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

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

Summary

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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
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Genomic context

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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

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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
  • 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. 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

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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

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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)

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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_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

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