Human Gene NOP53 (ENST00000246802.10_4) from GENCODE V47lift37
  Description: NOP53 ribosome biogenesis factor (from RefSeq NM_015710.5)
Gencode Transcript: ENST00000246802.10_4
Gencode Gene: ENSG00000105373.19_12
Transcript (Including UTRs)
   Position: hg19 chr19:48,248,803-48,260,315 Size: 11,513 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr19:48,248,817-48,260,262 Size: 11,446 Coding Exon Count: 13 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:48,248,803-48,260,315)mRNA (may differ from genome)Protein (478 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
MalacardsMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: GSCR2_HUMAN
DESCRIPTION: RecName: Full=Glioma tumor suppressor candidate region gene 2 protein; AltName: Full=p60;
SUBUNIT: Interacts with HSV-1 early proteins ICP22 and ICP0.
SUBCELLULAR LOCATION: Nucleus, nucleolus.
TISSUE SPECIFICITY: Expressed at high levels in heart and pancreas, moderate levels in placenta, liver, skeletal muscle, and kidney, and low levels in brain and lung.
SIMILARITY: Belongs to the GLTSCR2 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


-  MalaCards Disease Associations
  MalaCards Gene Search: NOP53
Diseases sorted by gene-association score: human herpesvirus 8 (7), keratosis, seborrheic, somatic (5), herpes simplex (4)

+  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: 443.04 RPKM in Ovary
Total median expression: 7970.90 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
3' UTR -5.9053-0.111 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
IPR011211 - Gltscr2
IPR011687 - P60-like

Pfam Domains:
PF07767 - Nop53 (60S ribosomal biogenesis)

ModBase Predicted Comparative 3D Structure on Q9NZM5
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 orthologGenome Browser
Gene DetailsGene Details Gene Details Gene Details
Gene SorterGene Sorter Gene Sorter Gene Sorter
 RGDEnsembl  SGD
     Protein Sequence
     Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0002039 p53 binding
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0008097 5S rRNA binding
GO:0042802 identical protein binding

Biological Process:
GO:0000027 ribosomal large subunit assembly
GO:0000055 ribosomal large subunit export from nucleus
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0001932 regulation of protein phosphorylation
GO:0006281 DNA repair
GO:0006974 cellular response to DNA damage stimulus
GO:0007095 mitotic G2 DNA damage checkpoint
GO:0014067 negative regulation of phosphatidylinositol 3-kinase signaling
GO:0031333 negative regulation of protein complex assembly
GO:0032435 negative regulation of proteasomal ubiquitin-dependent protein catabolic process
GO:0032436 positive regulation of proteasomal ubiquitin-dependent protein catabolic process
GO:0039535 regulation of RIG-I signaling pathway
GO:0042254 ribosome biogenesis
GO:0042981 regulation of apoptotic process
GO:0050821 protein stabilization
GO:0051726 regulation of cell cycle
GO:0051898 negative regulation of protein kinase B signaling
GO:0071456 cellular response to hypoxia
GO:1901796 regulation of signal transduction by p53 class mediator
GO:1901797 negative regulation of signal transduction by p53 class mediator
GO:1901837 negative regulation of transcription of nuclear large rRNA transcript from RNA polymerase I promoter
GO:1902570 protein localization to nucleolus
GO:1903006 positive regulation of protein K63-linked deubiquitination
GO:1903715 regulation of aerobic respiration
GO:1990173 protein localization to nucleoplasm

Cellular Component:
GO:0001650 fibrillar center
GO:0005622 intracellular
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0005829 cytosol
GO:0043231 intracellular membrane-bounded organelle
GO:0033553 rDNA heterochromatin


-  Descriptions from all associated GenBank mRNAs
  LF384219 - JP 2014500723-A/191722: Polycomb-Associated Non-Coding RNAs.
AK225915 - Homo sapiens mRNA for glioma tumor suppressor candidate region gene 2 variant, clone: FCC118G07.
AK303180 - Homo sapiens cDNA FLJ57014 complete cds, highly similar to Glioma tumor suppressor candidate region gene 2 protein.
AK297877 - Homo sapiens cDNA FLJ58318 complete cds, highly similar to Glioma tumor suppressor candidate region gene 2 protein.
AK309788 - Homo sapiens cDNA, FLJ99829.
AK303918 - Homo sapiens cDNA FLJ61695 complete cds, highly similar to Glioma tumor suppressor candidate region gene 2 protein.
AK301117 - Homo sapiens cDNA FLJ52137 complete cds, moderately similar to Glioma tumor suppressor candidate region gene 2 protein.
AF182076 - Homo sapiens glioma tumor suppressor candidate region protein 2 (GLTSCR2) mRNA, complete cds.
BC006311 - Homo sapiens glioma tumor suppressor candidate region gene 2, mRNA (cDNA clone MGC:12572 IMAGE:4111480), complete cds.
LF213915 - JP 2014500723-A/21418: Polycomb-Associated Non-Coding RNAs.
BC013203 - Homo sapiens glioma tumor suppressor candidate region gene 2, mRNA (cDNA clone IMAGE:4178912).
CU679611 - Synthetic construct Homo sapiens gateway clone IMAGE:100019590 5' read GLTSCR2 mRNA.
AY535000 - Homo sapiens preS1 binding protein mRNA, complete cds.
DQ892724 - Synthetic construct clone IMAGE:100005354; FLH189129.01X; RZPDo839B1174D glioma tumor suppressor candidate region gene 2 (GLTSCR2) gene, encodes complete protein.
DQ895973 - Synthetic construct Homo sapiens clone IMAGE:100010433; FLH189125.01L; RZPDo839B1164D glioma tumor suppressor candidate region gene 2 (GLTSCR2) gene, encodes complete protein.
KJ898763 - Synthetic construct Homo sapiens clone ccsbBroadEn_08157 GLTSCR2 gene, encodes complete protein.
AK024486 - Homo sapiens mRNA for FLJ00085 protein, partial cds.
BC013235 - Homo sapiens glioma tumor suppressor candidate region gene 2, mRNA (cDNA clone IMAGE:4154770).
BC013307 - Homo sapiens, glioma tumor suppressor candidate region gene 2, clone IMAGE:2988686, mRNA.
BC014009 - Homo sapiens glioma tumor suppressor candidate region gene 2, mRNA (cDNA clone IMAGE:4039964), partial cds.
BC039869 - Homo sapiens, Similar to glioma tumor suppressor candidate region gene 2, clone IMAGE:4179633, mRNA.
BC021558 - Homo sapiens cDNA clone IMAGE:5015020, **** WARNING: chimeric clone ****.
BC007248 - Homo sapiens, glioma tumor suppressor candidate region gene 2, clone IMAGE:2966906, mRNA, partial cds.
BC004229 - Homo sapiens glioma tumor suppressor candidate region gene 2, mRNA (cDNA clone IMAGE:3546165), partial cds.
AF296124 - Homo sapiens P60 mRNA, partial cds.
AL359336 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 2073509.
AL359335 - Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 1902571.
LF366832 - JP 2014500723-A/174335: Polycomb-Associated Non-Coding RNAs.
LF366831 - JP 2014500723-A/174334: Polycomb-Associated Non-Coding RNAs.
DQ576449 - Homo sapiens piRNA piR-44561, complete sequence.
AL122063 - Homo sapiens mRNA; cDNA DKFZp434C031 (from clone DKFZp434C031).
LF366830 - JP 2014500723-A/174333: Polycomb-Associated Non-Coding RNAs.
LF366829 - JP 2014500723-A/174332: Polycomb-Associated Non-Coding RNAs.
AF161389 - Homo sapiens HSPC271 mRNA, partial cds.
JD019615 - Sequence 639 from Patent EP1572962.
LF366828 - JP 2014500723-A/174331: Polycomb-Associated Non-Coding RNAs.
JD030768 - Sequence 11792 from Patent EP1572962.
JD031177 - Sequence 12201 from Patent EP1572962.
LF366826 - JP 2014500723-A/174329: Polycomb-Associated Non-Coding RNAs.
MA619796 - JP 2018138019-A/191722: Polycomb-Associated Non-Coding RNAs.
MA449492 - JP 2018138019-A/21418: Polycomb-Associated Non-Coding RNAs.
MA602409 - JP 2018138019-A/174335: Polycomb-Associated Non-Coding RNAs.
MA602408 - JP 2018138019-A/174334: Polycomb-Associated Non-Coding RNAs.
MA602407 - JP 2018138019-A/174333: Polycomb-Associated Non-Coding RNAs.
MA602406 - JP 2018138019-A/174332: Polycomb-Associated Non-Coding RNAs.
MA602405 - JP 2018138019-A/174331: Polycomb-Associated Non-Coding RNAs.
MA602403 - JP 2018138019-A/174329: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000246802.1, ENST00000246802.2, ENST00000246802.3, ENST00000246802.4, ENST00000246802.5, ENST00000246802.6, ENST00000246802.7, ENST00000246802.8, ENST00000246802.9, GLT , GLTSCR2 , NM_015710, NOP53 , NOP53_HUMAN, PICT1 , Q9BTC6, Q9HAX6, Q9NPP1, Q9NPR4, Q9NZM5, Q9UFI2, uc317eui.1, uc317eui.2
UCSC ID: ENST00000246802.10_4
RefSeq Accession: NM_015710.5
Protein: Q9NZM5 (aka GSCR2_HUMAN or GSR2_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.