Vps11 VPS11, CORVET/HOPS core subunit [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Vps11provided by MGI
Official Full Name: VPS11, CORVET/HOPS core subunitprovided by MGI
Primary source: MGI:MGI:1918982
See related: Ensembl:ENSMUSG00000032127 AllianceGenome:MGI:1918982
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: 1200011A11Rik
Summary: Predicted to enable several functions, including protein-macromolecule adaptor activity; syntaxin binding activity; and ubiquitin protein ligase activity. Acts upstream of or within toxin transport. Located in actin filament; early endosome; and presynaptic active zone. Part of AP-3 adaptor complex and CORVET complex. Human ortholog(s) of this gene implicated in hypomyelinating leukodystrophy 12. Orthologous to human VPS11 (VPS11 core subunit of CORVET and HOPS complexes). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in genital fat pad adult (RPKM 17.1), adrenal adult (RPKM 17.0) and 28 other tissues See more
Orthologs: human all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 9; 9 A5.2

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (44259046..44272970, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (44347749..44361673, complement)

Chromosome 9 - NC_000075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Characterization of the Expression of Vacuolar Protein Sorting 11 (Vps11) in Mammalian Oligodendrocytes.
Title: Characterization of the Expression of Vacuolar Protein Sorting 11 (Vps11) in Mammalian Oligodendrocytes.

Submit: New GeneRIF Correction

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (3)

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

STS-Z40836 (e-PCR)
- UniSTS:12041

RH127976 (e-PCR)
- UniSTS:211286

MARC_26154-26155:1030452349:1 (e-PCR)
- UniSTS:268960

MARC_7601-7602:992008552:1 (e-PCR)
- UniSTS:231352

MARC_7601-7602:996687999:1 (e-PCR)
- UniSTS:231352

Homology

Homologs of the Vps11 gene: The Vps11 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, rat, chicken, zebrafish, mosquito, M.oryzae, N.crassa, A.thaliana, rice, and frog.
Orthologs from Annotation Pipeline: 500 organisms have orthologs with human gene Vps11
Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info
enables protein-macromolecule adaptor activity	IBA Inferred from Biological aspect of Ancestor more info	PubMed
enables syntaxin binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within autophagy	IEA Inferred from Electronic Annotation more info
involved_in endosomal vesicle fusion	ISO Inferred from Sequence Orthology more info
involved_in endosome organization	IBA Inferred from Biological aspect of Ancestor more info	PubMed
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
involved_in negative regulation of intracellular estrogen receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in organelle fusion	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in positive regulation of early endosome to late endosome transport	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein transport	IEA Inferred from Electronic Annotation more info
involved_in protein ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in regulation of organelle assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within toxin transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vacuole organization	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in vesicle docking involved in exocytosis	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of AP-3 adaptor complex	IDA Inferred from Direct Assay more info	PubMed
part_of CORVET complex	IDA Inferred from Direct Assay more info	PubMed
part_of HOPS complex	IBA Inferred from Biological aspect of Ancestor more info	PubMed
part_of HOPS complex	ISO Inferred from Sequence Orthology more info
located_in actin filament	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasmic vesicle	IEA Inferred from Electronic Annotation more info
located_in early endosome	IDA Inferred from Direct Assay more info	PubMed
colocalizes_with early endosome	ISO Inferred from Sequence Orthology more info
located_in endocytic vesicle	ISO Inferred from Sequence Orthology more info
is_active_in endosome	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in endosome	ISO Inferred from Sequence Orthology more info
colocalizes_with late endosome	ISO Inferred from Sequence Orthology more info
located_in late endosome	ISO Inferred from Sequence Orthology more info
colocalizes_with lysosome	ISO Inferred from Sequence Orthology more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in presynaptic active zone	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic active zone	IPI Inferred from Physical Interaction more info	PubMed

General protein information

Go to the top of the page Help

Preferred Names: vacuolar protein sorting-associated protein 11 homolog

Names: vacuolar protein sorting 11

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001357393.1 → NP_001344322.1 vacuolar protein sorting-associated protein 11 homolog isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate splice junction compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.

Source sequence(s)

AC122428

Conserved Domains (3) summary

pfam00637
Location:55 → 174

Clathrin; Region in Clathrin and VPS

pfam12451
Location:502 → 545

VPS11_C; Vacuolar protein sorting protein 11 C terminal

cd16688
Location:458 → 501

RING-H2_Vps11; RING finger, H2 subclass, found in vacuolar protein sorting-associated protein 11 homolog (Vps11) and similar proteins
NM_027889.2 → NP_082165.1 vacuolar protein sorting-associated protein 11 homolog isoform 1

See identical proteins and their annotated locations for NP_082165.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).

Source sequence(s)

AC122428, AK004695, BC029004

Consensus CDS

CCDS40599.1

UniProtKB/Swiss-Prot

Q91W86, Q9DBX8

Related

ENSMUSP00000034644.9, ENSMUST00000034644.10

Conserved Domains (5) summary

smart00299
Location:411 → 535

CLH; Clathrin heavy chain repeat homology

cd00162
Location:821 → 860

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

pfam00637
Location:417 → 536

Clathrin; Region in Clathrin and VPS

pfam12451
Location:862 → 907

VPS11_C; Vacuolar protein sorting protein 11 C terminal

cl02567
Location:142 → 292

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...