Human Gene ARFIP2 (ENST00000396777.8_8) from GENCODE V47lift37
  Description: ADP ribosylation factor interacting protein 2, transcript variant 22 (from RefSeq NR_164826.2)
Gencode Transcript: ENST00000396777.8_8
Gencode Gene: ENSG00000132254.13_10
Transcript (Including UTRs)
   Position: hg19 chr11:6,497,749-6,502,561 Size: 4,813 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr11:6,498,343-6,501,651 Size: 3,309 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:6,497,749-6,502,561)mRNA (may differ from genome)Protein (341 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ARFP2_HUMAN
DESCRIPTION: RecName: Full=Arfaptin-2; AltName: Full=ADP-ribosylation factor-interacting protein 2; AltName: Full=Partner of RAC1; Short=Protein POR1;
FUNCTION: Putative target protein of ADP-ribosylation factor. Involved in membrane ruffling.
SUBUNIT: Interacts with RAC1 by binding directly to it. Specifically binds to GTP-bound ARF1 and ARF6, but binds to RAC1.GTP and RAC1.GDP with similar affinities. Directly interacts with ARL1 GTP-bound form; this interaction leads to a > 4-fold increase in the amount of ARL1-bound GTP at steady state level.
INTERACTION: P62330:ARF6; NbExp=4; IntAct=EBI-638194, EBI-638181; P63000:RAC1; NbExp=9; IntAct=EBI-638194, EBI-413628;
SIMILARITY: Contains 1 AH domain.

-  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

+  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: 34.64 RPKM in Prostate
Total median expression: 846.78 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 -65.70143-0.459 Picture PostScript Text
3' UTR -213.20594-0.359 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
IPR010504 - Arfaptin_homology_dom

Pfam Domains:
PF06456 - Arfaptin-like domain

SCOP Domains:
103657 - BAR/IMD domain-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1I49 - X-ray MuPIT 1I4D - X-ray MuPIT 1I4L - X-ray MuPIT 1I4T - X-ray MuPIT 4DCN - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P53365
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 Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0019904 protein domain specific binding
GO:0030742 GTP-dependent protein binding
GO:0042802 identical protein binding
GO:0045296 cadherin binding
GO:0048365 Rac GTPase binding
GO:0070273 phosphatidylinositol-4-phosphate binding

Biological Process:
GO:0007264 small GTPase mediated signal transduction
GO:0030032 lamellipodium assembly
GO:0030036 actin cytoskeleton organization
GO:0031529 ruffle organization
GO:0034315 regulation of Arp2/3 complex-mediated actin nucleation

Cellular Component:
GO:0001726 ruffle
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0005938 cell cortex
GO:0032588 trans-Golgi network membrane


-  Descriptions from all associated GenBank mRNAs
  LF207826 - JP 2014500723-A/15329: Polycomb-Associated Non-Coding RNAs.
AK026390 - Homo sapiens cDNA: FLJ22737 fis, clone HUV00521, highly similar to HSU52522 Human arfaptin 2 mRNA.
BC000392 - Homo sapiens ADP-ribosylation factor interacting protein 2, mRNA (cDNA clone MGC:8467 IMAGE:2821666), complete cds.
U52522 - Human arfaptin 2, putative target protein of ADP-ribosylation factor, mRNA, complete cds.
JD190862 - Sequence 171886 from Patent EP1572962.
JD438800 - Sequence 419824 from Patent EP1572962.
JD060625 - Sequence 41649 from Patent EP1572962.
JD270610 - Sequence 251634 from Patent EP1572962.
JD566175 - Sequence 547199 from Patent EP1572962.
JD187603 - Sequence 168627 from Patent EP1572962.
AK304512 - Homo sapiens cDNA FLJ51194 complete cds, highly similar to Arfaptin-2.
JD282337 - Sequence 263361 from Patent EP1572962.
JD247472 - Sequence 228496 from Patent EP1572962.
AK301856 - Homo sapiens cDNA FLJ52523 complete cds, highly similar to Arfaptin-2.
JD158142 - Sequence 139166 from Patent EP1572962.
JD279119 - Sequence 260143 from Patent EP1572962.
AK300855 - Homo sapiens cDNA FLJ51105 complete cds, highly similar to Arfaptin-2.
AK301972 - Homo sapiens cDNA FLJ51138 complete cds, highly similar to Arfaptin-2.
JD404260 - Sequence 385284 from Patent EP1572962.
JD295774 - Sequence 276798 from Patent EP1572962.
JD215766 - Sequence 196790 from Patent EP1572962.
X97567 - H.sapiens mRNA for por1 protein.
KJ893428 - Synthetic construct Homo sapiens clone ccsbBroadEn_02822 ARFIP2 gene, encodes complete protein.
DQ895156 - Synthetic construct Homo sapiens clone IMAGE:100009616; FLH181901.01L; RZPDo839A07137D ADP-ribosylation factor interacting protein 2 (arfaptin 2) (ARFIP2) gene, encodes complete protein.
DQ891967 - Synthetic construct clone IMAGE:100004597; FLH181905.01X; RZPDo839A07138D ADP-ribosylation factor interacting protein 2 (arfaptin 2) (ARFIP2) gene, encodes complete protein.
AB463402 - Synthetic construct DNA, clone: pF1KB8129, Homo sapiens ARFIP2 gene for ADP-ribosylation factor interacting protein 2, without stop codon, in Flexi system.
AK310267 - Homo sapiens cDNA, FLJ17309.
AK311004 - Homo sapiens cDNA, FLJ18046.
LF369364 - JP 2014500723-A/176867: Polycomb-Associated Non-Coding RNAs.
HZ473958 - WO 2016002844-A/72: ANTI-INVASIVE/ANTI-METASTATIC DRUG FOR PANCREATIC CANCER CELL.
LF369367 - JP 2014500723-A/176870: Polycomb-Associated Non-Coding RNAs.
CU674192 - Synthetic construct Homo sapiens gateway clone IMAGE:100020658 5' read ARFIP2 mRNA.
AK311086 - Homo sapiens cDNA, FLJ18128.
HZ473955 - WO 2016002844-A/69: ANTI-INVASIVE/ANTI-METASTATIC DRUG FOR PANCREATIC CANCER CELL.
AK310833 - Homo sapiens cDNA, FLJ17875.
AK311655 - Homo sapiens cDNA, FLJ18697.
AK309198 - Homo sapiens cDNA, FLJ99239.
LF369371 - JP 2014500723-A/176874: Polycomb-Associated Non-Coding RNAs.
HZ473957 - WO 2016002844-A/71: ANTI-INVASIVE/ANTI-METASTATIC DRUG FOR PANCREATIC CANCER CELL.
JD478174 - Sequence 459198 from Patent EP1572962.
MA604941 - JP 2018138019-A/176867: Polycomb-Associated Non-Coding RNAs.
MA604944 - JP 2018138019-A/176870: Polycomb-Associated Non-Coding RNAs.
MA604948 - JP 2018138019-A/176874: Polycomb-Associated Non-Coding RNAs.
MA443403 - JP 2018138019-A/15329: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_rac1Pathway - Rac 1 cell motility signaling pathway

Reactome (by CSHL, EBI, and GO)

Protein P53365 (Reactome details) participates in the following event(s):

R-HSA-6814094 ARL1:GTP binds ARFIP2
R-HSA-6811440 Retrograde transport at the Trans-Golgi-Network
R-HSA-6811442 Intra-Golgi and retrograde Golgi-to-ER traffic
R-HSA-199991 Membrane Trafficking
R-HSA-5653656 Vesicle-mediated transport

-  Other Names for This Gene
  Alternate Gene Symbols: ARFIP2 , ARFP2_HUMAN, B4DX86, B4E306, D3DQT5, ENST00000396777.1, ENST00000396777.2, ENST00000396777.3, ENST00000396777.4, ENST00000396777.5, ENST00000396777.6, ENST00000396777.7, NR_164826, P53365, POR1 , uc318ymd.1, uc318ymd.2
UCSC ID: ENST00000396777.8_8
RefSeq Accession: NM_001376558.2
Protein: P53365 (aka ARFP2_HUMAN or AFP2_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.