U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Rab5b RAB5B, member RAS oncogene family [ Rattus norvegicus (Norway rat) ]

    Gene ID: 288779, updated on 11-Apr-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Rab5bprovided by RGD
    Official Full Name
    RAB5B, member RAS oncogene familyprovided by RGD
    Primary source
    RGD:1306489
    See related
    Ensembl:ENSRNOG00000006130 AllianceGenome:RGD:1306489
    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 enable GDP binding activity; GTP-dependent protein binding activity; and GTPase activity. Predicted to be involved in several processes, including intracellular protein transport; plasma membrane to endosome transport; and regulation of endocytosis. Predicted to act upstream of or within endosome organization. Is anchored component of synaptic vesicle membrane. Orthologous to human RAB5B (RAB5B, member RAS oncogene family). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 399.2), Kidney (RPKM 366.0) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Rab5b in Genome Data Viewer
    Location:
    7q11
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (1693971..1712936, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (1109449..1128348, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (3104530..3123384, complement)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein S26 Neighboring gene IKAROS family zinc finger 4 Neighboring gene sulfite oxidase Neighboring gene uncharacterized LOC120093528 Neighboring gene cyclin dependent kinase 2 Neighboring gene premelanosome protein Neighboring gene diacylglycerol kinase, alpha Neighboring gene roadblock domain containing 3, pseudogene 1

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Association of phosphatidylinositol 3-kinase composed of p110beta-catalytic and p85-regulatory subunits with the small GTPase Rab5. Kurosu H, et al. J Biochem, 2001 Jul. PMID 11432782
    2. Direct interaction of EEA1 with Rab5b. Callaghan J, et al. Eur J Biochem, 1999 Oct 1. PMID 10491193
    3. LRRK2 regulates synaptic vesicle endocytosis. Shin N, et al. Exp Cell Res, 2008 Jun 10. PMID 18445495
    4. Co-operative regulation of endocytosis by three Rab5 isoforms. Bucci C, et al. FEBS Lett, 1995 Jun 5. PMID 7789520
    5. Quantitative analysis of synaptic vesicle Rabs uncovers distinct yet overlapping roles for Rab3a and Rab27b in Ca2+-triggered exocytosis. Pavlos NJ, et al. J Neurosci, 2010 Oct 6. PMID 20926670, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables GDP binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables GTP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables GTP-dependent protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables GTPase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables GTPase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in antigen processing and presentation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within endosome organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in intracellular protein transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in plasma membrane to endosome transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of endocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of endocytosis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in early endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in early endosome membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in endocytic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endocytic vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endomembrane system IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in extracellular exosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in melanosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in synaptic vesicle membrane EXP
    Inferred from Experiment
    more info
    		 PubMed 
    is_active_in synaptic vesicle membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in synaptic vesicle membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    ras-related protein Rab-5B
    NP_001073405.1
    XP_006240812.1
    XP_006240813.1
    XP_006240814.1
    XP_038934475.1
    XP_038934476.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001079936.1 → NP_001073405.1  ras-related protein Rab-5B

      See identical proteins and their annotated locations for NP_001073405.1

      Status: PROVISIONAL

      Source sequence(s)
      BC129101
      UniProtKB/TrEMBL
      A0A8I6AII6, A1L1J8, F7F3T1
      Conserved Domains (1) summary
      cd01860
      Location:20 → 182
      Rab5_related; Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

    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_086025.1 Reference GRCr8

      Range
      1693971..1712936 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006240750.5 → XP_006240812.1  ras-related protein Rab-5B isoform X1

      See identical proteins and their annotated locations for XP_006240812.1

      UniProtKB/TrEMBL
      A0A8I6AII6, A1L1J8, F7F3T1
      Related
      ENSRNOP00000092616.1
      Conserved Domains (1) summary
      cd01860
      Location:20 → 182
      Rab5_related; Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

    2. XM_006240751.5 → XP_006240813.1  ras-related protein Rab-5B isoform X1

      See identical proteins and their annotated locations for XP_006240813.1

      UniProtKB/TrEMBL
      A0A8I6AII6, A1L1J8, F7F3T1
      Related
      ENSRNOP00000058595.2
      Conserved Domains (1) summary
      cd01860
      Location:20 → 182
      Rab5_related; Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

    3. XM_006240752.5 → XP_006240814.1  ras-related protein Rab-5B isoform X1

      See identical proteins and their annotated locations for XP_006240814.1

      UniProtKB/TrEMBL
      A0A8I6AII6, A1L1J8, F7F3T1
      Conserved Domains (1) summary
      cd01860
      Location:20 → 182
      Rab5_related; Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

    4. XM_039078547.2 → XP_038934475.1  ras-related protein Rab-5B isoform X1

      UniProtKB/TrEMBL
      A0A8I6AII6, A1L1J8, F7F3T1
      Related
      ENSRNOP00000079594.1
      Conserved Domains (1) summary
      cd01860
      Location:20 → 182
      Rab5_related; Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

    5. XM_039078548.2 → XP_038934476.1  ras-related protein Rab-5B isoform X1

      UniProtKB/TrEMBL
      A0A8I6AII6, A1L1J8, F7F3T1
      Conserved Domains (1) summary
      cd01860
      Location:20 → 182
      Rab5_related; Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Other Literature Sources
    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous