Vps4a vacuolar protein sorting 4 homolog A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Vps4aprovided by RGD
Official Full Name: vacuolar protein sorting 4 homolog Aprovided by RGD
Primary source: RGD:628810
See related: Ensembl:ENSRNOG00000020351 AllianceGenome:RGD:628810
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
Summary: Enables small GTPase binding activity. Predicted to be involved in several processes, including negative regulation of cell cycle process; proteolysis involved in cellular protein catabolic process; and vesicle organization. Located in early endosome. Orthologous to human VPS4A (vacuolar protein sorting 4 homolog A). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 252.3), Muscle (RPKM 204.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 19q12

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	19	NC_086037.1 (51838411..51858639)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	19	NC_051354.1 (34934999..34948888)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	19	NC_005118.4 (39230050..39243298)

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?

Vps4A was involved in promoting neuronal apoptosis via inhibiting Akt phosphorylation after intracerebral hemorrhage
Title: Up-regulation of Vps4A promotes neuronal apoptosis after intracerebral hemorrhage in adult rats.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH129713 (e-PCR)
- UniSTS:213008

AI325971 (e-PCR)
- UniSTS:159810

AW553189 (e-PCR)
- UniSTS:185955

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP binding	ISO Inferred from Sequence Orthology more info
enables ATP hydrolysis activity	IBA Inferred from Biological aspect of Ancestor more info
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation more info
enables ATP hydrolysis activity	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	IEA Inferred from Electronic Annotation more info
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info
enables small GTPase binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in abscission	IEA Inferred from Electronic Annotation more info
involved_in abscission	ISO Inferred from Sequence Orthology more info
involved_in abscission	ISS Inferred from Sequence or Structural Similarity more info
involved_in cell division	ISO Inferred from Sequence Orthology more info
involved_in endosomal transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in endosomal transport	IC Inferred by Curator more info	PubMed
involved_in endosomal transport	IEA Inferred from Electronic Annotation more info
involved_in endosomal transport	ISO Inferred from Sequence Orthology more info
involved_in endosomal vesicle fusion	IEA Inferred from Electronic Annotation more info
involved_in endosomal vesicle fusion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within endosome organization	ISO Inferred from Sequence Orthology more info
involved_in intracellular cholesterol transport	IEA Inferred from Electronic Annotation more info
involved_in intracellular cholesterol transport	ISO Inferred from Sequence Orthology more info
involved_in late endosomal microautophagy	IEA Inferred from Electronic Annotation more info
involved_in late endosomal microautophagy	ISO Inferred from Sequence Orthology more info
involved_in midbody abscission	IEA Inferred from Electronic Annotation more info
involved_in midbody abscission	ISO Inferred from Sequence Orthology more info
involved_in mitotic cytokinesis checkpoint signaling	IEA Inferred from Electronic Annotation more info
involved_in mitotic cytokinesis checkpoint signaling	ISO Inferred from Sequence Orthology more info
involved_in mitotic cytokinesis checkpoint signaling	ISS Inferred from Sequence or Structural Similarity more info
involved_in mitotic metaphase chromosome alignment	IEA Inferred from Electronic Annotation more info
involved_in mitotic metaphase chromosome alignment	ISO Inferred from Sequence Orthology more info
involved_in multivesicular body assembly	IEA Inferred from Electronic Annotation more info
involved_in multivesicular body assembly	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cytokinesis	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cytokinesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cytokinesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in nucleus organization	IEA Inferred from Electronic Annotation more info
involved_in nucleus organization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of exosomal secretion	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of exosomal secretion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of viral budding via host ESCRT complex	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of viral budding via host ESCRT complex	ISO Inferred from Sequence Orthology more info
involved_in protein targeting to lysosome	IEA Inferred from Electronic Annotation more info
involved_in protein targeting to lysosome	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein localization	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein localization to plasma membrane	IEA Inferred from Electronic Annotation more info
involved_in regulation of protein localization to plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	IEA Inferred from Electronic Annotation more info
involved_in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	ISO Inferred from Sequence Orthology more info
involved_in ubiquitin-independent protein catabolic process via the multivesicular body sorting pathway	IEA Inferred from Electronic Annotation more info
involved_in ubiquitin-independent protein catabolic process via the multivesicular body sorting pathway	ISO Inferred from Sequence Orthology more info
involved_in vacuole organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle budding from membrane	IEA Inferred from Electronic Annotation more info
involved_in vesicle budding from membrane	ISO Inferred from Sequence Orthology more info
involved_in vesicle uncoating	IEA Inferred from Electronic Annotation more info
involved_in vesicle uncoating	ISO Inferred from Sequence Orthology more info
involved_in vesicle-mediated transport	ISO Inferred from Sequence Orthology more info
involved_in viral budding from plasma membrane	IEA Inferred from Electronic Annotation more info
involved_in viral budding from plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in viral budding via host ESCRT complex	IEA Inferred from Electronic Annotation more info
involved_in viral budding via host ESCRT complex	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in Flemming body	IEA Inferred from Electronic Annotation more info
located_in Flemming body	ISO Inferred from Sequence Orthology more info
located_in centrosome	IEA Inferred from Electronic Annotation more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in early endosome	IDA Inferred from Direct Assay more info	PubMed
located_in early endosome	IEA Inferred from Electronic Annotation 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
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 lysosome	IEA Inferred from Electronic Annotation more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in midbody	ISO Inferred from Sequence Orthology more info
located_in midbody	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in spindle pole	IEA Inferred from Electronic Annotation more info
located_in spindle pole	ISO Inferred from Sequence Orthology more info
located_in vacuolar membrane	IEA Inferred from Electronic Annotation more info
located_in vacuolar membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: vacuolar protein sorting-associated protein 4A

Names: vacuolar protein sorting 4a; vacuolar protein sorting protein 4a

NP_663711.1

EC 3.6.4.6

XP_006255622.3

EC 3.6.4.6

XP_063133856.1

EC 3.6.4.6

XP_063133857.1

EC 3.6.4.6

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.

mRNA and Protein(s)

NM_145678.2 → NP_663711.1 vacuolar protein sorting-associated protein 4A

See identical proteins and their annotated locations for NP_663711.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000019

UniProtKB/Swiss-Prot

Q793F9

UniProtKB/TrEMBL

A6IYY4, Q6IRG3

Related

ENSRNOP00000046690.4, ENSRNOT00000050612.6

Conserved Domains (3) summary

PTZ00454
Location:4 → 348

PTZ00454; 26S protease regulatory subunit 6B-like protein; Provisional

pfam09336
Location:374 → 434

Vps4_C; Vps4 C terminal oligomerization domain

cd19521
Location:121 → 291

RecA-like_VPS4; ATPase domain of vacuolar protein sorting-associated protein 4

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086037.1 Reference GRCr8

Range

51838411..51858639

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063277787.1 → XP_063133857.1 vacuolar protein sorting-associated protein 4A isoform X2

UniProtKB/TrEMBL

F7F1Y3, Q6IRG3
XM_063277786.1 → XP_063133856.1 vacuolar protein sorting-associated protein 4A isoform X2

UniProtKB/TrEMBL

F7F1Y3, Q6IRG3
XM_006255560.4 → XP_006255622.3 vacuolar protein sorting-associated protein 4A isoform X1

UniProtKB/TrEMBL

Q6IRG3