Human Gene TPRKB (uc002sjn.2)
  Description: Homo sapiens TP53RK binding protein (TPRKB), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr2:73,956,957-73,964,517 Size: 7,561 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr2:73,957,070-73,961,696 Size: 4,627 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:73,956,957-73,964,517)mRNA (may differ from genome)Protein (175 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeTreefamUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TPRKB_HUMAN
DESCRIPTION: RecName: Full=TP53RK-binding protein; AltName: Full=PRPK-binding protein;
SUBUNIT: Interacts with TP53RK/PRPK.
SUBCELLULAR LOCATION: Cytoplasm. Nucleus.
TISSUE SPECIFICITY: Widely expressed.
SIMILARITY: Belongs to the CGI121/TPRKB 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


-  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: 22.53 RPKM in Testis
Total median expression: 474.12 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 -38.50111-0.347 Picture PostScript Text
3' UTR -9.30113-0.082 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
IPR013926 - Kinase-bd_CGI-121

Pfam Domains:
PF08617 - Kinase binding protein CGI-121

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


ModBase Predicted Comparative 3D Structure on Q9Y3C4
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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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0019901 protein kinase binding

Biological Process:
GO:0002949 tRNA threonylcarbamoyladenosine modification
GO:0008033 tRNA processing

Cellular Component:
GO:0000408 EKC/KEOPS complex
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  AK295239 - Homo sapiens cDNA FLJ59202 complete cds, moderately similar to Homo sapiens CGI-121 protein (CGI-121), mRNA.
BC018180 - Homo sapiens cDNA clone IMAGE:3861754, **** WARNING: chimeric clone ****.
AF151879 - Homo sapiens CGI-121 protein mRNA, complete cds.
AK291071 - Homo sapiens cDNA FLJ76394 complete cds, highly similar to Homo sapiens CGI-121 protein (CGI-121), mRNA.
AK097254 - Homo sapiens cDNA FLJ39935 fis, clone SPLEN2021463.
AF060921 - Homo sapiens clone 016h06 My019 protein mRNA, complete cds.
BC029492 - Homo sapiens TP53RK binding protein, mRNA (cDNA clone MGC:33031 IMAGE:5271898), complete cds.
AY157986 - Homo sapiens CGI-121 L1 isoform mRNA, complete cds, alternatively spliced.
AY157987 - Homo sapiens CGI-121 S1 isoform mRNA, complete cds, alternatively spliced.
KJ904737 - Synthetic construct Homo sapiens clone ccsbBroadEn_14131 TPRKB-like gene, encodes complete protein.
AB587435 - Synthetic construct DNA, clone: pF1KB6961, Homo sapiens TPRKB gene for TP53RK binding protein, without stop codon, in Flexi system.
AY643713 - Homo sapiens CGI-121 mRNA, complete cds, alternatively spliced.

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

Protein Q9Y3C4 (Reactome details) participates in the following event(s):

R-HSA-6784494 EKC complex threonylcarbamoylates A37 of tRNAs
R-HSA-6782315 tRNA modification in the nucleus and cytosol
R-HSA-72306 tRNA processing
R-HSA-8953854 Metabolism of RNA

-  Other Names for This Gene
  Alternate Gene Symbols: CGI-121, D6W5H6, My019, NM_016058, NP_057142, Q8IWR6, Q8IWR7, Q9H3K4, Q9Y3C4, TPRKB_HUMAN
UCSC ID: uc002sjn.2
RefSeq Accession: NM_016058
Protein: Q9Y3C4 (aka TPRKB_HUMAN)
CCDS: CCDS1927.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_016058.2
exon count: 5CDS single in 3' UTR: no RNA size: 752
ORF size: 528CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1253.00frame shift in genome: no % Coverage: 100.00
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.