Human Gene NR2F2 (ENST00000394166.8_4) from GENCODE V47lift37
  Description: nuclear receptor subfamily 2 group F member 2, transcript variant 1 (from RefSeq NM_021005.4)
Gencode Transcript: ENST00000394166.8_4
Gencode Gene: ENSG00000185551.15_8
Transcript (Including UTRs)
   Position: hg19 chr15:96,873,929-96,883,487 Size: 9,559 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr15:96,875,335-96,880,851 Size: 5,517 Coding Exon Count: 3 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:96,873,929-96,883,487)mRNA (may differ from genome)Protein (414 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCHuman Cortex Gene ExpressionMalacardsMGIOMIMPubMed
ReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: COT2_HUMAN
DESCRIPTION: RecName: Full=COUP transcription factor 2; Short=COUP-TF2; AltName: Full=Apolipoprotein A-I regulatory protein 1; Short=ARP-1; AltName: Full=COUP transcription factor II; Short=COUP-TF II; AltName: Full=Nuclear receptor subfamily 2 group F member 2;
FUNCTION: Ligand-activated transcription factor. Activated by high concentrations of 9-cis-retinoic acid and all-trans-retinoic acid, but not by dexamethasone, cortisol or progesterone (in vitro). Regulation of the apolipoprotein A-I gene transcription. Binds to DNA site A.
SUBUNIT: Interacts with SQSTM1 (By similarity). Binds DNA as a dimer; homodimer or heterodimer with NR2F6. Interacts with NCOA1, NCOA2, NCOA3 and PPARGC1A. Interacts with ZFPM2 (By similarity).
SUBCELLULAR LOCATION: Nucleus.
TISSUE SPECIFICITY: Ubiquitous.
SIMILARITY: Belongs to the nuclear hormone receptor family. NR2 subfamily.
SIMILARITY: Contains 1 nuclear receptor DNA-binding 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


-  MalaCards Disease Associations
  MalaCards Gene Search: NR2F2
Diseases sorted by gene-association score: congenital heart defects, multiple types, 4* (1231), complete atrioventricular canal* (25), partial atrioventricular canal* (12), ring chromosome 15 (12), congenital diaphragmatic hernia (10), transposition of the great arteries (8), diaphragm disease (8), pulmonic stenosis (8), deafness, autosomal dominant 15 (6), endometriosis (3), maturity-onset diabetes of the young (2)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 117.33 RPKM in Ovary
Total median expression: 1118.46 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 -540.711406-0.385 Picture PostScript Text
3' UTR -667.702636-0.253 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
IPR003068 - COUP_TF
IPR008946 - Nucl_hormone_rcpt_ligand-bd
IPR000536 - Nucl_hrmn_rcpt_lig-bd_core
IPR001723 - Str_hrmn_rcpt
IPR001628 - Znf_hrmn_rcpt
IPR013088 - Znf_NHR/GATA

Pfam Domains:
PF00104 - Ligand-binding domain of nuclear hormone receptor
PF00105 - Zinc finger, C4 type (two domains)

SCOP Domains:
48508 - Nuclear receptor ligand-binding domain
57716 - Glucocorticoid receptor-like (DNA-binding domain)

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3CJW - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P24468
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 orthologGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001972 retinoic acid binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003707 steroid hormone receptor activity
GO:0003714 transcription corepressor activity
GO:0004879 RNA polymerase II transcription factor activity, ligand-activated sequence-specific DNA binding
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0042803 protein homodimerization activity
GO:0043565 sequence-specific DNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0001701 in utero embryonic development
GO:0001764 neuron migration
GO:0001893 maternal placenta development
GO:0001937 negative regulation of endothelial cell proliferation
GO:0001945 lymph vessel development
GO:0003084 positive regulation of systemic arterial blood pressure
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0006629 lipid metabolic process
GO:0007165 signal transduction
GO:0007519 skeletal muscle tissue development
GO:0009566 fertilization
GO:0009952 anterior/posterior pattern specification
GO:0009956 radial pattern formation
GO:0010596 negative regulation of endothelial cell migration
GO:0030522 intracellular receptor signaling pathway
GO:0030900 forebrain development
GO:0032355 response to estradiol
GO:0043401 steroid hormone mediated signaling pathway
GO:0045736 negative regulation of cyclin-dependent protein serine/threonine kinase activity
GO:0045892 negative regulation of transcription, DNA-templated
GO:0045893 positive regulation of transcription, DNA-templated
GO:0048514 blood vessel morphogenesis
GO:0060173 limb development
GO:0060674 placenta blood vessel development
GO:0060707 trophoblast giant cell differentiation
GO:0060849 regulation of transcription involved in lymphatic endothelial cell fate commitment

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  BC106083 - Homo sapiens nuclear receptor subfamily 2, group F, member 2, mRNA (cDNA clone MGC:117452 IMAGE:4453629), complete cds.
FM208183 - Homo sapiens mRNA for nuclear receptor subfamily 2, group F, member 2 (NR2F2 gene).
AK301595 - Homo sapiens cDNA FLJ50900 complete cds, highly similar to COUP transcription factor 2.
HQ692849 - Homo sapiens chicken ovalbumin upstream promoter-transcription factor II variant 2 (NR2F2) mRNA, complete cds.
JD407351 - Sequence 388375 from Patent EP1572962.
BC042897 - Homo sapiens nuclear receptor subfamily 2, group F, member 2, mRNA (cDNA clone MGC:35309 IMAGE:5177487), complete cds.
JD350555 - Sequence 331579 from Patent EP1572962.
M62760 - Homo sapiens chick ovalbumin upstream promoter transcription factor II (COUP-TFII) mRNA, partial cds.
JD146376 - Sequence 127400 from Patent EP1572962.
JD418810 - Sequence 399834 from Patent EP1572962.
JD407330 - Sequence 388354 from Patent EP1572962.
JD460773 - Sequence 441797 from Patent EP1572962.
M64497 - Human apolipoprotein AI regulatory protein (ARP-1) mRNA, complete cds.
JD325339 - Sequence 306363 from Patent EP1572962.
JD547227 - Sequence 528251 from Patent EP1572962.
BC014664 - Homo sapiens nuclear receptor subfamily 2, group F, member 2, mRNA (cDNA clone MGC:23125 IMAGE:4849984), complete cds.
JD055329 - Sequence 36353 from Patent EP1572962.
AB590514 - Synthetic construct DNA, clone: pFN21AB7696, Homo sapiens NR2F2 gene for nuclear receptor subfamily 2, group F, member 2, without stop codon, in Flexi system.
AB307711 - Homo sapiens NR2F2 mRNA for ovalbumin upstream promoter transcription factor II, complete cds.
HQ692848 - Homo sapiens chicken ovalbumin upstream promoter-transcription factor II variant 1 (NR2F2) mRNA, complete cds.
AK316086 - Homo sapiens cDNA, FLJ78985 complete cds, highly similar to COUP transcription factor 2.
BC034585 - Homo sapiens, Similar to nuclear receptor subfamily 2, group F, member 2, clone IMAGE:4755247, mRNA.
AK298824 - Homo sapiens cDNA FLJ53083 complete cds, highly similar to COUP transcription factor 2.
HQ692850 - Homo sapiens chicken ovalbumin upstream promoter-transcription factor II variant 3 (NR2F2) mRNA, complete cds.
AK025842 - Homo sapiens cDNA: FLJ22189 fis, clone HRC01043.
BX538114 - Homo sapiens mRNA; cDNA DKFZp686C16163 (from clone DKFZp686C16163).
JD360089 - Sequence 341113 from Patent EP1572962.
BC033957 - Homo sapiens nuclear receptor subfamily 2, group F, member 2, mRNA (cDNA clone IMAGE:5287010).
JD562810 - Sequence 543834 from Patent EP1572962.
JD338881 - Sequence 319905 from Patent EP1572962.
JD531148 - Sequence 512172 from Patent EP1572962.
AF087993 - Homo sapiens full length insert cDNA clone YX37E06.

-  Other Names for This Gene
  Alternate Gene Symbols: ARP1, B4DQJ2, B6ZGU1, COT2_HUMAN, ENST00000394166.1, ENST00000394166.2, ENST00000394166.3, ENST00000394166.4, ENST00000394166.5, ENST00000394166.6, ENST00000394166.7, NM_021005, P24468, Q03754, Q3KQR7, TFCOUP2, uc318wlb.1, uc318wlb.2
UCSC ID: ENST00000394166.8_4
RefSeq Accession: NM_021005.4
Protein: P24468 (aka COT2_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene NR2F2:
cdh-ov (Congenital Diaphragmatic Hernia Overview)

-  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.