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Aliases for RAB3B Gene

Aliases for RAB3B Gene

  • RAB3B, Member RAS Oncogene Family 2 3 5
  • Ras-Related Protein Rab-3B 3
  • Brain Antigen RAB3B 3

External Ids for RAB3B Gene

Previous GeneCards Identifiers for RAB3B Gene

  • GC01M051273
  • GC01M051732
  • GC01M051754
  • GC01M052096
  • GC01M052373
  • GC01M050490

Summaries for RAB3B Gene

GeneCards Summary for RAB3B Gene

RAB3B (RAB3B, Member RAS Oncogene Family) is a Protein Coding gene. Among its related pathways are Sertoli-Sertoli Cell Junction Dynamics and Metabolism of proteins. Gene Ontology (GO) annotations related to this gene include GTP binding and GDP binding. An important paralog of this gene is RAB3C.

UniProtKB/Swiss-Prot for RAB3B Gene

  • Protein transport. Probably involved in vesicular traffic (By similarity).

Gene Wiki entry for RAB3B Gene

Additional gene information for RAB3B Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RAB3B Gene

Genomics for RAB3B Gene

GeneHancer (GH) Regulatory Elements for RAB3B Gene

Promoters and enhancers for RAB3B Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J051989 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE 650.7 +0.4 416 1.1 PKNOX1 RB1 ZNF335 GLIS2 ZNF143 ATF7 SP3 REST ZNF398 GATAD2B RAB3B GC01M051989 GC01M051988 GC01P051981
GH01J051990 Enhancer 0.7 ENCODE 650.7 -0.2 -220 0.2 MEIS2 MXI1 KLF1 PKNOX1 ZNF335 CTBP1 NFE2 ATF7 KLF8 SP3 GC01M051989 RAB3B GC01M051988
GH01J051923 Enhancer 0.7 ENCODE dbSUPER 10.9 +66.0 65974 1.7 JUND MCM3 GLIS1 REST FOS RAD21 ZBTB17 RAB3B KTI12 ENSG00000223390 RPS13P2 ENSG00000230953 NRDC GC01P051906 GC01P051974
GH01J051896 Enhancer 1 Ensembl ENCODE 6.5 +92.2 92232 3.4 CTCF ARNT JUN TEAD4 SIN3A RAD21 CC2D1A ZFHX2 ARID2 POLR2A ENSG00000266993 TUT4 RAB3B CC2D1B GC01P051906 NRDC
GH01J051940 Enhancer 0.3 dbSUPER 17.8 +49.0 49047 2.6 ZNF140 TUT4 RAB3B NRDC PRPF38A ENSG00000272100 ECHDC2 CC2D1B LOC100190934 GC01P051974 GC01P051906
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RAB3B on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the RAB3B gene promoter:
  • STAT3
  • Sp1
  • Pax-4a
  • Cdc5
  • STAT5A
  • ZID
  • CUTL1
  • Tal-1

Genomic Locations for RAB3B Gene

Genomic Locations for RAB3B Gene
chr1:51,907,956-51,990,764
(GRCh38/hg38)
Size:
82,809 bases
Orientation:
Minus strand
chr1:52,373,628-52,456,436
(GRCh37/hg19)
Size:
82,809 bases
Orientation:
Minus strand

Genomic View for RAB3B Gene

Genes around RAB3B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RAB3B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RAB3B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RAB3B Gene

Proteins for RAB3B Gene

  • Protein details for RAB3B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P20337-RAB3B_HUMAN
    Recommended name:
    Ras-related protein Rab-3B
    Protein Accession:
    P20337
    Secondary Accessions:
    • Q5VUL2
    • Q9BSI1

    Protein attributes for RAB3B Gene

    Size:
    219 amino acids
    Molecular mass:
    24758 Da
    Quaternary structure:
    • Interacts with RIMS1, RIMS2, RPH3A and RPH3AL. The GTP-bound form interacts with GAS8/DRC4 (via coiled-coil domains).

    Three dimensional structures from OCA and Proteopedia for RAB3B Gene

neXtProt entry for RAB3B Gene

Post-translational modifications for RAB3B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RAB3B Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RAB3B Gene

Domains & Families for RAB3B Gene

Gene Families for RAB3B Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for RAB3B Gene

Suggested Antigen Peptide Sequences for RAB3B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P20337

UniProtKB/Swiss-Prot:

RAB3B_HUMAN :
  • Belongs to the small GTPase superfamily. Rab family.
Family:
  • Belongs to the small GTPase superfamily. Rab family.
genes like me logo Genes that share domains with RAB3B: view

Function for RAB3B Gene

Molecular function for RAB3B Gene

UniProtKB/Swiss-Prot Function:
Protein transport. Probably involved in vesicular traffic (By similarity).
GENATLAS Biochemistry:
RAB3B,Ras oncogene superfamily member,involved in calcium regulated exocytosis

Gene Ontology (GO) - Molecular Function for RAB3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003924 GTPase activity IDA 24891604
GO:0005515 protein binding IPI 24891604
GO:0005525 GTP binding IEA --
GO:0019003 GDP binding IDA 22321395
GO:0030742 GTP-dependent protein binding IEA --
genes like me logo Genes that share ontologies with RAB3B: view
genes like me logo Genes that share phenotypes with RAB3B: view

Animal Models for RAB3B Gene

MGI Knock Outs for RAB3B:

Animal Model Products

miRNA for RAB3B Gene

miRTarBase miRNAs that target RAB3B

Clone Products

  • Addgene plasmids for RAB3B

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for RAB3B Gene

Localization for RAB3B Gene

Subcellular locations from UniProtKB/Swiss-Prot for RAB3B Gene

Cell membrane; Lipid-anchor; Cytoplasmic side. Golgi apparatus. Note=Colocalizes with GAS8/DRC4 in the Golgi apparatus. {ECO:0000250 UniProtKB:Q9CZT8}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RAB3B gene
Compartment Confidence
extracellular 5
plasma membrane 4
cytosol 4

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cell Junctions (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for RAB3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA 20807725
GO:0005829 cytosol IEA --
GO:0005886 plasma membrane IEA --
GO:0008021 synaptic vesicle IEA,IBA --
GO:0012505 endomembrane system IBA --
genes like me logo Genes that share ontologies with RAB3B: view

Pathways & Interactions for RAB3B Gene

genes like me logo Genes that share pathways with RAB3B: view

Pathways by source for RAB3B Gene

Gene Ontology (GO) - Biological Process for RAB3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006886 intracellular protein transport IBA --
GO:0006904 vesicle docking involved in exocytosis IBA --
GO:0009306 protein secretion IBA --
GO:0015031 protein transport IEA --
GO:0017157 regulation of exocytosis IEA --
genes like me logo Genes that share ontologies with RAB3B: view

No data available for SIGNOR curated interactions for RAB3B Gene

Drugs & Compounds for RAB3B Gene

No Compound Related Data Available

Transcripts for RAB3B Gene

mRNA/cDNA for RAB3B Gene

(2) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(57) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for RAB3B Gene

RAB3B, member RAS oncogene family:
Representative Sequences:

Clone Products

  • Addgene plasmids for RAB3B

Alternative Splicing Database (ASD) splice patterns (SP) for RAB3B Gene

No ASD Table

Relevant External Links for RAB3B Gene

GeneLoc Exon Structure for
RAB3B
ECgene alternative splicing isoforms for
RAB3B

Expression for RAB3B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for RAB3B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RAB3B Gene

This gene is overexpressed in Brain - Hypothalamus (x8.7), Pituitary (x7.1), and Brain - Amygdala (x5.3).

Protein differential expression in normal tissues from HIPED for RAB3B Gene

This gene is overexpressed in Brain (40.0), Placenta (6.6), and Bone (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for RAB3B Gene



Protein tissue co-expression partners for RAB3B Gene

NURSA nuclear receptor signaling pathways regulating expression of RAB3B Gene:

RAB3B

SOURCE GeneReport for Unigene cluster for RAB3B Gene:

Hs.123072

Evidence on tissue expression from TISSUES for RAB3B Gene

  • Nervous system(4.7)
  • Lung(4.2)
  • Pancreas(2.6)
genes like me logo Genes that share expression patterns with RAB3B: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for RAB3B Gene

Orthologs for RAB3B Gene

This gene was present in the common ancestor of animals.

Orthologs for RAB3B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RAB3B 34 33
  • 99.54 (n)
OneToOne
cow
(Bos Taurus)
Mammalia RAB3B 34 33
  • 92.85 (n)
OneToOne
dog
(Canis familiaris)
Mammalia RAB3B 34 33
  • 91.78 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Rab3b 16 34 33
  • 89.35 (n)
oppossum
(Monodelphis domestica)
Mammalia RAB3B 34
  • 89 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rab3b 33
  • 88.58 (n)
chicken
(Gallus gallus)
Aves RAB3B 34 33
  • 77.02 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RAB3B 34
  • 83 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rab3b 33
  • 75.42 (n)
zebrafish
(Danio rerio)
Actinopterygii rab3b 34 33
  • 71.23 (n)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Rab3 34 35
  • 76 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea rab-3 34 35
  • 68 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 75 (a)
OneToMany
Cin.4921 33
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4921 33
Species where no ortholog for RAB3B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RAB3B Gene

ENSEMBL:
Gene Tree for RAB3B (if available)
TreeFam:
Gene Tree for RAB3B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RAB3B: view image

Paralogs for RAB3B Gene

Variants for RAB3B Gene

Sequence variations from dbSNP and Humsavar for RAB3B Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000031679 -- 51,939,835(-) A/T intron_variant
rs1000056961 -- 51,926,411(-) G/A intron_variant
rs1000070172 -- 51,929,764(-) C/T intron_variant
rs1000142794 -- 51,917,724(-) T/C 3_prime_UTR_variant
rs1000148000 -- 51,965,772(-) A/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for RAB3B Gene

Variant ID Type Subtype PubMed ID
dgv268n54 CNV gain+loss 21841781
dgv269n54 CNV loss 21841781
dgv270n54 CNV loss 21841781
dgv271n54 CNV loss 21841781
dgv272n54 CNV loss 21841781
esv1010825 CNV insertion 20482838
esv1693930 CNV insertion 17803354
esv24521 CNV loss 19812545
nsv1001512 CNV gain 25217958
nsv1076427 CNV deletion 25765185
nsv475146 CNV novel sequence insertion 20440878
nsv509246 CNV insertion 20534489
nsv546209 CNV gain 21841781
nsv546211 CNV loss 21841781
nsv546226 CNV gain+loss 21841781
nsv546227 CNV gain+loss 21841781
nsv829837 CNV loss 17160897
nsv829848 CNV loss 17160897
nsv843 CNV insertion 18451855
nsv945942 CNV duplication 23825009

Variation tolerance for RAB3B Gene

Residual Variation Intolerance Score: 37.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.73; 15.54% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RAB3B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RAB3B

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RAB3B Gene

Disorders for RAB3B Gene

Additional Disease Information for RAB3B

No disorders were found for RAB3B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RAB3B Gene

Publications for RAB3B Gene

  1. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 58
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  3. The human Rab genes encode a family of GTP-binding proteins related to yeast YPT1 and SEC4 products involved in secretion. (PMID: 2501306) Zahraoui A … Tavitian A (The Journal of biological chemistry 1989) 3 4 58
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  5. Exosomal proteins as prostate cancer biomarkers in urine: From mass spectrometry discovery to immunoassay-based validation. (PMID: 27664330) Wang L … Llorente A (European journal of pharmaceutical sciences : official journal of the European Federation for Pharmaceutical Sciences 2017) 3 58

Products for RAB3B Gene

Sources for RAB3B Gene

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