U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Rab3d RAB3D, member RAS oncogene family [ Mus musculus (house mouse) ]

    Gene ID: 19340, updated on 9-Dec-2024

    Summary

    Official Symbol
    Rab3dprovided by MGI
    Official Full Name
    RAB3D, member RAS oncogene familyprovided by MGI
    Primary source
    MGI:MGI:97844
    See related
    Ensembl:ENSMUSG00000019066 AllianceGenome:MGI:97844
    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
    C130057E11Rik
    Summary
    Enables GTP-dependent protein binding activity. Acts upstream of or within peptidyl-cysteine methylation and regulation of exocytosis. Located in zymogen granule. Is expressed in epidermis; nervous system; pancreas; and retina. Orthologous to human RAB3D (RAB3D, member RAS oncogene family). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in colon adult (RPKM 51.1), stomach adult (RPKM 49.7) and 23 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Rab3d in Genome Data Viewer
    Location:
    9 A3; 9 7.91 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (21818787..21829623, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (21907491..21918199, complement)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene dedicator of cytokinesis 6 Neighboring gene microRNA 7083 Neighboring gene angiopoietin-like 8 Neighboring gene STARR-seq mESC enhancer starr_23526 Neighboring gene STARR-seq mESC enhancer starr_23527 Neighboring gene transmembrane protein 205 Neighboring gene coiled-coil domain containing 159 Neighboring gene phospholipid phosphatase related 2

    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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Gene trapped (1) 
    • Targeted (1)  1 citation

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables GTP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables GTP-dependent protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables GTPase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables GTPase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables myosin V binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables myosin V binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables myosin V binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in bone resorption IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in exocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in exocytosis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within peptidyl-cysteine methylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of regulated secretory pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of regulated secretory pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of exocytosis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in cytoplasmic microtubule IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in mitochondrion HDA PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in synaptic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in zymogen granule IDA
    Inferred from Direct Assay
    more info
    PubMed 

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001324531.1NP_001311460.1  ras-related protein Rab-3D

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice acceptor site in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AK048395, AK169369, BQ033745
      Consensus CDS
      CCDS22912.1
      UniProtKB/Swiss-Prot
      P35276
      UniProtKB/TrEMBL
      Q543Q4
      Related
      ENSMUSP00000111008.4, ENSMUST00000115351.10
      Conserved Domains (1) summary
      cd01865
      Location:22186
      Rab3; Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D
    2. NM_031874.5NP_114080.2  ras-related protein Rab-3D

      See identical proteins and their annotated locations for NP_114080.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AK048395, AK169369, BQ033745, CN696618
      Consensus CDS
      CCDS22912.1
      UniProtKB/Swiss-Prot
      P35276
      UniProtKB/TrEMBL
      Q543Q4
      Related
      ENSMUSP00000113322.2, ENSMUST00000122211.8
      Conserved Domains (1) summary
      cd01865
      Location:22186
      Rab3; Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000075.7 Reference GRCm39 C57BL/6J

      Range
      21818787..21829623 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011242423.4XP_011240725.1  ras-related protein Rab-3D isoform X1

      See identical proteins and their annotated locations for XP_011240725.1

      UniProtKB/Swiss-Prot
      P35276
      UniProtKB/TrEMBL
      Q543Q4
      Conserved Domains (1) summary
      cd01865
      Location:22186
      Rab3; Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D
    2. XM_011242422.4XP_011240724.1  ras-related protein Rab-3D isoform X1

      See identical proteins and their annotated locations for XP_011240724.1

      UniProtKB/Swiss-Prot
      P35276
      UniProtKB/TrEMBL
      Q543Q4
      Conserved Domains (1) summary
      cd01865
      Location:22186
      Rab3; Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D