptor activity	IEA Inferred from Electronic Annotation more info
enables nerve growth factor receptor activity	ISO Inferred from Sequence Orthology more info
enables neurotensin receptor activity, non-G protein-coupled	IEA Inferred from Electronic Annotation more info
enables neurotensin receptor activity, non-G protein-coupled	ISO Inferred from Sequence Orthology more info
enables retromer complex binding	IEA Inferred from Electronic Annotation more info
enables retromer complex binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in G protein-coupled receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in Golgi to endosome transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in Golgi to endosome transport	IEA Inferred from Electronic Annotation more info
involved_in Golgi to endosome transport	ISO Inferred from Sequence Orthology more info
involved_in Golgi to lysosome transport	IEA Inferred from Electronic Annotation more info
involved_in Golgi to lysosome transport	ISO Inferred from Sequence Orthology more info
involved_in Golgi to lysosome transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in endocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in endocytosis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within endocytosis	ISO Inferred from Sequence Orthology more info
involved_in endocytosis	ISO Inferred from Sequence Orthology more info
involved_in endocytosis	ISS Inferred from Sequence or Structural Similarity 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 transport via multivesicular body sorting pathway	IEA Inferred from Electronic Annotation more info
involved_in endosome transport via multivesicular body sorting pathway	ISO Inferred from Sequence Orthology more info
involved_in extrinsic apoptotic signaling pathway via death domain receptors	IEA Inferred from Electronic Annotation more info
involved_in extrinsic apoptotic signaling pathway via death domain receptors	ISO Inferred from Sequence Orthology more info
involved_in glucose import	IEA Inferred from Electronic Annotation more info
involved_in glucose import	ISO Inferred from Sequence Orthology more info
involved_in intracellular protein transport	NAS Non-traceable Author Statement more info	PubMed
involved_in maintenance of synapse structure	IEA Inferred from Electronic Annotation more info
involved_in maintenance of synapse structure	ISO Inferred from Sequence Orthology more info
involved_in myotube differentiation	IEA Inferred from Electronic Annotation more info
involved_in myotube differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of fat cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of fat cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in nerve growth factor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in neuropeptide signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in neuropeptide signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in neurotrophin TRK receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in neurotrophin TRK receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in ossification	IEA Inferred from Electronic Annotation more info
involved_in plasma membrane to endosome transport	IEA Inferred from Electronic Annotation more info
involved_in plasma membrane to endosome transport	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of epithelial cell apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein targeting to lysosome	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein targeting to lysosome	ISO Inferred from Sequence Orthology more info
involved_in regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in response to insulin	IEA Inferred from Electronic Annotation more info
involved_in response to insulin	ISO Inferred from Sequence Orthology more info
involved_in vesicle organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle organization	IEA Inferred from Electronic Annotation more info
involved_in vesicle organization	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in Golgi apparatus	IBA Inferred from Biological aspect of Ancestor more info
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in Golgi apparatus	ISS Inferred from Sequence or Structural Similarity more info
located_in Golgi cisterna membrane	IEA Inferred from Electronic Annotation more info
located_in cell surface	IEA Inferred from Electronic Annotation more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in cerebellar climbing fiber to Purkinje cell synapse	IEA Inferred from Electronic Annotation more info
is_active_in cerebellar climbing fiber to Purkinje cell synapse	ISO Inferred from Sequence Orthology more info
located_in clathrin-coated pit	IEA Inferred from Electronic Annotation more info
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 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
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in early endosome	IEA Inferred from Electronic Annotation more info
located_in early endosome	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum 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 lysosomal membrane	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 lysosome	ISS Inferred from Sequence or Structural Similarity more info
is_active_in membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in nuclear membrane	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in trans-Golgi network transport vesicle	IEA Inferred from Electronic Annotation more info
located_in trans-Golgi network transport vesicle	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: sortilin

Names: NTR3; glycoprotein 110; gp110; neurotensin receptor 3

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_031767.1 → NP_113955.1 sortilin precursor

See identical proteins and their annotated locations for NP_113955.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

O35389, O54861

UniProtKB/TrEMBL

A0A8L2QPF6

Related

ENSRNOP00000082085.1, ENSRNOT00000108279.2

Conserved Domains (2) summary

smart00602
Location:131 → 739

VPS10; VPS10 domain

pfam15901
Location:572 → 739

Sortilin_C; Sortilin, neurotensin receptor 3, C-terminal

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

198609466..198690481

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006233194.5 → XP_006233256.1 sortilin isoform X1

UniProtKB/TrEMBL

A0A8I6G6Z1

Related

ENSRNOP00000051102.7, ENSRNOT00000049127.7

Conserved Domains (2) summary

smart00602
Location:188 → 796

VPS10; VPS10 domain

pfam15901
Location:629 → 796

Sortilin_C; Sortilin, neurotensin receptor 3, C-terminal
XM_006233195.5 → XP_006233257.1 sortilin isoform X2

UniProtKB/TrEMBL

A0A8I6G6Z1

Conserved Domains (2) summary

smart00602
Location:188 → 795

VPS10; VPS10 domain

pfam15901
Location:628 → 795

Sortilin_C; Sortilin, neurotensin receptor 3, C-terminal
XM_006233196.5 → XP_006233258.3 sortilin isoform X3

UniProtKB/TrEMBL

A0A8I6G6Z1

Conserved Domains (1) summary

smart00602
Location:188 → 795

VPS10; VPS10 domain