Human Gene PNRC2 (uc001big.3) Description and Page Index
  Description: Homo sapiens proline-rich nuclear receptor coactivator 2 (PNRC2), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:24,286,301-24,289,949 Size: 3,649 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr1:24,287,948-24,288,367 Size: 420 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-15

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr1:24,286,301-24,289,949)mRNA (may differ from genome)Protein (139 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
neXtProtOMIMPubMedReactomeStanford SOURCETreefam

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Proline-rich nuclear receptor coactivator 2;
FUNCTION: Involved in nonsense-mediated mRNA decay (NMD) by acting as a bridge between the mRNA decapping complex and the NMD machinery. May act by targeting the NMD machinery to the P-body and recruiting the decapping machinery to aberrant mRNAs. Required for UPF1/RENT1 localization to the P-body. Also acts as a nuclear receptor coactivator. May play a role in controlling the energy balance between energy storage and energy expenditure.
SUBUNIT: Interacts with UPF1/RENT1; preferentially interacts with hyperphosphorylated form. Interacts with DCP1A. Interacts with many nuclear receptors including ESR1, ESRRA, ESRRG, NR3C1/GR, NR5A1, PGR, TR, RAR and RXR.
INTERACTION: Q92900:UPF1; NbExp=9; IntAct=EBI-726549, EBI-373471;
SUBCELLULAR LOCATION: Nucleus. Cytoplasm, P-body.
TISSUE SPECIFICITY: Expressed in heart, lung, muscle and brain.
DOMAIN: The interaction between PNRC2 and nuclear receptors is dependent on the SH3 binding motif.
SIMILARITY: Belongs to the PNRC family. PNRC2 subfamily.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 70.09 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 1699.89 RPKM

View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -161.00412-0.391 Picture PostScript Text
3' UTR -386.081582-0.244 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
IPR026781 - PNRC2

Pfam Domains:
PF15365 - Proline-rich nuclear receptor coactivator motif

ModBase Predicted Comparative 3D Structure on Q9NPJ4
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 Details     
Gene Sorter     

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0031087 deadenylation-independent decapping of nuclear-transcribed mRNA

Cellular Component:
GO:0000932 P-body
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0005829 cytosol

-  Descriptions from all associated GenBank mRNAs
  AF151042 - Homo sapiens HSPC208 mRNA, complete cds.
AK300522 - Homo sapiens cDNA FLJ57595 complete cds, moderately similar to Proline-rich nuclear receptor coactivator 2.
BC068475 - Homo sapiens cDNA clone IMAGE:5275756, containing frame-shift errors.
AK311305 - Homo sapiens cDNA, FLJ18347.
BC001959 - Homo sapiens proline-rich nuclear receptor coactivator 2, mRNA (cDNA clone MGC:885 IMAGE:3536977), complete cds.
BC085018 - Homo sapiens proline-rich nuclear receptor coactivator 2, mRNA (cDNA clone MGC:99541 IMAGE:6650445), complete cds.
BC078177 - Homo sapiens proline-rich nuclear receptor coactivator 2, mRNA (cDNA clone MGC:87829 IMAGE:6526331), complete cds.
AF374386 - Homo sapiens proline-rich nuclear receptor coactivator 2 (PNRC2) mRNA, complete cds.
JD417297 - Sequence 398321 from Patent EP1572962.
JD228730 - Sequence 209754 from Patent EP1572962.
JD228731 - Sequence 209755 from Patent EP1572962.
JD173710 - Sequence 154734 from Patent EP1572962.
JD307600 - Sequence 288624 from Patent EP1572962.
JD422380 - Sequence 403404 from Patent EP1572962.
JD175024 - Sequence 156048 from Patent EP1572962.
JD231178 - Sequence 212202 from Patent EP1572962.
AK000319 - Homo sapiens cDNA FLJ20312 fis, clone HEP07362.
JD495216 - Sequence 476240 from Patent EP1572962.
AB464670 - Synthetic construct DNA, clone: pF1KB8741, Homo sapiens PNRC2 gene for proline-rich nuclear receptor coactivator 2, without stop codon, in Flexi system.
KJ894218 - Synthetic construct Homo sapiens clone ccsbBroadEn_03612 PNRC2 gene, encodes complete protein.
AK024774 - Homo sapiens cDNA: FLJ21121 fis, clone CAS05913.
JD376694 - Sequence 357718 from Patent EP1572962.
JD085286 - Sequence 66310 from Patent EP1572962.
JD357757 - Sequence 338781 from Patent EP1572962.
JD188457 - Sequence 169481 from Patent EP1572962.
JD280271 - Sequence 261295 from Patent EP1572962.
JD224265 - Sequence 205289 from Patent EP1572962.
JD410683 - Sequence 391707 from Patent EP1572962.
JD242379 - Sequence 223403 from Patent EP1572962.
JD114307 - Sequence 95331 from Patent EP1572962.
JD114308 - Sequence 95332 from Patent EP1572962.
JD088579 - Sequence 69603 from Patent EP1572962.

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

Protein Q9NPJ4 (Reactome details) participates in the following event(s):

R-HSA-975957 Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)
R-HSA-927802 Nonsense-Mediated Decay (NMD)
R-HSA-8953854 Metabolism of RNA

-  Other Names for This Gene
  Alternate Gene Symbols: B4DU72, HSPC208, NM_017761, NP_060231, PNRC2_HUMAN, Q9NPJ4
UCSC ID: uc001big.3
RefSeq Accession: NM_017761
Protein: Q9NPJ4 (aka PNRC2_HUMAN)

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_017761.3
exon count: 3CDS single in 3' UTR: no RNA size: 2428
ORF size: 420CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 954.50frame shift in genome: no % Coverage: 99.42
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.