Human Gene RAB3C (ENST00000282878.6_4) from GENCODE V47lift37
  Description: RAB3C, member RAS oncogene family, transcript variant 1 (from RefSeq NM_138453.4)
Gencode Transcript: ENST00000282878.6_4
Gencode Gene: ENSG00000152932.8_8
Transcript (Including UTRs)
   Position: hg19 chr5:57,878,902-58,155,221 Size: 276,320 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr5:57,879,036-58,147,178 Size: 268,143 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:57,878,902-58,155,221)mRNA (may differ from genome)Protein (227 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RAB3C_HUMAN
DESCRIPTION: RecName: Full=Ras-related protein Rab-3C;
FUNCTION: Protein transport. Probably involved in vesicular traffic (By similarity).
SUBUNIT: Binds RIMS1 (By similarity).
SUBCELLULAR LOCATION: Cell membrane; Lipid-anchor; Cytoplasmic side (Potential).
TISSUE SPECIFICITY: Expressed in brain, placenta and lung.
SIMILARITY: Belongs to the small GTPase superfamily. Rab family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 17.87 RPKM in Brain - Hypothalamus
Total median expression: 127.72 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -46.70134-0.349 Picture PostScript Text
3' UTR -1990.808043-0.248 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR005225 - Small_GTP-bd_dom
IPR001806 - Small_GTPase
IPR003579 - Small_GTPase_Rab_type

Pfam Domains:
PF00025 - ADP-ribosylation factor family
PF00071 - Ras family
PF08477 - Ras of Complex, Roc, domain of DAPkinase

SCOP Domains:
52540 - P-loop containing nucleoside triphosphate hydrolases

ModBase Predicted Comparative 3D Structure on Q96E17
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGD  WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003924 GTPase activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0030742 GTP-dependent protein binding
GO:0031489 myosin V binding

Biological Process:
GO:0015031 protein transport
GO:0017157 regulation of exocytosis
GO:0019882 antigen processing and presentation

Cellular Component:
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0008021 synaptic vesicle
GO:0016020 membrane
GO:0031982 vesicle
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AY026936 - Homo sapiens Rab3c mRNA, complete cds.
BC013033 - Homo sapiens RAB3C, member RAS oncogene family, mRNA (cDNA clone MGC:4711 IMAGE:3534915), complete cds.
KJ900029 - Synthetic construct Homo sapiens clone ccsbBroadEn_09423 RAB3C gene, encodes complete protein.
AK094685 - Homo sapiens cDNA FLJ37366 fis, clone BRAMY2024416.
AK055409 - Homo sapiens cDNA FLJ30847 fis, clone FEBRA2002792.
AB073648 - Homo sapiens primary neuroblastoma cDNA, clone:Nbla00158, full insert sequence.
AB074188 - Homo sapiens primary neuroblastoma cDNA, clone:Nbla10679, full insert sequence.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q96E17 (Reactome details) participates in the following event(s):

R-HSA-8870466 RGGT:CHM binds RABs
R-HSA-8870469 RGGT geranylgeranylates RAB proteins
R-HSA-8873719 RAB geranylgeranylation
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000282878.1, ENST00000282878.2, ENST00000282878.3, ENST00000282878.4, ENST00000282878.5, NM_138453, Q96E17, RAB3C_HUMAN, uc317kas.1, uc317kas.2
UCSC ID: ENST00000282878.6_4
RefSeq Accession: NM_138453.4
Protein: Q96E17 (aka RAB3C_HUMAN or RB3C_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.