Human Gene RAB13 (ENST00000368575.5) from GENCODE V44
  Description: Homo sapiens RAB13, member RAS oncogene family (RAB13), transcript variant 3, non-coding RNA. (from RefSeq NR_073553)
RefSeq Summary (NM_002870): This gene is a member of the Rab family of small G proteins and plays a role in regulating membrane trafficking between trans-Golgi network (TGN) and recycling endosomes (RE). The encoded protein is involved in the assembly of tight junctions, which are components of the apical junctional complex (AJC) of epithelial cells. The AJC plays a role in forming a barrier between luminal contents and the underlying tissue. Additional functions associated with the protein include endocytic recycling of occludin, regulation of epithelial cell scattering, neuronal regeneration and regulation of neurite outgrowth. Alternately spliced transcript variants have been observed for this gene. A pseudogene associated with this gene is located on chromosome 12. [provided by RefSeq, Jan 2013].
Gencode Transcript: ENST00000368575.5
Gencode Gene: ENSG00000143545.10
Transcript (Including UTRs)
   Position: hg38 chr1:153,981,650-153,986,339 Size: 4,690 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg38 chr1:153,982,099-153,986,236 Size: 4,138 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:153,981,650-153,986,339)mRNA (may differ from genome)Protein (203 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGencode
GeneCardsHGNCHPRDLynxMGIneXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RAB13_HUMAN
DESCRIPTION: RecName: Full=Ras-related protein Rab-13; AltName: Full=Cell growth-inhibiting gene 4 protein; Flags: Precursor;
FUNCTION: Could participate in polarized transport, in the assembly and/or the activity of tight junctions.
SUBUNIT: Interacts with CCDC64B/BICDR2 (By similarity).
SUBCELLULAR LOCATION: Cell junction, tight junction. Cell membrane; Lipid-anchor; Cytoplasmic side. Cytoplasmic vesicle membrane; Lipid-anchor; Cytoplasmic side. Note=Cytoplasmic tight junctions or associated with vesicles scattered throughout the cytoplasm in cells lacking tight junctions.
TISSUE SPECIFICITY: Detected in several types of epithelia, including intestine, kidney, liver and in endothelial cells.
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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 61.17 RPKM in Cells - Cultured fibroblasts
Total median expression: 1298.27 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 -27.10103-0.263 Picture PostScript Text
3' UTR -107.70449-0.240 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:
PF00071 - Ras family

ModBase Predicted Comparative 3D Structure on P51153
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-  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
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  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:0034236 protein kinase A catalytic subunit binding

Biological Process:
GO:0010737 protein kinase A signaling
GO:0015031 protein transport
GO:0016197 endosomal transport
GO:0030866 cortical actin cytoskeleton organization
GO:0031175 neuron projection development
GO:0032456 endocytic recycling
GO:0032869 cellular response to insulin stimulus
GO:0035767 endothelial cell chemotaxis
GO:0043687 post-translational protein modification
GO:0044795 trans-Golgi network to recycling endosome transport
GO:0070830 bicellular tight junction assembly
GO:0072659 protein localization to plasma membrane
GO:0097368 establishment of Sertoli cell barrier
GO:1902463 protein localization to cell leading edge

Cellular Component:
GO:0005768 endosome
GO:0005802 trans-Golgi network
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0005911 cell-cell junction
GO:0005923 bicellular tight junction
GO:0016020 membrane
GO:0016328 lateral plasma membrane
GO:0030027 lamellipodium
GO:0030054 cell junction
GO:0030139 endocytic vesicle
GO:0030659 cytoplasmic vesicle membrane
GO:0031410 cytoplasmic vesicle
GO:0032593 insulin-responsive compartment
GO:0042995 cell projection
GO:0043005 neuron projection
GO:0055037 recycling endosome
GO:0055038 recycling endosome membrane
GO:0070062 extracellular exosome
GO:0005794 Golgi apparatus


-  Descriptions from all associated GenBank mRNAs
  AK291580 - Homo sapiens cDNA FLJ77318 complete cds, highly similar to Homo sapiens RAB13, member RAS oncogene family (RAB13), mRNA.
X75593 - H.sapiens mRNA for rab 13.
BC009227 - Homo sapiens RAB13, member RAS oncogene family, mRNA (cDNA clone IMAGE:3952196), partial cds.
BC073168 - Homo sapiens RAB13, member RAS oncogene family, mRNA (cDNA clone MGC:88017 IMAGE:6193572), complete cds.
BC000799 - Homo sapiens RAB13, member RAS oncogene family, mRNA (cDNA clone MGC:5074 IMAGE:3451945), complete cds.
AK128675 - Homo sapiens cDNA FLJ46839 fis, clone UTERU2037224, highly similar to Ras-related protein Rab-13.
JD151305 - Sequence 132329 from Patent EP1572962.
JD559262 - Sequence 540286 from Patent EP1572962.
JD178283 - Sequence 159307 from Patent EP1572962.
JD043559 - Sequence 24583 from Patent EP1572962.
JD436279 - Sequence 417303 from Patent EP1572962.
JD468503 - Sequence 449527 from Patent EP1572962.
JD361817 - Sequence 342841 from Patent EP1572962.
JD170286 - Sequence 151310 from Patent EP1572962.
JD434682 - Sequence 415706 from Patent EP1572962.
JD343049 - Sequence 324073 from Patent EP1572962.
JD436259 - Sequence 417283 from Patent EP1572962.
JD038800 - Sequence 19824 from Patent EP1572962.
JD036623 - Sequence 17647 from Patent EP1572962.
JD036627 - Sequence 17651 from Patent EP1572962.
JD433675 - Sequence 414699 from Patent EP1572962.
BC094846 - Homo sapiens RAB13, member RAS oncogene family, mRNA (cDNA clone IMAGE:5516569), partial cds.
JD048681 - Sequence 29705 from Patent EP1572962.
JD225055 - Sequence 206079 from Patent EP1572962.
JD142029 - Sequence 123053 from Patent EP1572962.
JD095483 - Sequence 76507 from Patent EP1572962.
JD172611 - Sequence 153635 from Patent EP1572962.
JD445444 - Sequence 426468 from Patent EP1572962.
JD306922 - Sequence 287946 from Patent EP1572962.
JD416808 - Sequence 397832 from Patent EP1572962.
AY423722 - Homo sapiens growth-inhibiting gene 4 protein mRNA, complete cds.
AF498948 - Homo sapiens small GTP binding protein RAB13 (RAB13) mRNA, complete cds.
AM392651 - Synthetic construct Homo sapiens clone IMAGE:100002884 for hypothetical protein (RAB13 gene).
AM393152 - Synthetic construct Homo sapiens clone IMAGE:100002882 for hypothetical protein (RAB13 gene).
AM393739 - Synthetic construct Homo sapiens clone IMAGE:100002883 for hypothetical protein (RAB13 gene).
AM393810 - Synthetic construct Homo sapiens clone IMAGE:100002881 for hypothetical protein (RAB13 gene).
CU674404 - Synthetic construct Homo sapiens gateway clone IMAGE:100018560 5' read RAB13 mRNA.
AM393265 - Synthetic construct Homo sapiens clone IMAGE:100002616 for hypothetical protein (RAB13 gene).
AM393465 - Synthetic construct Homo sapiens clone IMAGE:100002615 for hypothetical protein (RAB13 gene).
BT019700 - Homo sapiens RAB13, member RAS oncogene family mRNA, complete cds.
BT019701 - Homo sapiens RAB13, member RAS oncogene family mRNA, complete cds.
AB464116 - Synthetic construct DNA, clone: pF1KB8201, Homo sapiens RAB13 gene for RAB13, member RAS oncogene family, without stop codon, in Flexi system.
JD444912 - Sequence 425936 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04530 - Tight junction

Reactome (by CSHL, EBI, and GO)

Protein P51153 (Reactome details) participates in the following event(s):

R-HSA-8876615 RAB13 GEFs exchange GTP for GDP on RAB13
R-HSA-2255343 RAB8A,10,13,14 exchange GDP for GTP
R-HSA-1445143 RAB8A,10,13,14 hydrolyze GTP
R-HSA-8870466 RGGT:CHM binds RABs
R-HSA-8870469 RGGT geranylgeranylates RAB proteins
R-HSA-8876198 RAB GEFs exchange GTP for GDP on RABs
R-HSA-1445148 Translocation of GLUT4 to the plasma membrane
R-HSA-8873719 RAB geranylgeranylation
R-HSA-9007101 Rab regulation of trafficking
R-HSA-199991 Membrane Trafficking
R-HSA-597592 Post-translational protein modification
R-HSA-5653656 Vesicle-mediated transport
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: A8K6B5, D3DV67, ENST00000368575.1, ENST00000368575.2, ENST00000368575.3, ENST00000368575.4, GIG4, NR_073553, P51153, Q5U0A6, Q6GPG6, Q96GU4, RAB13_HUMAN, uc001fdt.1, uc001fdt.2, uc001fdt.3, uc001fdt.4, uc001fdt.5
UCSC ID: ENST00000368575.5
RefSeq Accession: NM_002870
Protein: P51153 (aka RAB13_HUMAN or RB13_HUMAN)
CCDS: CCDS1058.1

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