Vps33a VPS33A core subunit of CORVET and HOPS complexes [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Vps33aprovided by RGD
Official Full Name: VPS33A core subunit of CORVET and HOPS complexesprovided by RGD
Primary source: RGD:620643
See related: EnsemblRapid:ENSRNOG00000056889 AllianceGenome:RGD:620643
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
Also known as: r-Vps33a
Summary: Predicted to be involved in several processes, including autophagosome maturation; melanosome localization; and regulation of lysosomal lumen pH. Predicted to act upstream of or within pigmentation; platelet formation; and regulation of developmental pigmentation. Located in cytoplasmic vesicle. Orthologous to human VPS33A (VPS33A core subunit of CORVET and HOPS complexes). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 79.2), Brain (RPKM 78.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 12q16

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (38685484..38710668)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (33024596..33051399)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (38459816..38482903)

Chromosome 12 - NC_086030.1 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: 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

What's a GeneRIF?

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General gene information

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Markers

RH127390 (e-PCR)
- UniSTS:210700

AW554476 (e-PCR)
- UniSTS:179258

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in autophagosome maturation	IEA Inferred from Electronic Annotation more info
involved_in autophagosome maturation	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
involved_in endosome to lysosome transport	IEA Inferred from Electronic Annotation more info
involved_in endosome to lysosome transport	ISO Inferred from Sequence Orthology more info
involved_in intracellular protein transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in lysosome localization	IEA Inferred from Electronic Annotation more info
involved_in lysosome localization	ISO Inferred from Sequence Orthology more info
involved_in melanosome localization	IEA Inferred from Electronic Annotation more info
involved_in melanosome localization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within pigmentation	ISO Inferred from Sequence Orthology more info
involved_in platelet formation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within platelet formation	ISO Inferred from Sequence Orthology more info
involved_in regulation of developmental pigmentation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of developmental pigmentation	ISO Inferred from Sequence Orthology more info
involved_in regulation of lysosomal lumen pH	IEA Inferred from Electronic Annotation more info
involved_in regulation of lysosomal lumen pH	ISO Inferred from Sequence Orthology more info
involved_in regulation of lysosomal lumen pH	ISS Inferred from Sequence or Structural Similarity more info
involved_in vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within vesicle-mediated transport	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of AP-3 adaptor complex	IEA Inferred from Electronic Annotation more info
part_of AP-3 adaptor complex	ISO Inferred from Sequence Orthology more info
part_of CORVET complex	IBA Inferred from Biological aspect of Ancestor more info
part_of CORVET complex	IEA Inferred from Electronic Annotation more info
part_of CORVET complex	ISO Inferred from Sequence Orthology more info
part_of HOPS complex	IEA Inferred from Electronic Annotation more info
part_of HOPS complex	ISO Inferred from Sequence Orthology more info
located_in autophagosome	IEA Inferred from Electronic Annotation more info
located_in autophagosome	ISO Inferred from Sequence Orthology more info
located_in autophagosome	ISS Inferred from Sequence or Structural Similarity more info
part_of clathrin complex	IEA Inferred from Electronic Annotation more info
part_of clathrin complex	ISO Inferred from Sequence Orthology more info
located_in clathrin-coated vesicle	IEA Inferred from Electronic Annotation more info
located_in early endosome	IEA Inferred from Electronic Annotation more info
located_in early endosome	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 lysosomal membrane	IEA Inferred from Electronic Annotation more info
is_active_in lysosome	IBA Inferred from Biological aspect of Ancestor more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in lysosome	ISS Inferred from Sequence or Structural Similarity 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

General protein information

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Preferred Names: vacuolar protein sorting-associated protein 33A

Names: VPS33A CORVET/HOPS core subunit; vacuolar protein sorting 33 homolog A; vacuolar protein sorting 33A; vacuolar protein sorting protein 33a

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_022961.3 → NP_075250.2 vacuolar protein sorting-associated protein 33A

See identical proteins and their annotated locations for NP_075250.2

Status: PROVISIONAL

Source sequence(s)

BC105752

UniProtKB/Swiss-Prot

Q63615

UniProtKB/TrEMBL

A0A0G2K5N1, A0A9K3Y802, Q3KRF0

Related

ENSRNOP00000073489.2, ENSRNOT00000090343.3

Conserved Domains (1) summary

pfam00995
Location:34 → 585

Sec1; Sec1 family

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_086030.1 Reference GRCr8

Range

38685484..38710668

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039089725.2 → XP_038945653.1 vacuolar protein sorting-associated protein 33A isoform X1

Conserved Domains (1) summary

pfam00995
Location:34 → 435

Sec1; Sec1 family
XM_039089726.2 → XP_038945654.1 vacuolar protein sorting-associated protein 33A isoform X2

Conserved Domains (1) summary

pfam00995
Location:34 → 317

Sec1; Sec1 family