Vps35 VPS35 retromer complex component [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Vps35provided by RGD
Official Full Name: VPS35 retromer complex componentprovided by RGD
Primary source: RGD:1589784
See related: Ensembl:ENSRNOG00000017612 AllianceGenome:RGD:1589784
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: Mem3
Summary: Predicted to enable D1 dopamine receptor binding activity. Involved in retrograde transport, endosome to Golgi. Located in cytosol. Part of retromer complex. Human ortholog(s) of this gene implicated in Parkinson's disease and Parkinson's disease 17. Orthologous to human VPS35 (VPS35 retromer complex component). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 689.1), Brain (RPKM 530.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 19q11

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	19	NC_086037.1 (37938989..37974887)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	19	NC_051354.1 (21765771..21801620)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	19	NC_005118.4 (27464937..27500636)

Chromosome 19 - NC_086037.1 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?

Unveiling Neuroprotection and Regeneration Mechanisms in Optic Nerve Injury: Insight from Neural Progenitor Cell Therapy with Focus on Vps35 and Syntaxin12.
Title: Unveiling Neuroprotection and Regeneration Mechanisms in Optic Nerve Injury: Insight from Neural Progenitor Cell Therapy with Focus on Vps35 and Syntaxin12.
VPS35 and alpha-Synuclein fail to interact to modulate neurodegeneration in rodent models of Parkinson's disease.
Title: VPS35 and α-Synuclein fail to interact to modulate neurodegeneration in rodent models of Parkinson's disease.
our results show that Vps35 interacts with AQP2c, and depletion of Vps35 is likely to be associated with decreased AQP2 trafficking and increased lysosomal degradation of AQP2 protein.
Title: Depletion of vacuolar protein sorting-associated protein 35 is associated with increased lysosomal degradation of aquaporin-2.
these data are consistent with roles of Vps35 and Nbea in the retrieval and post-Golgi trafficking of synaptic glycine receptor beta-subunit and possibly other neurotransmitter receptors.
Title: The trafficking proteins Vacuolar Protein Sorting 35 and Neurobeachin interact with the glycine receptor β-subunit.
rat Vps35 dominant negative behavior in yeast requires a conserved PRLYL motif involved in retromer assembly
Title: Dominant-negative behavior of mammalian Vps35 in yeast requires a conserved PRLYL motif involved in retromer assembly.

Submit: New GeneRIF Correction

General gene information

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Markers

AI647796 (e-PCR)
- UniSTS:179777

Vps35 (e-PCR), detects polymorphism
- UniSTS:273732

Mem3 (e-PCR), detects polymorphism
- UniSTS:143859

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables D1 dopamine receptor binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in endocytic recycling	ISO Inferred from Sequence Orthology more info
involved_in intracellular protein transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in lysosome organization	ISO Inferred from Sequence Orthology more info
involved_in mitochondrial fragmentation involved in apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in mitochondrion to lysosome vesicle-mediated transport	ISO Inferred from Sequence Orthology more info
involved_in modulation of chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of inflammatory response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of late endosome to lysosome transport	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of lysosomal protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protein homooligomerization	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of protein localization	ISO Inferred from Sequence Orthology more info
involved_in neurotransmitter receptor transport, endosome to plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in neurotransmitter receptor transport, endosome to postsynaptic membrane	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of Wnt protein secretion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of dopamine biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of dopamine receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of locomotion involved in locomotory behavior	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitochondrial fission	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein localization to cell periphery	ISO Inferred from Sequence Orthology more info
involved_in protein destabilization	ISO Inferred from Sequence Orthology more info
involved_in protein localization to endosome	ISO Inferred from Sequence Orthology more info
involved_in protein localization to organelle	ISO Inferred from Sequence Orthology more info
involved_in regulation of dendritic spine maintenance	ISO Inferred from Sequence Orthology more info
involved_in regulation of mitochondrion organization	ISO Inferred from Sequence Orthology more info
involved_in regulation of postsynapse assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein metabolic process	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein stability	ISO Inferred from Sequence Orthology more info
involved_in regulation of synapse maturation	ISO Inferred from Sequence Orthology more info
involved_in regulation of terminal button organization	ISO Inferred from Sequence Orthology more info
involved_in retrograde transport, endosome to Golgi	IBA Inferred from Biological aspect of Ancestor more info
involved_in retrograde transport, endosome to Golgi	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in retrograde transport, endosome to Golgi	ISO Inferred from Sequence Orthology more info
involved_in transcytosis	ISO Inferred from Sequence Orthology more info
involved_in vesicle-mediated transport in synapse	ISO Inferred from Sequence Orthology more info
involved_in voluntary musculoskeletal movement	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in dopaminergic synapse	ISO Inferred from Sequence Orthology more info
located_in early endosome	ISO Inferred from Sequence Orthology more info
located_in endosome	ISO Inferred from Sequence Orthology more info
located_in endosome membrane	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in late endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in mitochondrion-derived vesicle	ISO Inferred from Sequence Orthology more info
located_in neuron projection	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in postsynapse	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info
is_active_in presynapse	ISO Inferred from Sequence Orthology more info
part_of retromer complex	IBA Inferred from Biological aspect of Ancestor more info
part_of retromer complex	IDA Inferred from Direct Assay more info	PubMed
part_of retromer complex	ISO Inferred from Sequence Orthology more info
part_of retromer, cargo-selective complex	ISO Inferred from Sequence Orthology more info
located_in synapse	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: vacuolar protein sorting-associated protein 35

Names: Maternal embryonic message 3; vacuolar protein sorting 35 homolog

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.