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    VPS39 VPS39 subunit of HOPS complex [ Canis lupus familiaris (dog) ]

    Gene ID: 487516, updated on 5-Mar-2024

    Summary

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    Official Symbol
    VPS39provided by VGNC
    Official Full Name
    VPS39 subunit of HOPS complexprovided by VGNC
    Primary source
    VGNC:VGNC:48290
    See related
    Ensembl:ENSCAFG00845017829
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Canis lupus familiaris (sub-species: familiaris)
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Carnivora; Caniformia; Canidae; Canis
    Orthologs
    human mouse all
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    Genomic context

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    See VPS39 in Genome Data Viewer
    Location:
    chromosome: 30
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    106 current ROS_Cfam_1.0 (GCF_014441545.1) 30 NC_051834.1 (9301394..9348552, complement)
    106 current Dog10K_Boxer_Tasha (GCF_000002285.5) 30 NC_006612.4 (9224925..9271967, complement)
    106 current UU_Cfam_GSD_1.0 (GCF_011100685.1) 30 NC_049251.1 (9461083..9508187, complement)
    106 current UMICH_Zoey_3.1 (GCF_005444595.1) 30 NC_049290.1 (9221763..9268866, complement)
    106 current UNSW_CanFamBas_1.0 (GCF_013276365.1) 30 NC_049771.1 (9326778..9373930, complement)

    Chromosome 30 - NC_051834.1Genomic Context describing neighboring genes Neighboring gene phospholipase A2 group IVD Neighboring gene uncharacterized LOC119866877 Neighboring gene phospholipase A2 group IVF Neighboring gene transmembrane protein 87A Neighboring gene U6 spliceosomal RNA Neighboring gene glucosidase alpha, neutral C Neighboring gene U6 spliceosomal RNA

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables protein binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in autophagy IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in endosomal vesicle fusion IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    vam6/Vps39-like protein
    Names
    VPS39, HOPS complex subunit

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Canis lupus familiaris 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 ROS_Cfam_1.0

    Genomic

    1. NC_051834.1 Reference ROS_Cfam_1.0

      Range
      9301394..9348552 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_038442066.1 → XP_038297994.1  vam6/Vps39-like protein isoform X3

      UniProtKB/TrEMBL
      A0A8C0P521, A0A8C0SFZ7, A0A8I3NUC9, A0A8I3NYS1
      Related
      ENSCAFP00845024712.1, ENSCAFT00845031569.1
      Conserved Domains (3) summary
      pfam10366
      Location:460 → 562
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:772 → 880
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:20 → 291
      CNH; CNH domain

    2. XM_038442064.1 → XP_038297992.1  vam6/Vps39-like protein isoform X1

      UniProtKB/TrEMBL
      A0A8C0JSW1, A0A8C0NXL2, A0A8C0SFZ7, A0A8I3NU55, A0A8I3NUC9
      Related
      ENSCAFP00845024866.1, ENSCAFT00845031776.1
      Conserved Domains (3) summary
      pfam10366
      Location:449 → 551
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:761 → 869
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:20 → 280
      CNH; CNH domain

    3. XM_038442065.1 → XP_038297993.1  vam6/Vps39-like protein isoform X2

      UniProtKB/TrEMBL
      A0A8C0SFZ7, A0A8I3NUC9
      Conserved Domains (3) summary
      pfam10366
      Location:325 → 427
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:637 → 745
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:2 → 156
      CNH; CNH domain

    Alternate UMICH_Zoey_3.1

    Genomic

    1. NC_049290.1 Alternate UMICH_Zoey_3.1

      Range
      9221763..9268866 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_038516549.1 → XP_038372477.1  vam6/Vps39-like protein isoform X3

      Conserved Domains (3) summary
      pfam10366
      Location:460 → 562
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:772 → 880
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:20 → 291
      CNH; CNH domain

    2. XM_038516547.1 → XP_038372475.1  vam6/Vps39-like protein isoform X1

      Conserved Domains (3) summary
      pfam10366
      Location:449 → 551
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:761 → 869
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:20 → 280
      CNH; CNH domain

    3. XM_038516548.1 → XP_038372476.1  vam6/Vps39-like protein isoform X2

      Conserved Domains (3) summary
      pfam10366
      Location:325 → 427
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:637 → 745
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:2 → 156
      CNH; CNH domain

    Alternate UNSW_CanFamBas_1.0

    Genomic

    1. NC_049771.1 Alternate UNSW_CanFamBas_1.0

      Range
      9326778..9373930 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_038644445.1 → XP_038500373.1  vam6/Vps39-like protein isoform X3

      Conserved Domains (3) summary
      pfam10366
      Location:460 → 562
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:772 → 880
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:20 → 291
      CNH; CNH domain

    2. XM_038644443.1 → XP_038500371.1  vam6/Vps39-like protein isoform X1

      Conserved Domains (3) summary
      pfam10366
      Location:449 → 551
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:761 → 869
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:20 → 280
      CNH; CNH domain

    3. XM_038644444.1 → XP_038500372.1  vam6/Vps39-like protein isoform X2

      Conserved Domains (3) summary
      pfam10366
      Location:325 → 427
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:637 → 745
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:2 → 156
      CNH; CNH domain

    Alternate UU_Cfam_GSD_1.0

    Genomic

    1. NC_049251.1 Alternate UU_Cfam_GSD_1.0

      Range
      9461083..9508187 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_038580160.1 → XP_038436088.1  vam6/Vps39-like protein isoform X3

      UniProtKB/TrEMBL
      A0A8C0P521, A0A8C0SFZ7, A0A8I3NUC9, A0A8I3NYS1
      Conserved Domains (3) summary
      pfam10366
      Location:460 → 562
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:772 → 880
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:20 → 291
      CNH; CNH domain

    2. XM_038580158.1 → XP_038436086.1  vam6/Vps39-like protein isoform X1

      UniProtKB/TrEMBL
      A0A8C0JSW1, A0A8C0NXL2, A0A8C0SFZ7, A0A8I3NU55, A0A8I3NUC9
      Conserved Domains (3) summary
      pfam10366
      Location:449 → 551
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:761 → 869
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:20 → 280
      CNH; CNH domain

    3. XM_038580159.1 → XP_038436087.1  vam6/Vps39-like protein isoform X2

      UniProtKB/TrEMBL
      A0A8C0SFZ7, A0A8I3NUC9
      Conserved Domains (3) summary
      pfam10366
      Location:325 → 427
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:637 → 745
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:2 → 156
      CNH; CNH domain

    Alternate Dog10K_Boxer_Tasha Primary Assembly

    Genomic

    1. NC_006612.4 Alternate Dog10K_Boxer_Tasha Primary Assembly

      Range
      9224925..9271967 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_014109568.3 → XP_013965043.1  vam6/Vps39-like protein isoform X3

      UniProtKB/TrEMBL
      A0A8C0P521, A0A8C0SFZ7, A0A8I3NUC9, A0A8I3NYS1
      Conserved Domains (3) summary
      pfam10366
      Location:460 → 562
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:772 → 880
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:20 → 291
      CNH; CNH domain

    2. XM_544640.6 → XP_544640.2  vam6/Vps39-like protein isoform X1

      UniProtKB/TrEMBL
      A0A8C0JSW1, A0A8C0NXL2, A0A8C0SFZ7, A0A8I3NU55, A0A8I3NUC9
      Conserved Domains (3) summary
      pfam10366
      Location:449 → 551
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:761 → 869
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:20 → 280
      CNH; CNH domain

    3. XM_022412997.1 → XP_022268705.1  vam6/Vps39-like protein isoform X2

      UniProtKB/TrEMBL
      A0A8C0SFZ7, A0A8I3NUC9
      Conserved Domains (3) summary
      pfam10366
      Location:325 → 427
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:637 → 745
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:2 → 156
      CNH; CNH domain
    Nucleotide Protein
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