Human Gene ARF3 (ENST00000256682.9_7) from GENCODE V47lift37
  Description: ADP ribosylation factor 3 (from RefSeq NM_001659.3)
Gencode Transcript: ENST00000256682.9_7
Gencode Gene: ENSG00000134287.10_11
Transcript (Including UTRs)
   Position: hg19 chr12:49,329,506-49,351,270 Size: 21,765 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr12:49,332,730-49,334,878 Size: 2,149 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:49,329,506-49,351,270)mRNA (may differ from genome)Protein (181 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ARF3_HUMAN
DESCRIPTION: RecName: Full=ADP-ribosylation factor 3;
FUNCTION: GTP-binding protein that functions as an allosteric activator of the cholera toxin catalytic subunit, an ADP- ribosyltransferase. Involved in protein trafficking; may modulate vesicle budding and uncoating within the Golgi apparatus.
SUBUNIT: Interacts with PRKCABP. Interacts with PI4KB and NCS1/FREQ at the Golgi complex.
SUBCELLULAR LOCATION: Golgi apparatus. Cytoplasm, perinuclear region.
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


-  MalaCards Disease Associations
  MalaCards Gene Search: ARF3
Diseases sorted by gene-association score: cholera (22), distal hereditary motor neuropathy, type ii (3), hypotrichosis 3 (2), cardiomyopathy, dilated, 1p (1)

-  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: 1.52 RPKM in Brain - Nucleus accumbens (basal ganglia)
Total median expression: 26.25 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 -108.10271-0.399 Picture PostScript Text
3' UTR -1142.103224-0.354 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:
52540 - P-loop containing nucleoside triphosphate hydrolases
53901 - Thiolase-like

ModBase Predicted Comparative 3D Structure on P61204
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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003924 GTPase activity
GO:0005525 GTP binding

Biological Process:
GO:0006661 phosphatidylinositol biosynthetic process
GO:0006890 retrograde vesicle-mediated transport, Golgi to ER
GO:0015031 protein transport
GO:0016192 vesicle-mediated transport

Cellular Component:
GO:0000139 Golgi membrane
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0048471 perinuclear region of cytoplasm
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  LF210431 - JP 2014500723-A/17934: Polycomb-Associated Non-Coding RNAs.
BC017565 - Homo sapiens ADP-ribosylation factor 3, mRNA (cDNA clone MGC:1802 IMAGE:2967578), complete cds.
BC007647 - Homo sapiens ADP-ribosylation factor 3, mRNA (cDNA clone MGC:15946 IMAGE:3537965), complete cds.
LF385077 - JP 2014500723-A/192580: Polycomb-Associated Non-Coding RNAs.
M74491 - Human ADP-ribosylation factor 3 mRNA, complete cds.
BC028402 - Homo sapiens ADP-ribosylation factor 3, mRNA (cDNA clone MGC:33515 IMAGE:4817874), complete cds.
LF337873 - JP 2014500723-A/145376: Polycomb-Associated Non-Coding RNAs.
JD082612 - Sequence 63636 from Patent EP1572962.
JD121622 - Sequence 102646 from Patent EP1572962.
JD134502 - Sequence 115526 from Patent EP1572962.
JD392585 - Sequence 373609 from Patent EP1572962.
JD288618 - Sequence 269642 from Patent EP1572962.
JD538554 - Sequence 519578 from Patent EP1572962.
DL491369 - Novel nucleic acids.
JD243019 - Sequence 224043 from Patent EP1572962.
DL489999 - Novel nucleic acids.
JD161195 - Sequence 142219 from Patent EP1572962.
JD344746 - Sequence 325770 from Patent EP1572962.
JD053740 - Sequence 34764 from Patent EP1572962.
JD178017 - Sequence 159041 from Patent EP1572962.
JD381454 - Sequence 362478 from Patent EP1572962.
JD357576 - Sequence 338600 from Patent EP1572962.
LF337874 - JP 2014500723-A/145377: Polycomb-Associated Non-Coding RNAs.
JD297818 - Sequence 278842 from Patent EP1572962.
JD373921 - Sequence 354945 from Patent EP1572962.
JD549172 - Sequence 530196 from Patent EP1572962.
JD268181 - Sequence 249205 from Patent EP1572962.
JD041839 - Sequence 22863 from Patent EP1572962.
JD235618 - Sequence 216642 from Patent EP1572962.
JD535911 - Sequence 516935 from Patent EP1572962.
JD248007 - Sequence 229031 from Patent EP1572962.
JD546773 - Sequence 527797 from Patent EP1572962.
JD386100 - Sequence 367124 from Patent EP1572962.
JD131632 - Sequence 112656 from Patent EP1572962.
AK315970 - Homo sapiens cDNA, FLJ78869 complete cds.
JD048683 - Sequence 29707 from Patent EP1572962.
JD545701 - Sequence 526725 from Patent EP1572962.
JD190567 - Sequence 171591 from Patent EP1572962.
JD469137 - Sequence 450161 from Patent EP1572962.
JD113921 - Sequence 94945 from Patent EP1572962.
JD342953 - Sequence 323977 from Patent EP1572962.
LF337875 - JP 2014500723-A/145378: Polycomb-Associated Non-Coding RNAs.
AK309899 - Homo sapiens cDNA, FLJ99940.
AK300080 - Homo sapiens cDNA FLJ57792 complete cds.
JD121556 - Sequence 102580 from Patent EP1572962.
JD448104 - Sequence 429128 from Patent EP1572962.
JD511368 - Sequence 492392 from Patent EP1572962.
JD367334 - Sequence 348358 from Patent EP1572962.
JD361779 - Sequence 342803 from Patent EP1572962.
JD265477 - Sequence 246501 from Patent EP1572962.
JD290291 - Sequence 271315 from Patent EP1572962.
JD165834 - Sequence 146858 from Patent EP1572962.
JD320536 - Sequence 301560 from Patent EP1572962.
JD310293 - Sequence 291317 from Patent EP1572962.
AK291633 - Homo sapiens cDNA FLJ75717 complete cds, highly similar to Homo sapiens ADP-ribosylation factor 3 (ARF3), mRNA.
JD091306 - Sequence 72330 from Patent EP1572962.
JD485847 - Sequence 466871 from Patent EP1572962.
JD092073 - Sequence 73097 from Patent EP1572962.
JD565155 - Sequence 546179 from Patent EP1572962.
JD240889 - Sequence 221913 from Patent EP1572962.
AK316528 - Homo sapiens cDNA, FLJ79427 complete cds, highly similar to ADP-ribosylation factor 3.
JD562408 - Sequence 543432 from Patent EP1572962.
LF337876 - JP 2014500723-A/145379: Polycomb-Associated Non-Coding RNAs.
AK303726 - Homo sapiens cDNA FLJ57770 complete cds, moderately similar to ADP-ribosylation factor 3.
BC007762 - Homo sapiens ADP-ribosylation factor 3, mRNA (cDNA clone MGC:12839 IMAGE:4126378), complete cds.
JD397690 - Sequence 378714 from Patent EP1572962.
JD195515 - Sequence 176539 from Patent EP1572962.
JD096193 - Sequence 77217 from Patent EP1572962.
M33384 - Human ADP-ribosylation factor (ARF3) mRNA, complete cds.
JD514382 - Sequence 495406 from Patent EP1572962.
EU832818 - Synthetic construct Homo sapiens clone HAIB:100067847; DKFZo008F0233 ADP-ribosylation factor 3 protein (ARF3) gene, encodes complete protein.
AF493882 - Homo sapiens ADP-ribosylation factor protein 3 (ARF3) mRNA, complete cds.
CU688492 - Synthetic construct Homo sapiens gateway clone IMAGE:100020191 5' read ARF3 mRNA.
GQ129444 - Synthetic construct Homo sapiens clone HAIB:100068508; DKFZo004F0234 ADP-ribosylation factor 3 protein (ARF3) gene, partial cds.
KJ890701 - Synthetic construct Homo sapiens clone ccsbBroadEn_00095 ARF3 gene, encodes complete protein.
BT006670 - Homo sapiens ADP-ribosylation factor 3 mRNA, complete cds.
AB528672 - Synthetic construct DNA, clone: pF1KB6881, Homo sapiens ARF3 gene for ADP-ribosylation factor 3, without stop codon, in Flexi system.
JD123493 - Sequence 104517 from Patent EP1572962.
JD342948 - Sequence 323972 from Patent EP1572962.
JD142352 - Sequence 123376 from Patent EP1572962.
JD538244 - Sequence 519268 from Patent EP1572962.
JD462176 - Sequence 443200 from Patent EP1572962.
JD170895 - Sequence 151919 from Patent EP1572962.
JD213931 - Sequence 194955 from Patent EP1572962.
JD484191 - Sequence 465215 from Patent EP1572962.
JD222606 - Sequence 203630 from Patent EP1572962.
JD242402 - Sequence 223426 from Patent EP1572962.
JD146366 - Sequence 127390 from Patent EP1572962.
JD230997 - Sequence 212021 from Patent EP1572962.
LF337888 - JP 2014500723-A/145391: Polycomb-Associated Non-Coding RNAs.
MA620654 - JP 2018138019-A/192580: Polycomb-Associated Non-Coding RNAs.
MA446008 - JP 2018138019-A/17934: Polycomb-Associated Non-Coding RNAs.
MA573450 - JP 2018138019-A/145376: Polycomb-Associated Non-Coding RNAs.
MA573451 - JP 2018138019-A/145377: Polycomb-Associated Non-Coding RNAs.
MA573452 - JP 2018138019-A/145378: Polycomb-Associated Non-Coding RNAs.
MA573453 - JP 2018138019-A/145379: Polycomb-Associated Non-Coding RNAs.
MA573465 - JP 2018138019-A/145391: Polycomb-Associated Non-Coding RNAs.

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

Protein P61204 (Reactome details) participates in the following event(s):

R-HSA-1676152 PI4KB binds to ARF1/3:GTP at the Golgi membrane
R-HSA-6807866 GBF1 recruits ARF:GDP to the ERGIC
R-HSA-6811411 GBF1 recruits ARF:GDP to the Golgi
R-HSA-6807877 ARFGAPs stimulate ARF GTPase activity
R-HSA-6811418 ARFGAPs stimulate ARF GTPase activity at the Golgi membrane
R-HSA-6807868 GBF1 stimulates ARF nucleotide exchange
R-HSA-6811414 GBF1 stimulates nucleotide exchange on ARF
R-HSA-6807872 Active ARF recruits coatomer
R-HSA-6811412 Active ARF recruits coatomer to the Golgi
R-HSA-1675883 PI is phosphorylated to PI4P by PI4KB at the Golgi membrane
R-HSA-6807875 ARFGAP, cargo, v-SNAREs and p24 proteins bind nascent COPI complex
R-HSA-6811417 ARFGAP, cargo, vSNARES and p24 proteins bind COPI vesicles at Golgi
R-HSA-1660514 Synthesis of PIPs at the Golgi membrane
R-HSA-6807878 COPI-mediated anterograde transport
R-HSA-6811434 COPI-dependent Golgi-to-ER retrograde traffic
R-HSA-1483255 PI Metabolism
R-HSA-199977 ER to Golgi Anterograde Transport
R-HSA-8856688 Golgi-to-ER retrograde transport
R-HSA-1483257 Phospholipid metabolism
R-HSA-199991 Membrane Trafficking
R-HSA-948021 Transport to the Golgi and subsequent modification
R-HSA-6811442 Intra-Golgi and retrograde Golgi-to-ER traffic
R-HSA-556833 Metabolism of lipids
R-HSA-5653656 Vesicle-mediated transport
R-HSA-446203 Asparagine N-linked glycosylation
R-HSA-1430728 Metabolism
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: A8K6G8, ARF3_HUMAN, B7ZB63, ENST00000256682.1, ENST00000256682.2, ENST00000256682.3, ENST00000256682.4, ENST00000256682.5, ENST00000256682.6, ENST00000256682.7, ENST00000256682.8, NM_001659, P16587, P61204, uc317fvw.1, uc317fvw.2
UCSC ID: ENST00000256682.9_7
RefSeq Accession: NM_001659.3
Protein: P61204 (aka ARF3_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.