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ARF4 Gene

protein-coding   GIFtS: 60

GC03M057532
ADP-ribosylation factor 4
(Previous name: ADP-ribosylation factor 2 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: ARF2)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
ARF2 2, 3, 5
Descriptions
ADP-ribosylation factor 2 1, 2
ADP-ribosylation factor 4 2
External Ids
HGNC: 6551
Entrez Gene: 3782
UniProtKB: P180853
Ensembl: ENSG000001683747
Search outside databases for aliases for ARF4 gene

Previous GC identifers: GC03M056428 GC03M056911 GC03M057411 GC03M057514 GC03M057507

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

EntrezGene summary for ARF4:
This gene is a member of the human ARF gene family whose members encode small guanine
nucleotide-binding proteins that stimulate the ADP-ribosyltransferase activity of cholera toxin
and play a role in vesicular trafficking and as activators of phospholipase D. The gene products
include 5 ARF proteins and 11 ARF-like proteins and constitute one family of the RAS superfamily.
The ARF proteins are categorized as class I, class II and class III; this gene is a class II
member. The members of each class share a common gene organization. The ARF4 gene spans
approximately 12kb and contains six exons and five introns. This gene is the most divergent member
of the human ARFs. Conflicting map positions at 3p14 or 3p21 have been reported for this gene.
[provided by RefSeq]

UniProtKB/Swiss-Prot: ARF4_HUMAN, P18085
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

Gene Wiki entry for ARF4

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the ARF4 gene  

Entrez Gene cytogenetic band: 3p21.2-p21.1   Ensembl cytogenetic band:  3p14.3   HGNC cytogenetic band: 3p21.2-p21.1

ARF4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M057532:     (about GC identifiers)

Start:
57,532,130 bp from pter
End:
57,558,118 bp from pter
Size:
25,989 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000003.10  NT_022517.17  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: ARF4_HUMAN, P18085 (See protein sequence)
Recommended Name: ADP-ribosylation factor 4  
Size: 180 amino acids; 20511 Da
Subcellular location: Golgi apparatus
Caution: Was originally thought to be ARF2
PDB structures from and Proteopedia :
1Z6X (3D)    
Secondary accessions: B2R7J7 P21371

REFSEQ proteins: NP_001651.1  

ENSEMBL proteins: 
ENSP00000306010 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
Browse Human Recombinant Proteins at Sigma-Aldrich  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (ARF4, ADP Ribosylation Factor)
Human Recombinant Proteins from Abnova (ARF4)
              OriGene Purified Recombinant Human Protein: ARF4 

2 Gene Ontology (GO) cellular component terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005622 intracellular IEA--
GO:0005794 Golgi apparatus IEA--
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Antibodies for ARF4: 
Browse Antibodies Central at Invitrogen
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Browse Antibodies at Sigma-Aldrich
Browse R&D Systems for Antibodies
Antibodies from Abcam (ARF4, ADP Ribosylation Factor), each with their AbpromiseSM
Browse Abnova for Monoclonal and Polyclonal Antibodies
Search Novus for antibodies for ARF4

Assays for ARF4: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

3 InterPro domains/families:
 IPR006688 ARF
 IPR006689 ARF/SAR
 IPR005225 Small_GTP_bd


   GeneDecks  ARF4 for the domains selected above  
About GeneDecksing

Graphical View of Domain Structure for InterPro Entry P18085

ProtoNet protein and cluster: P18085

1 Blocks protein family: IPB006688 ADP-ribosylation factor

UniProtKB/Swiss-Prot: ARF4_HUMAN, P18085
Similarity: Belongs to the small GTPase superfamily. Arf family

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (ARF4)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (ARF4)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_001660

              Applied Biosystems Silencer® siRNAs for ARF4

              Sigma-Aldrich siRNA for ARF4  
                     Sigma-Aldrich shRNA for ARF4  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for ARF4
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_001660
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_001660
                                 untagged cDNA clone in CMV expression vector: NM_001660 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_001660

UniProtKB/Swiss-Prot: ARF4_HUMAN, P18085
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

Genatlas biochemistry entry for ARF4:
ADP ribosylation factor 4,class II,20kDa,low molecular weight GTP binding protein,a guanine
nucleotide dependent protein activator of cholera toxin,widely expressed,except in brain,involved
in vesicular trafficking and activation of phospholipase D

3 Gene Ontology (GO) molecular function terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0000166 nucleotide binding IEA--
GO:0003924 GTPase activity TAS2107548
GO:0005525 GTP binding IEA--
About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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1 Sigma-Aldrich "Your Favorite Gene" Pathway for  ARF4  (Your Favorite Gene powered by Ingenuity) 
 Integrin Signaling

   GeneDecks  ARF4 for the pathways selected above  
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 Gene Network CentralTM Interacting Genes and Proteins Network for  ARF4 


5/13 Interacting proteins for ARF4 (ENSP000003060103) via UniProtKB, MINT, and/or STRING (see all 13 )
InteractantInteraction Details
GeneCardExternal ID(s)
CDKN2AENSP000003551533STRING (score=.94)
RHOENSP000002962713STRING (score=.895)
ARL4DENSP000003226283STRING (score=.817)
ARF6ENSP000002983163STRING (score=.811)
ARF1ENSP000002721023STRING (score=.809)
About this table

3 Gene Ontology (GO) biological process terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0007264 small GTPase mediated signal transduction IEA--
GO:0015031 protein transport IEA--
GO:0016192 vesicle-mediated transport IEA--
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Enzo Life Sciences drugs & compounds for ARF4
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for ARF4
2 PharmGKB drug compound relationships for ARF4 gene
Drug compound PharmGKB Relations PubMed IDs for articles supporting these relationships
mercaptopurinePD  FA  GN  12704389
methotrexatePD  FA  GN  12704389
About this table


(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (ARF4)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (ARF4)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_001660

              Sigma-Aldrich siRNA for ARF4  
                     Sigma-Aldrich shRNA for ARF4  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_001660  

REFSEQ mRNAs for ARF4 gene: 

NM_001660.3   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_001660  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_001660
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_001660
                                 untagged cDNA clone in CMV expression vector: NM_001660 

Additional cDNA sequence: 

AF493883.1 AK313008.1 BC003364.1 BC008753.2 BC016325.1 BC022866.1 CR591127.1 CR591617.1 
CR592933.1 CR595935.1 CR596585.1 CR597516.1 CR607207.1 CR607867.1 CR611196.1 CR611234.1 
CR615713.1 CR618819.1 CR622582.1 CR625816.1 CR625897.1 M36341.1 

24/31 DOTS entries (see all 31 ):

DT.120191  DT.92465044  DT.95278541  DT.92389272  DT.100883817  DT.92039146  DT.100883824  DT.100678387 
DT.120912848  DT.120912819  DT.100883821  DT.120912851  DT.100032418  DT.92465093  DT.100883809  DT.100883810 
DT.100883812  DT.92377942  DT.92465055  DT.100039128  DT.120912903  DT.120912924  DT.121494332  DT.95322144 

24/1234 AceView cDNA sequences (see all 1234 ):

CR607207 AA385193 BX391951 BU679960 R58940 CR591127 BU683333 AA330315 
T27653 AL555133 BC003364 BU155868 BF593865 AW262738 AA248202 BM802529 
BU632851 CB158141 BE897537 W25530 CB145784 AV722290 CB055283 AA131305 

highest scoring ESTs for ARF4:

M36341 AA058455 AA081519 AA133436 AA161518 AA205553 AA296296 AA304113 AA305135 AA307503 

Unigene Cluster for ARF4:

ADP-ribosylation factor 4
Hs.695943  [show with all ESTs]
Unigene Representative Sequence: NM_001660


GeneLoc Exon Structure

5/7 Alternative Splicing Database (ASD) splice patterns (SP) for ARF4 (see all 7 )

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b ^ 3 ^ 4 ^ 5a · 5b · 5c · 5d ^ 6 ^ 7a · 7b ^ 8a · 8b · 8c · 8d
SP1:                                            -           -     -                                                         
SP2:                                            -           -     -                                                         
SP3:                                            -           -                                                               
SP4:                                            -           -     -     -     -                                             
SP5:                                            -     -     -     -     -     -                                             

About this scheme

ECgene alternative splicing isoforms for ARF4

1 Ensembl transcript including schematic representation:
ENST00000303436  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

ARF4 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for ARF4

1 / 2 / 3

5 probe-sets matching ARF4 gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

36585_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 M36341 1.00 1.00 1.00 1

201097_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_001660 0.60 1.00 0.82 1

201096_s_at2, 3 U133-A 3 1.00 0.85 -- -- AL537042 0.60 1.00 0.82 1

201097_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

201096_s_at2 U133Plus2 3 1.00 0.85 -- -- -- -- -- -- --
About this table
Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: TTGCTTTTGT

SOURCE GeneReport for Unigene cluster: Hs.695943

Expression variation in blood from EXPOLDB for ARF4

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for ARF4 gene from 5/11 species (see all 11 )
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
ARF41   -- ADP-ribosylation factor 4 95.37(n)
96.67(a)
607073  XM_843954.1  XP_849047.1 
chimpanzee
(Pan troglodytes)
ARF41   -- ADP-ribosylation factor 4 99.63(n)
100(a)
747376  XM_001173799.1  XP_001173799.1 
cow
(Bos taurus)
ARF41   -- ADP-ribosylation factor 4 94.81(n)
96.67(a)
518601  NM_001034530.1  NP_001029702.1 
rat
(Rattus norvegicus)
Arf41   -- ADP-ribosylation factor 4 91.48(n)
96.11(a)
79120  NM_024151.1  NP_077065.1 
mouse
(Mus musculus)
Arf41, 5 14 (8.50 cM)5
ADP-ribosylation factor 41, 5 92.59(n)1
96.11(a)1
118431  NM_007479.31  NP_031505.11 
 AA4078035  AI3238145  (see all 22)
About this table        Species with no ortholog for ARF4

ENSEMBL Gene Tree for ARF4
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for ARF4 gene
ARF52  

Pseudogenes
4 related pseudogenes


(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/142 NCBI SNPs in ARF4 are shown (see all 142 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 39)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 3 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs98828591,2
A,C,F,H57558551(+) CGGTAC/TGCGCG 1 -- ng314Minor allele frequency- T:0.36EU EA WA 412
rs117141521,2
C,F,H57559156(+) TTTATA/CTTTTT 1 -- ng318Minor allele frequency- C:0.06EU EA WA 838
rs117131951,2
C,F,H57558557(+) GCGCGA/GTGGGT 1 -- ng311Minor allele frequency- G:0.02WA 118
--
rs115505971,2
C,F57544720(-) GGATGC/TTGGTG 1 V/A mis14Minor allele frequency- T:0.50EU EA WA 420
--
rs119641,2
F,O57532874(-) ACTGGT/CTTGGG 1 -- ut311Minor allele frequency- C:0.02MN 184
rs98447801,2
F,H57558305(+) TGACGT/AGCATC 1 -- ng314Minor allele frequency- A:0.19EU EA WA 404
--
rs93116541,2
C57531869(+) CCTCCC/TAAAGT 1 -- ng510--------
rs69061,2
F57532200(-) ACTCAT/CCAAAT 1 -- ut311Minor allele frequency- C:0.15MN 184
rs67671231,2
A,C,F,H57553316(+) ACCAGG/TTATAC 1 -- int16Minor allele frequency- T:0.09EU EA NA 436
rs111305901,2
A,C,F,H57542931(+) TTCCAT/AAAGGA 1 -- int14Minor allele frequency- A:0.36EU EA WA 418
About this table

HapMap Linkage Disequilibrium images for ARF4 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 601177

1 Novoseek disease relationship for ARF4 gene

Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
cholera 38.16 2 10524252 (1)
About this table

1 PharmGKB disease relationship for ARF4 gene
Disease PharmGKB Relations PubMed IDs for articles supporting these relationships
Leukemia, Lymphocytic, Acute, L1PD  FA  GN  12704389
About this table

(Possibly Related Articles in Doctor's Guide)
About This Section

  --

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
About This Section

10/30 PubMed articles for ARF4 gene (see all 30 ):
(in PubMed, OMIM, and NCBI Bookshelf)
About This Section

 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)
(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
About This Section

Entrez Gene: 378 HGNC: 655 AceView: ARF4 Ensembl:ENSG00000168374 euGenes: HUgn378
ECgene: ARF4 H-InvDB: ARF4
(According to HUGE)
About This Section

  --
(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section

  --
(Available from WIS Yeda, Salk, Tufts)
About This Section

  --
(Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
Enzo Life Sciences, and/or Tocris Bioscience)
About This Section



Products for ARF4:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



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 Predesigned and custom siRNAs for ARF4 Browse antibodies at Sigma-Aldrich
 Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
 Lentivirus-delivered shRNAs for ARF4 Browse small molecules at Sigma-Aldrich
 "Your Favorite Gene" Pathwaysfeedback


  
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 Tagged/untagged cDNA clones
 Validated SYBR primer pairs
 Purified proteins from HEK293T cells
 Western blot validated antibodies
 shRNA in GFP-retroviral vector
 Search Tocris compounds for ARF4




 Drugs for ARF4
 Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
 Search Novus for antibodies for ARF4

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