Human Gene UTP20 (ENST00000261637.5_4) from GENCODE V47lift37
  Description: UTP20 small subunit processome component (from RefSeq NM_014503.3)
Gencode Transcript: ENST00000261637.5_4
Gencode Gene: ENSG00000120800.5_7
Transcript (Including UTRs)
   Position: hg19 chr12:101,673,883-101,780,396 Size: 106,514 Total Exon Count: 62 Strand: +
Coding Region
   Position: hg19 chr12:101,674,061-101,779,901 Size: 105,841 Coding Exon Count: 62 

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 (chr12:101,673,883-101,780,396)mRNA (may differ from genome)Protein (2785 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: UTP20_HUMAN
DESCRIPTION: RecName: Full=Small subunit processome component 20 homolog; AltName: Full=Down-regulated in metastasis protein; AltName: Full=Novel nucleolar protein 73; Short=NNP73; AltName: Full=Protein Key-1A6;
FUNCTION: Involved in 18S pre-rRNA processing. Associates with U3 snoRNA.
SUBUNIT: Interacts with FBL and PPP1R26.
INTERACTION: Q5T8A7:PPP1R26; NbExp=4; IntAct=EBI-356062, EBI-308500;
SUBCELLULAR LOCATION: Nucleus, nucleolus. Note=Colocalizes with NCL in the nucleolus.
TISSUE SPECIFICITY: Expressed in appendix, brain, colon, fetal liver, heart, ovary, pancreas, placenta, prostate, skeletal muscle, small intestine, spleen, testis and thymus.
SIMILARITY: Belongs to the UTP20 family.
SIMILARITY: Contains 2 HEAT repeats.
SEQUENCE CAUTION: Sequence=AAG35208.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  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: 5.86 RPKM in Cells - Cultured fibroblasts
Total median expression: 139.60 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 -60.40178-0.339 Picture PostScript Text
3' UTR -147.20495-0.297 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
IPR016024 - ARM-type_fold
IPR011430 - DRIM

Pfam Domains:
PF07539 - Down-regulated in metastasis

SCOP Domains:
48371 - ARM repeat
48431 - Lipovitellin-phosvitin complex, superhelical domain
109715 - DEK C-terminal domain

ModBase Predicted Comparative 3D Structure on O75691
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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 orthologNo orthologNo orthologNo orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005515 protein binding

Biological Process:
GO:0000447 endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000472 endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000480 endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0006364 rRNA processing
GO:0008285 negative regulation of cell proliferation

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005886 plasma membrane
GO:0030686 90S preribosome
GO:0030688 preribosome, small subunit precursor
GO:0032040 small-subunit processome


-  Descriptions from all associated GenBank mRNAs
  AJ006778 - Homo sapiens mRNA for DRIM protein.
AK307934 - Homo sapiens cDNA, FLJ97882.
AF072718 - Homo sapiens Key-1A6 protein mRNA, complete cds.
AK000333 - Homo sapiens cDNA FLJ20326 fis, clone HEP09907, highly similar to AJ006778 Homo sapiens mRNA for DRIM protein.
AK297739 - Homo sapiens cDNA FLJ57057 complete cds, highly similar to Small subunit processome component 20 homolog.
JD370706 - Sequence 351730 from Patent EP1572962.
JD491958 - Sequence 472982 from Patent EP1572962.
JD365323 - Sequence 346347 from Patent EP1572962.
JD375584 - Sequence 356608 from Patent EP1572962.
JD264950 - Sequence 245974 from Patent EP1572962.
JD295397 - Sequence 276421 from Patent EP1572962.
JD328234 - Sequence 309258 from Patent EP1572962.
JD342203 - Sequence 323227 from Patent EP1572962.
JD480473 - Sequence 461497 from Patent EP1572962.
JD357165 - Sequence 338189 from Patent EP1572962.
JD509676 - Sequence 490700 from Patent EP1572962.
JD242421 - Sequence 223445 from Patent EP1572962.

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

Protein O75691 (Reactome details) participates in the following event(s):

R-HSA-6790906 EMG1 of the SSU processome methylates pseudouridine-1248 of 18S rRNA yielding N(1)-methylpseudouridine-1248
R-HSA-6791226 Major pathway of rRNA processing in the nucleolus and cytosol
R-HSA-6790901 rRNA modification in the nucleus and cytosol
R-HSA-8868773 rRNA processing in the nucleus and cytosol
R-HSA-72312 rRNA processing
R-HSA-8953854 Metabolism of RNA

-  Other Names for This Gene
  Alternate Gene Symbols: DRIM, ENST00000261637.1, ENST00000261637.2, ENST00000261637.3, ENST00000261637.4, NM_014503, O75691, Q9H3H4, uc317grw.1, uc317grw.2, UTP20 , UTP20_HUMAN
UCSC ID: ENST00000261637.5_4
RefSeq Accession: NM_014503.3
Protein: O75691 (aka UTP20_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.