Human Gene RAB9B (ENST00000243298.3) Description and Page Index
  Description: Homo sapiens RAB9B, member RAS oncogene family (RAB9B), transcript variant 1, mRNA. (from RefSeq NM_016370)
RefSeq Summary (NM_016370): This gene encodes a member of a subfamily of RAS small guanosine triphosphate (GTP)-binding proteins that regulate membrane trafficking. The encoded protein may be involved in endosome-to-Golgi transport. [provided by RefSeq, Jan 2010].
Gencode Transcript: ENST00000243298.3
Gencode Gene: ENSG00000123570.4
Transcript (Including UTRs)
   Position: hg38 chrX:103,822,327-103,832,257 Size: 9,931 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg38 chrX:103,825,179-103,825,784 Size: 606 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsCTDRNA-Seq ExpressionRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Methods
Data last updated: 2019-09-04

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:103,822,327-103,832,257)mRNA (may differ from genome)Protein (201 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
HGNCHPRDLynxMGIneXtProtOMIM
PubMedReactomeStanford SOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: RAB9B_HUMAN
DESCRIPTION: RecName: Full=Ras-related protein Rab-9B; AltName: Full=Rab-9-like protein; Short=Rab-9L;
FUNCTION: Involved in the transport of proteins between the endosomes and the trans Golgi network (By similarity).
SUBCELLULAR LOCATION: Cell membrane; Lipid-anchor; Cytoplasmic side (Potential).
TISSUE SPECIFICITY: Ubiquitous.
SIMILARITY: Belongs to the small GTPase superfamily. Rab family.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 15.02 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 165.60 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -109.90314-0.350 Picture PostScript Text
3' UTR -679.702852-0.238 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

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2OCB
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9NP90
FrontTopSide
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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  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:0019003 GDP binding
GO:0042802 identical protein binding

Biological Process:
GO:0015031 protein transport
GO:0042147 retrograde transport, endosome to Golgi
GO:0043312 neutrophil degranulation

Cellular Component:
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0030667 secretory granule membrane
GO:0030670 phagocytic vesicle membrane
GO:0031410 cytoplasmic vesicle
GO:0045335 phagocytic vesicle


-  Descriptions from all associated GenBank mRNAs
  BC018033 - Homo sapiens RAB9B, member RAS oncogene family, mRNA (cDNA clone IMAGE:4800052).
BC041336 - Homo sapiens cDNA clone IMAGE:5274429, containing frame-shift errors.
BC070069 - Homo sapiens cDNA clone IMAGE:5261286, containing frame-shift errors.
AB036693 - Homo sapiens mRNA for RAB9-like protein, complete cds.
JD043989 - Sequence 25013 from Patent EP1572962.
BC093758 - Homo sapiens RAB9B, member RAS oncogene family, mRNA (cDNA clone MGC:120793 IMAGE:7939603), complete cds.
BC093756 - Homo sapiens RAB9B, member RAS oncogene family, mRNA (cDNA clone MGC:120791 IMAGE:7939601), complete cds.
JD230404 - Sequence 211428 from Patent EP1572962.
JD282109 - Sequence 263133 from Patent EP1572962.
JD282108 - Sequence 263132 from Patent EP1572962.
AK313425 - Homo sapiens cDNA, FLJ93964, Homo sapiens RAB9B, member RAS oncogene family (RAB9B), mRNA.
KJ893852 - Synthetic construct Homo sapiens clone ccsbBroadEn_03246 RAB9B gene, encodes complete protein.
AB464683 - Synthetic construct DNA, clone: pF1KB8759, Homo sapiens RAB9B gene for RAB9B, member RAS oncogene family, without stop codon, in Flexi system.
JD154208 - Sequence 135232 from Patent EP1572962.
JD056771 - Sequence 37795 from Patent EP1572962.
JD203519 - Sequence 184543 from Patent EP1572962.
JD339226 - Sequence 320250 from Patent EP1572962.
JD177945 - Sequence 158969 from Patent EP1572962.
JD532861 - Sequence 513885 from Patent EP1572962.
JD471695 - Sequence 452719 from Patent EP1572962.
JD116084 - Sequence 97108 from Patent EP1572962.
JD546735 - Sequence 527759 from Patent EP1572962.

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

Protein Q9NP90 (Reactome details) participates in the following event(s):

R-HSA-6798743 Exocytosis of secretory granule membrane proteins
R-HSA-8870466 RGGT:CHM binds RABs
R-HSA-8876191 RAB9 GEFs exchange GTP for GDP on RAB9
R-HSA-8870469 RGGT geranylgeranylates RAB proteins
R-HSA-6814674 Tethering of late endosome-derived vesicles by GARP, STX10:ST16:VTI1A and Golgins
R-HSA-6814670 ATP hydrolysis by RHOBTB3 promotes PLIN3 dissociation
R-HSA-6814675 RAB9 binds RHOBTB3, bringing late endosome-derived vesicles to the TGN
R-HSA-6798695 Neutrophil degranulation
R-HSA-168249 Innate Immune System
R-HSA-6811440 Retrograde transport at the Trans-Golgi-Network
R-HSA-8873719 RAB geranylgeranylation
R-HSA-8876198 RAB GEFs exchange GTP for GDP on RABs
R-HSA-168256 Immune System
R-HSA-6811442 Intra-Golgi and retrograde Golgi-to-ER traffic
R-HSA-597592 Post-translational protein modification
R-HSA-9007101 Rab regulation of trafficking
R-HSA-199991 Membrane Trafficking
R-HSA-392499 Metabolism of proteins
R-HSA-5653656 Vesicle-mediated transport

-  Other Names for This Gene
  Alternate Gene Symbols: B2R8M0, NM_016370, Q52LX2, Q9NP90, RAB9B_HUMAN, RAB9L, uc004ell.1, uc004ell.2, uc004ell.3, uc004ell.4
UCSC ID: uc004ell.4
RefSeq Accession: NM_016370
Protein: Q9NP90 (aka RAB9B_HUMAN or RB9B_HUMAN)
CCDS: CCDS14515.1

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