Human Gene RAB41 (ENST00000276066.4_3) from GENCODE V47lift37
  Description: RAB41, member RAS oncogene family, transcript variant 1 (from RefSeq NM_001032726.3)
Gencode Transcript: ENST00000276066.4_3
Gencode Gene: ENSG00000147127.8_9
Transcript (Including UTRs)
   Position: hg19 chrX:69,502,022-69,504,852 Size: 2,831 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chrX:69,502,068-69,504,493 Size: 2,426 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:69,502,022-69,504,852)mRNA (may differ from genome)Protein (221 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RAB41_HUMAN
DESCRIPTION: RecName: Full=Ras-related protein Rab-41;
SIMILARITY: Belongs to the small GTPase superfamily. Rab family.
SEQUENCE CAUTION: Sequence=CAI41489.1; Type=Erroneous initiation;

-  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


+  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: 3.20 RPKM in Testis
Total median expression: 22.53 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 -15.5046-0.337 Picture PostScript Text
3' UTR -68.70359-0.191 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 Q5JT25
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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 orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  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

Biological Process:
GO:0006890 retrograde vesicle-mediated transport, Golgi to ER
GO:0006891 intra-Golgi vesicle-mediated transport
GO:0042147 retrograde transport, endosome to Golgi

Cellular Component:
GO:0000139 Golgi membrane
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  BC117239 - Homo sapiens RAB41, member RAS oncogene family, mRNA (cDNA clone MGC:150848 IMAGE:40125790), complete cds.
BC143888 - Homo sapiens cDNA clone IMAGE:9052405, containing frame-shift errors.
HQ258116 - Synthetic construct Homo sapiens clone IMAGE:100072425 Unknown protein gene, encodes complete protein.
KJ896115 - Synthetic construct Homo sapiens clone ccsbBroadEn_05509 RAB41 gene, encodes complete protein.

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

Protein Q5JT25 (Reactome details) participates in the following event(s):

R-HSA-8849748 The COG complex binds RABs at the Golgi membrane
R-HSA-8870466 RGGT:CHM binds RABs
R-HSA-8870469 RGGT geranylgeranylates RAB proteins
R-HSA-6811438 Intra-Golgi traffic
R-HSA-8873719 RAB geranylgeranylation
R-HSA-6811442 Intra-Golgi and retrograde Golgi-to-ER traffic
R-HSA-597592 Post-translational protein modification
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: ENST00000276066.1, ENST00000276066.2, ENST00000276066.3, NM_001032726, Q17RQ0, Q5JT25, RAB41_HUMAN, uc317jjg.1
UCSC ID: ENST00000276066.4_3
RefSeq Accession: NM_001032726.3
Protein: Q5JT25 (aka RAB41_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.