Human Gene RRP15 (uc001hlj.3) Description and Page Index
  Description: Homo sapiens ribosomal RNA processing 15 homolog (S. cerevisiae) (RRP15), mRNA.
RefSeq Summary (NM_016052): This gene encodes a protein that co-purifies with human nucleoli. A similar protein in budding yeast is a component of pre-60S ribosomal particles, and is required for the early maturation steps of the 60S subunit. [provided by RefSeq, Jul 2008]. ##Evidence-Data-START## Transcript exon combination :: SRR3476690.1157409.1, SRR5189658.93002.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1966682 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000366932.4/ ENSP00000355899.3 RefSeq Select criteria :: based on conservation, expression ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr1:218,458,629-218,511,325 Size: 52,697 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr1:218,458,659-218,504,433 Size: 45,775 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:218,458,629-218,511,325)mRNA (may differ from genome)Protein (282 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedStanford SOURCETreefamUniProtKB
Wikipedia

-  Comments and Description Text from UniProtKB
  ID: RRP15_HUMAN
DESCRIPTION: RecName: Full=RRP15-like protein; AltName: Full=Ribosomal RNA-processing protein 15;
INTERACTION: P56537:EIF6; NbExp=1; IntAct=EBI-1055610, EBI-372243;
SIMILARITY: Belongs to the RRP15 family.
SEQUENCE CAUTION: Sequence=AAD34110.1; Type=Erroneous initiation; Sequence=AAH20641.1; Type=Erroneous initiation;

-  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: 3.80 RPKM in Muscle - Skeletal
Total median expression: 116.15 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 -5.6030-0.187 Picture PostScript Text
3' UTR -1740.486892-0.253 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
IPR012459 - DUF1665

Pfam Domains:
PF07890 - Rrp15p

ModBase Predicted Comparative 3D Structure on Q9Y3B9
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 orthologGenome BrowserGenome BrowserGenome BrowserGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsemblFlyBaseWormBase 
 Protein SequenceProtein SequenceProtein SequenceProtein Sequence 
 AlignmentAlignmentAlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0000460 maturation of 5.8S rRNA
GO:0000470 maturation of LSU-rRNA
GO:0006364 rRNA processing

Cellular Component:
GO:0030687 preribosome, large subunit precursor


-  Descriptions from all associated GenBank mRNAs
  AK290066 - Homo sapiens cDNA FLJ75605 complete cds, highly similar to Homo sapiens CGI-115 protein (CGI-115), mRNA.
BC020641 - Homo sapiens ribosomal RNA processing 15 homolog (S. cerevisiae), mRNA (cDNA clone MGC:22291 IMAGE:4772128), complete cds.
AF151873 - Homo sapiens CGI-115 protein mRNA, complete cds.
BC003668 - Homo sapiens ribosomal RNA processing 15 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:3950114), partial cds.
JD102217 - Sequence 83241 from Patent EP1572962.
JD483730 - Sequence 464754 from Patent EP1572962.
JD154483 - Sequence 135507 from Patent EP1572962.
JD195404 - Sequence 176428 from Patent EP1572962.
JD326287 - Sequence 307311 from Patent EP1572962.
AB007976 - Homo sapiens mRNA, chromosome 1 specific transcript KIAA0507.
JD256593 - Sequence 237617 from Patent EP1572962.
JD476819 - Sequence 457843 from Patent EP1572962.
JD379780 - Sequence 360804 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CGI-115, KIAA0507, NM_016052, NP_057136, Q9Y3B9, RRP15_HUMAN
UCSC ID: uc001hlj.3
RefSeq Accession: NM_016052
Protein: Q9Y3B9 (aka RRP15_HUMAN)
CCDS: CCDS1520.2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_016052.3
exon count: 5CDS single in 3' UTR: no RNA size: 7782
ORF size: 849CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1632.00frame shift in genome: no % Coverage: 99.86
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.