Vps16 VPS16 core subunit of CORVET and HOPS complexes [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Vps16provided by RGD
Official Full Name: VPS16 core subunit of CORVET and HOPS complexesprovided by RGD
Primary source: RGD:1359414
See related: EnsemblRapid:ENSRNOG00000021222 AllianceGenome:RGD:1359414
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: Enables actin filament binding activity. Predicted to be involved in several processes, including autophagosome maturation; endosome to lysosome transport; and vacuole fusion, non-autophagic. Predicted to act upstream of or within symbiont entry into host cell. Located in axon; endosome; and neuronal cell body. Is active in presynapse. Human ortholog(s) of this gene implicated in dystonia 30. Orthologous to human VPS16 (VPS16 core subunit of CORVET and HOPS complexes). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 174.3), Spleen (RPKM 154.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q36

Exon count:: 24

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (138075649..138097154)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (117622534..117644041)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (122947887..122969543)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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

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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 actin binding	IBA Inferred from Biological aspect of Ancestor more info
enables actin binding	ISO Inferred from Sequence Orthology more info
enables actin filament binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in autophagosome maturation	ISO Inferred from Sequence Orthology more info
involved_in endosomal transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in endosome to lysosome transport	ISO Inferred from Sequence Orthology more info
involved_in intracellular protein transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within symbiont entry into host cell	ISO Inferred from Sequence Orthology more info
involved_in vacuole fusion, non-autophagic	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of AP-3 adaptor complex	ISO Inferred from Sequence Orthology more info
part_of CORVET complex	ISO Inferred from Sequence Orthology more info
part_of HOPS complex	IBA Inferred from Biological aspect of Ancestor more info
part_of HOPS complex	ISO Inferred from Sequence Orthology more info
located_in actin filament	ISO Inferred from Sequence Orthology more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in clathrin-coated vesicle	ISO Inferred from Sequence Orthology more info
located_in early endosome	ISO Inferred from Sequence Orthology 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	IDA Inferred from Direct Assay more info	PubMed
located_in late endosome	ISO Inferred from Sequence Orthology more info
located_in late endosome membrane	IEA Inferred from Electronic Annotation more info
located_in lysosomal membrane	IEA Inferred from Electronic Annotation more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynapse	IMP Inferred from Mutant Phenotype more info	PubMed
located_in recycling endosome	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: vacuolar protein sorting-associated protein 16 homolog

Names: VPS16 CORVET/HOPS core subunit; vacuolar protein sorting 16 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.