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    Vps37d VPS37D subunit of ESCRT-I [ Rattus norvegicus (Norway rat) ]

    Gene ID: 687208, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Vps37dprovided by RGD
    Official Full Name
    VPS37D subunit of ESCRT-Iprovided by RGD
    Primary source
    RGD:1587769
    See related
    EnsemblRapid:ENSRNOG00000048699 AllianceGenome:RGD:1587769
    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 protein targeting to membrane; protein targeting to vacuole; and ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway. Predicted to be located in late endosome membrane. Predicted to be part of ESCRT I complex. Orthologous to human VPS37D (VPS37D subunit of ESCRT-I). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Kidney (RPKM 63.5), Brain (RPKM 36.6) and 6 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Vps37d in Genome Data Viewer
    Location:
    12q12
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (27245755..27251214)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (21609210..21614669)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (24651342..24656793)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene transducin (beta)-like 2 Neighboring gene MLX interacting protein-like Neighboring gene DnaJ heat shock protein family (Hsp40) member C30 Neighboring gene small Cajal body-specific RNA 20 Neighboring gene BUD23, rRNA methyltransferase and ribosome maturation factor

    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. The UBAP1 subunit of ESCRT-I interacts with ubiquitin via a SOUBA domain. Agromayor M, et al. Structure, 2012 Mar 7. PMID 22405001, Free PMC Article
    2. Identification of human MVB12 proteins as ESCRT-I subunits that function in HIV budding. Morita E, et al. Cell Host Microbe, 2007 Jul 12. PMID 18005716, Free PMC Article
    3. Gene and alternative splicing annotation with AIR. Florea L, et al. Genome Res, 2005 Jan. PMID 15632090, Free PMC Article
    4. Large-scale proteomics and phosphoproteomics of urinary exosomes. Gonzales PA, et al. J Am Soc Nephrol, 2009 Feb. PMID 19056867, Free PMC Article
    5. In-depth proteomic analyses of exosomes isolated from expressed prostatic secretions in urine. Principe S, et al. Proteomics, 2013 May. PMID 23533145, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC188182

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in protein targeting to membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein targeting to vacuole IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of ESCRT I complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of ESCRT I complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in late endosome membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    vacuolar protein sorting-associated protein 37D
    Names
    VPS37D, ESCRT-I subunit
    vacuolar protein sorting 37 homolog D
    vacuolar protein sorting 37D

    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_001128193.2 → NP_001121665.1  vacuolar protein sorting-associated protein 37D

      See identical proteins and their annotated locations for NP_001121665.1

      Status: PROVISIONAL

      Source sequence(s)
      BC166560
      UniProtKB/TrEMBL
      B2GV76, M0RC56
      Related
      ENSRNOP00000067165.1, ENSRNOT00000071569.4
      Conserved Domains (2) summary
      PTZ00449
      Location:198 → 259
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      pfam07200
      Location:22 → 165
      Mod_r; Modifier of rudimentary (Mod(r)) protein

    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_086030.1 Reference GRCr8

      Range
      27245755..27251214
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039089755.2 → XP_038945683.1  vacuolar protein sorting-associated protein 37D isoform X1

      Related
      ENSRNOP00000100618.1, ENSRNOT00000169920.1
      Conserved Domains (2) summary
      PTZ00449
      Location:191 → 252
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      pfam07200
      Location:39 → 158
      Mod_r; Modifier of rudimentary (Mod(r)) protein
    Nucleotide Protein Strain
    Heading Accession and Version

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