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Vps33b VPS33B, late endosome and lysosome associated [ Rattus norvegicus (Norway rat) ]

Gene ID: 64060, updated on 2-Nov-2024

Summary

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Official Symbol
Vps33bprovided by RGD
Official Full Name
VPS33B, late endosome and lysosome associatedprovided by RGD
Primary source
RGD:620644
See related
EnsemblRapid:ENSRNOG00000013149 AllianceGenome:RGD:620644
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
Summary
Predicted to be involved in several processes, including megakaryocyte development; skin morphogenesis; and vesicle organization. Predicted to act upstream of or within collagen fibril organization; collagen metabolic process; and peptidyl-lysine hydroxylation. Is active in synaptic vesicle. Human ortholog(s) of this gene implicated in arthrogryposis multiplex congenita; arthrogryposis, renal dysfunction, and cholestasis 1; cholestasis; kidney disease; and progressive familial intrahepatic cholestasis. Orthologous to human VPS33B (VPS33B late endosome and lysosome associated). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 61.5), Thymus (RPKM 60.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Vps33b in Genome Data Viewer
Location:
1q31
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (143633167..143656228)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (134223967..134247232)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (142060955..142083955)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene GDP-D-glucose phosphorylase 1 Neighboring gene tubulin tyrosine ligase like 13 Neighboring gene neugrin, neurite outgrowth associated Neighboring gene small nucleolar RNA SNORA48 Neighboring gene protein regulator of cytokinesis 1 Neighboring gene RCC1 domain containing 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Requirement of VPS33B, a member of the Sec1/Munc18 protein family, in megakaryocyte and platelet alpha-granule biogenesis. Lo B, et al. Blood, 2005 Dec 15. PMID 16123220
  2. VPS33B regulates protein sorting into and maturation of α-granule progenitor organelles in mouse megakaryocytes. Bem D, et al. Blood, 2015 Jul 9. PMID 25947942, Free PMC Article
  3. Vps33b pathogenic mutations preferentially affect VIPAS39/SPE-39-positive endosomes. Tornieri K, et al. Hum Mol Genet, 2013 Dec 20. PMID 23918659, Free PMC Article
  4. Mutations in VPS33B, encoding a regulator of SNARE-dependent membrane fusion, cause arthrogryposis-renal dysfunction-cholestasis (ARC) syndrome. Gissen P, et al. Nat Genet, 2004 Apr. PMID 15052268
  5. Comparative evolutionary analysis of VPS33 homologues: genetic and functional insights. Gissen P, et al. Hum Mol Genet, 2005 May 15. PMID 15790593

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • MGC93106

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
  
NOT enables syntaxin binding IDA
Inferred from Direct Assay
more info
 PubMed 
NOT enables syntaxin-3 binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
NOT involved_in autophagosome maturation ISO
Inferred from Sequence Orthology
more info
  
involved_in biological_process ND
No biological Data available
more info
  
acts_upstream_of_or_within collagen fibril organization ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within collagen metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in endosome organization ISO
Inferred from Sequence Orthology
more info
  
NOT 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
  
acts_upstream_of_or_within intracellular protein transport ISO
Inferred from Sequence Orthology
more info
  
involved_in lysosome localization ISO
Inferred from Sequence Orthology
more info
  
involved_in megakaryocyte development ISO
Inferred from Sequence Orthology
more info
  
involved_in melanosome localization ISO
Inferred from Sequence Orthology
more info
  
involved_in membrane fusion ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within peptidyl-lysine hydroxylation ISO
Inferred from Sequence Orthology
more info
  
involved_in platelet alpha granule organization ISO
Inferred from Sequence Orthology
more info
  
involved_in protein transport ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of platelet aggregation ISO
Inferred from Sequence Orthology
more info
  
involved_in skin morphogenesis ISO
Inferred from Sequence Orthology
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
  
involved_in vesicle-mediated transport NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
part_of CORVET complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
  
NOT part_of HOPS complex ISO
Inferred from Sequence Orthology
more info
  
part_of HOPS complex ISO
Inferred from Sequence Orthology
more info
  
located_in clathrin-coated vesicle IEA
Inferred from Electronic Annotation
more info
  
located_in clathrin-coated vesicle ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in early endosome membrane ISO
Inferred from Sequence Orthology
more info
  
located_in 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 perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in platelet alpha granule ISO
Inferred from Sequence Orthology
more info
  
located_in recycling endosome IEA
Inferred from Electronic Annotation
more info
  
is_active_in synaptic vesicle EXP
Inferred from Experiment
more info
 PubMed 
is_active_in synaptic vesicle IDA
Inferred from Direct Assay
more info
 PubMed 
part_of vesicle tethering complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
vacuolar protein sorting-associated protein 33B
Names
r-vps33b
vacuolar protein sorting 33 homolog B
vacuolar protein sorting 33B
vacuolar protein sorting homolog r-vps33b

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)

  1. NM_022286.2 → NP_071622.1  vacuolar protein sorting-associated protein 33B

    See identical proteins and their annotated locations for NP_071622.1

    Status: PROVISIONAL

    Source sequence(s)
    BC081707
    UniProtKB/Swiss-Prot
    Q63616
    UniProtKB/TrEMBL
    A0A8I6A9B4, A6JC94
    Related
    ENSRNOP00000017862.4, ENSRNOT00000017862.6
    Conserved Domains (1) summary
    pfam00995
    Location:37 → 405
    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

  1. NC_086019.1 Reference GRCr8

    Range
    143633167..143656228
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063272731.1 → XP_063128801.1  vacuolar protein sorting-associated protein 33B isoform X3

  2. XM_063272729.1 → XP_063128799.1  vacuolar protein sorting-associated protein 33B isoform X1

  3. XM_039089465.2 → XP_038945393.1  vacuolar protein sorting-associated protein 33B isoform X2

    Conserved Domains (1) summary
    pfam00995
    Location:2 → 451
    Sec1; Sec1 family

RNA

  1. XR_010057140.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q63616.1 GenPept UniProtKB/Swiss-Prot:Q63616

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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