vps16 VPS16 core subunit of CORVET and HOPS complexes [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: vps16provided by ZNC
Official Full Name: VPS16 core subunit of CORVET and HOPS complexesprovided by ZNC
Primary source: ZFIN:ZDB-GENE-050809-9
See related: Ensembl:ENSDARG00000059902 AllianceGenome:ZFIN:ZDB-GENE-050809-9
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: im:6907749; wu:fc34a07; wu:fl62a06; zgc:162584
Summary: Predicted to enable actin binding activity. Acts upstream of or within several processes, including habituation; regulation of myelination; and swimming behavior. Predicted to be located in early endosome; late endosome membrane; and lysosomal membrane. Predicted to be part of HOPS complex. Predicted to be active in endosome. Used to study lysosomal storage disease. 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, Jan 2025]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 6

Exon count:: 22

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	6	NC_007117.7 (9107063..9130839)
105	previous assembly	GRCz10 (GCF_000002035.5)	6	NC_007117.6 (8871524..8895300)

Chromosome 6 - NC_007117.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Hypomyelinated vps16 Mutant Zebrafish Exhibit Systemic and Neurodevelopmental Pathologies.
Title: Hypomyelinated vps16 Mutant Zebrafish Exhibit Systemic and Neurodevelopmental Pathologies.
Bi-allelic VPS16 variants limit HOPS/CORVET levels and cause a mucopolysaccharidosis-like disease.
Title: Bi-allelic VPS16 variants limit HOPS/CORVET levels and cause a mucopolysaccharidosis-like disease.

Submit: New GeneRIF Correction

General gene information

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Markers

fi03g07.y1 (e-PCR)
- UniSTS:196623

fb93e03.x1 (e-PCR)
- UniSTS:191791

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables actin binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in endosomal transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within habituation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within intracellular protein transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within lysosome organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within myelination	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of myelination	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of neural retina development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within swimming behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vacuole fusion, non-autophagic	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within vacuole organization	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of CORVET complex	IEA Inferred from Electronic Annotation more info
part_of HOPS complex	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in early endosome	IEA Inferred from Electronic Annotation more info
is_active_in endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in endosome	IEA Inferred from Electronic Annotation 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	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: vacuolar protein sorting-associated protein 16 homolog

Names: vacuolar protein sorting 16 homolog; vacuolar protein sorting protein 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.