Mouse Gene Arl5a (ENSMUST00000036541.7) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus ADP-ribosylation factor-like 5A (Arl5a), mRNA. (from RefSeq NM_182994)
Gencode Transcript: ENSMUST00000036541.7
Gencode Gene: ENSMUSG00000036093.7
Transcript (Including UTRs)
   Position: mm10 chr2:52,397,951-52,424,901 Size: 26,951 Total Exon Count: 6 Strand: -
Coding Region
   Position: mm10 chr2:52,402,384-52,424,635 Size: 22,252 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:52,397,951-52,424,901)mRNA (may differ from genome)Protein (179 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: ARL5A_MOUSE
DESCRIPTION: RecName: Full=ADP-ribosylation factor-like protein 5A;
FUNCTION: Lacks ADP-ribosylation enhancing activity (By similarity).
SIMILARITY: Belongs to the small GTPase superfamily. Arf 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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -153.20266-0.576 Picture PostScript Text
3' UTR -1121.704433-0.253 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
IPR024156 - Small_GTPase_ARF
IPR006689 - Small_GTPase_ARF/SAR

Pfam Domains:
PF00025 - ADP-ribosylation factor family
PF00071 - Ras family
PF01926 - 50S ribosome-binding GTPase
PF04670 - Gtr1/RagA G protein conserved region
PF08477 - Ras of Complex, Roc, domain of DAPkinase
PF09439 - Signal recognition particle receptor beta subunit

SCOP Domains:
109604 - HD-domain/PDEase-like
52540 - P-loop containing nucleoside triphosphate hydrolases
53795 - PEP carboxykinase-like

ModBase Predicted Comparative 3D Structure on Q80ZU0
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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGDEnsembl   
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0005525 GTP binding

Biological Process:
GO:1903292 protein localization to Golgi membrane

Cellular Component:
GO:0005575 cellular_component
GO:0005622 intracellular


-  Descriptions from all associated GenBank mRNAs
  BC048170 - Mus musculus ADP-ribosylation factor-like 5A, mRNA (cDNA clone MGC:61369 IMAGE:6821976), complete cds.
BC059931 - Mus musculus ADP-ribosylation factor-like 5A, mRNA (cDNA clone IMAGE:6821976).
AK013078 - Mus musculus 10, 11 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2810410P22 product:unclassifiable, full insert sequence.
AK147525 - Mus musculus cDNA, RIKEN full-length enriched library, clone:M5C1061I19 product:ADP-ribosylation factor-like protein 5 homolog [Rattus norvegicus], full insert sequence.
BC100307 - Mus musculus ADP-ribosylation factor-like 5A, mRNA (cDNA clone MGC:117517 IMAGE:30843038), complete cds.
AY974582 - Mus musculus ADP-ribosylation factor 5-like (Arl) mRNA, partial sequence.

-  Other Names for This Gene
  Alternate Gene Symbols: Arl5, ARL5A_MOUSE, NM_182994, Q80ZU0, uc008jqy.1, uc008jqy.2
UCSC ID: uc008jqy.2
RefSeq Accession: NM_182994
Protein: Q80ZU0 (aka ARL5A_MOUSE)
CCDS: CCDS16033.1

-  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.