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

    Gene ID: 64060, updated on 9-Oct-2018

    Summary

    Official Symbol
    Vps33bprovided by RGD
    Official Full Name
    VPS33B, late endosome and lysosome associatedprovided by RGD
    Primary source
    RGD:620644
    See related
    Ensembl:ENSRNOG00000013149
    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
    role in vesicle-mediated protein trafficking to lysosomal compartments and in membrane docking/fusion [RGD, Feb 2006]
    Expression
    Biased expression in Spleen (RPKM 61.5), Thymus (RPKM 60.9) and 9 other tissues See more
    Orthologs

    Genomic context

    See Vps33b in Genome Data Viewer
    Location:
    1q31
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (142060955..142083955)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 1 NC_005100.3 (143013798..143036707)

    Chromosome 1 - NC_005100.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102549117 Neighboring gene tubulin tyrosine ligase-like family, member 13 Neighboring gene neugrin, neurite outgrowth associated Neighboring gene protein regulator of cytokinesis 1 Neighboring gene RCC1 domain containing 1

    Genomic regions, transcripts, and products

    Expression

    • 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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Homology

    Clone Names

    • MGC93106

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    NOT syntaxin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    NOT syntaxin-3 binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    NOT autophagosome maturation ISO
    Inferred from Sequence Orthology
    more info
     
    biological_process ND
    No biological Data available
    more info
     
    collagen fibril organization IEA
    Inferred from Electronic Annotation
    more info
     
    collagen fibril organization ISO
    Inferred from Sequence Orthology
    more info
     
    collagen metabolic process IEA
    Inferred from Electronic Annotation
    more info
     
    collagen metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    endosome organization ISO
    Inferred from Sequence Orthology
    more info
     
    NOT endosome to lysosome transport ISO
    Inferred from Sequence Orthology
    more info
     
    intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    intracellular protein transport ISO
    Inferred from Sequence Orthology
    more info
     
    lysosome localization ISO
    Inferred from Sequence Orthology
    more info
     
    megakaryocyte development IEA
    Inferred from Electronic Annotation
    more info
     
    megakaryocyte development ISO
    Inferred from Sequence Orthology
    more info
     
    melanosome localization ISO
    Inferred from Sequence Orthology
    more info
     
    membrane fusion ISO
    Inferred from Sequence Orthology
    more info
     
    peptidyl-lysine hydroxylation IEA
    Inferred from Electronic Annotation
    more info
     
    peptidyl-lysine hydroxylation ISO
    Inferred from Sequence Orthology
    more info
     
    platelet alpha granule organization IEA
    Inferred from Electronic Annotation
    more info
     
    platelet alpha granule organization ISO
    Inferred from Sequence Orthology
    more info
     
    protein transport ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of platelet aggregation IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of platelet aggregation ISO
    Inferred from Sequence Orthology
    more info
     
    vesicle docking involved in exocytosis IEA
    Inferred from Electronic Annotation
    more info
     
    vesicle-mediated transport ISO
    Inferred from Sequence Orthology
    more info
     
    vesicle-mediated transport NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    colocalizes_with AP-3 adaptor complex ISO
    Inferred from Sequence Orthology
    more info
     
    Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
     
    HOPS complex ISO
    Inferred from Sequence Orthology
    more info
     
    NOT HOPS complex ISO
    Inferred from Sequence Orthology
    more info
     
    cellular_component ND
    No biological Data available
    more info
     
    colocalizes_with clathrin complex ISO
    Inferred from Sequence Orthology
    more info
     
    clathrin-coated vesicle IEA
    Inferred from Electronic Annotation
    more info
     
    clathrin-coated vesicle ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    early endosome IEA
    Inferred from Electronic Annotation
    more info
     
    early endosome membrane ISO
    Inferred from Sequence Orthology
    more info
     
    late endosome ISO
    Inferred from Sequence Orthology
    more info
     
    late endosome membrane IEA
    Inferred from Electronic Annotation
    more info
     
    lysosomal membrane IEA
    Inferred from Electronic Annotation
    more info
     
    lysosome ISO
    Inferred from Sequence Orthology
    more info
     
    perinuclear region of cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    platelet alpha granule ISO
    Inferred from Sequence Orthology
    more info
     
    recycling endosome IEA
    Inferred from Electronic Annotation
    more info
     
    synaptic vesicle EXP
    Inferred from Experiment
    more info
    PubMed 
    synaptic vesicle IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    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)

    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_022286.2NP_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
      Related
      ENSRNOP00000017862.4, ENSRNOT00000017862.4
      Conserved Domains (1) summary
      pfam00995
      Location:37405
      Sec1; Sec1 family

    RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005100.4 Reference Rnor_6.0 Primary Assembly

      Range
      142060955..142083955
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate Rn_Celera

    Genomic

    1. AC_000069.1 Alternate Rn_Celera

      Range
      126284000..126307119
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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