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    Vps50 VPS50 EARP/GARPII complex subunit [ Mus musculus (house mouse) ]

    Gene ID: 73288, updated on 23-Jun-2021

    Summary

    Official Symbol
    Vps50provided by MGI
    Official Full Name
    VPS50 EARP/GARPII complex subunitprovided by MGI
    Primary source
    MGI:MGI:1920538
    See related
    Ensembl:ENSMUSG00000001376
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    BLM; C87205; Ccdc132; mKIAA1861; 1700034M03Rik; 8430415E05Rik
    Expression
    Broad expression in CNS E18 (RPKM 4.5), CNS E14 (RPKM 4.3) and 23 other tissues See more
    Orthologs
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    Genomic context

    See Vps50 in Genome Data Viewer
    Location:
    6; 6 A1
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (3498393..3603531)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (3498393..3603531)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 6 NC_000072.5 (3448393..3553531)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene sterile alpha motif domain containing 9-like Neighboring gene HEPACAM family member 2 Neighboring gene predicted gene, 52885 Neighboring gene predicted gene, 53306 Neighboring gene calcitonin receptor Neighboring gene microRNA 653

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables SNARE binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    enables SNARE binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in endocytic recycling IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    acts_upstream_of_or_within endocytic recycling IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within endocytic recycling ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    involved_in endocytic recycling ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in retrograde transport, endosome to Golgi IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    part_of EARP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    part_of EARP complex ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endosome IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in perinuclear region of cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in recycling endosome ISO
    Inferred from Sequence Orthology
    more info
    PubMed 

    General protein information

    Preferred Names
    syndetin
    Names
    EARP/GARPII complex subunit VPS50
    bcl2-like protein blm
    coiled-coil domain containing 132
    coiled-coil domain-containing protein 132

    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_001167750.1NP_001161222.1  syndetin isoform 2

      See identical proteins and their annotated locations for NP_001161222.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AC066688, AI551221, BC043092, BY100563
      Consensus CDS
      CCDS51713.1
      UniProtKB/Swiss-Prot
      Q8CI71
      Related
      ENSMUSP00000125872.2, ENSMUST00000164052.5
      Conserved Domains (2) summary
      pfam10474
      Location:726929
      DUF2451; Protein of unknown function C-terminus (DUF2451)
      pfam10475
      Location:54345
      DUF2450; Protein of unknown function N-terminal domain (DUF2450)
    2. NM_001167751.1NP_001161223.1  syndetin isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (3) has a shorter and distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AC066688, AK042031, BC043092, BY100563
      Consensus CDS
      CCDS51714.1
      UniProtKB/Swiss-Prot
      Q8CI71
      Related
      ENSMUSP00000128323.2, ENSMUST00000170873.10
      Conserved Domains (2) summary
      pfam10474
      Location:726925
      DUF2451; Protein of unknown function C-terminus (DUF2451)
      pfam10475
      Location:54345
      DUF2450; Protein of unknown function N-terminal domain (DUF2450)
    3. NM_024260.5NP_077222.4  syndetin isoform 1

      See identical proteins and their annotated locations for NP_077222.4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AI551221, AK129458, BY100563
      Consensus CDS
      CCDS39415.1
      UniProtKB/Swiss-Prot
      Q8CI71
      Related
      ENSMUSP00000001412.9, ENSMUST00000001412.17
      Conserved Domains (2) summary
      pfam10474
      Location:726957
      DUF2451; Protein of unknown function C-terminus (DUF2451)
      pfam10475
      Location:54345
      DUF2450; Protein of unknown function N-terminal domain (DUF2450)

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000072.7 Reference GRCm39 C57BL/6J

      Range
      3498393..3603531
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036152347.1XP_036008240.1  syndetin isoform X1

      Conserved Domains (2) summary
      pfam10474
      Location:454688
      DUF2451; Protein of unknown function C-terminus (DUF2451)
      cl19297
      Location:176
      Dor1; Dor1-like family
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