vps41 VPS41 subunit of HOPS complex [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: vps41provided by ZNC
Official Full Name: VPS41 subunit of HOPS complexprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-6671
See related: Ensembl:ENSDARG00000063573 AllianceGenome:ZFIN:ZDB-GENE-030131-6671
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: fa01f11; wu:fa01f11; si:ch211-146l10.2
Summary: Predicted to enable metal ion binding activity. Involved in endosome to lysosome transport. Acts upstream of or within vesicle-mediated transport. Predicted to be located in several cellular components, including Golgi apparatus; cytoplasmic vesicle; and lysosomal membrane. Predicted to be part of HOPS complex. Predicted to be active in late endosome. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 29. Orthologous to human VPS41 (VPS41 subunit of HOPS complex). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 24

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	24	NC_007135.7 (9895763..9960286, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	24	NC_007135.6 (9755679..9819934, complement)

Chromosome 24 - NC_007135.7 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: 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?

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within autophagy	IEA Inferred from Electronic Annotation more info
involved_in cellular response to starvation	IBA Inferred from Biological aspect of Ancestor more info
involved_in endosomal vesicle fusion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within endosomal vesicle fusion	IEA Inferred from Electronic Annotation more info
involved_in endosome to lysosome transport	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 intracellular transport	IEA Inferred from Electronic Annotation more info
involved_in macroautophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein targeting to vacuole	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within protein targeting to vacuole	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within vesicle-mediated transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within vesicle-mediated transport	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
part_of HOPS complex	IBA Inferred from Biological aspect of Ancestor more info
located_in clathrin-coated vesicle	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic vesicle	IEA Inferred from Electronic Annotation more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in early endosome membrane	IEA Inferred from Electronic Annotation more info
located_in endosome	IEA Inferred from Electronic Annotation more info
is_active_in late endosome	IBA Inferred from Biological aspect of Ancestor 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 41 homolog

Names: vacuolar protein sorting 41 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.