Human Gene RPS15A (ENST00000572008.5) Description and Page Index
  Description: Q13838:DDX39B; NbExp=1; IntAct=EBI-347895, EBI-348622; (from UniProt P62244)
RefSeq Summary (NM_001030009): Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of 4 RNA species and approximately 80 structurally distinct proteins. This gene encodes a ribosomal protein that is a component of the 40S subunit. The protein belongs to the S8P family of ribosomal proteins. It is located in the cytoplasm. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Jul 2008].
Gencode Transcript: ENST00000572008.5
Gencode Gene: ENSG00000134419.15
Transcript (Including UTRs)
   Position: hg38 chr16:18,781,991-18,790,334 Size: 8,344 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg38 chr16:18,783,009-18,789,113 Size: 6,105 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsCTDRNA-Seq ExpressionMicroarray Expression
RNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathways
Other NamesGeneReviewsMethods
Data last updated at UCSC: 2019-09-04

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:18,781,991-18,790,334)mRNA (may differ from genome)Protein (130 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblExonPrimerGeneCardsHGNCLynx
MGIneXtProtPubMedReactomeUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: RS15A_HUMAN
DESCRIPTION: RecName: Full=40S ribosomal protein S15a;
INTERACTION: Q13838:DDX39B; NbExp=1; IntAct=EBI-347895, EBI-348622;
SIMILARITY: Belongs to the ribosomal protein S8P family.
SEQUENCE CAUTION: Sequence=CAA44568.1; Type=Frameshift; Positions=24, 37;

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 72.71 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 1367.81 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 -1.2030-0.040 Picture PostScript Text
3' UTR -109.70374-0.293 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
IPR000630 - Ribosomal_S8

Pfam Domains:
PF00410 - Ribosomal protein S8

ModBase Predicted Comparative 3D Structure on P62244
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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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding

Biological Process:
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO:0006412 translation
GO:0006413 translational initiation
GO:0006614 SRP-dependent cotranslational protein targeting to membrane
GO:0008284 positive regulation of cell proliferation
GO:0009615 response to virus
GO:0045787 positive regulation of cell cycle

Cellular Component:
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0016020 membrane
GO:0022627 cytosolic small ribosomal subunit
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  BC068045 - Homo sapiens cDNA clone IMAGE:4140029, partial cds.
AK291988 - Homo sapiens cDNA FLJ77670 complete cds, highly similar to Homo sapiens ribosomal protein S15a (RPS15A), mRNA.
JD567060 - Sequence 548084 from Patent EP1572962.
JD567061 - Sequence 548085 from Patent EP1572962.
AY208299 - Homo sapiens S15a mRNA, complete cds.
BC030569 - Homo sapiens ribosomal protein S15a, mRNA (cDNA clone MGC:44895 IMAGE:5580542), complete cds.
BC046113 - Homo sapiens ribosomal protein S15a, mRNA (cDNA clone MGC:57552 IMAGE:5736078), complete cds.
X84407 - H.sapiens mRNA for ribosomal protein S15a.
BC105292 - Homo sapiens ribosomal protein S15a, mRNA (cDNA clone MGC:111208 IMAGE:6649512), complete cds.
AK127316 - Homo sapiens cDNA FLJ45385 fis, clone BRHIP3022656.
AB062400 - Homo sapiens OK/SW-cl.82 mRNA, complete cds.
AK023088 - Homo sapiens cDNA FLJ13026 fis, clone NT2RP3000968, moderately similar to 40S RIBOSOMAL PROTEIN S15A.
AK130967 - Homo sapiens cDNA FLJ27457 fis, clone DMC07702, highly similar to 40S ribosomal protein S15a.
BC105273 - Homo sapiens ribosomal protein S15a, mRNA (cDNA clone MGC:104300 IMAGE:3839617), complete cds.
BC001697 - Homo sapiens ribosomal protein S15a, mRNA (cDNA clone MGC:2466 IMAGE:2967511), complete cds.
BC032115 - Homo sapiens ribosomal protein S15a, mRNA (cDNA clone IMAGE:4844578), partial cds.
AK311976 - Homo sapiens cDNA, FLJ92249, Homo sapiens ribosomal protein S15a (RPS15A), mRNA.
JF432790 - Synthetic construct Homo sapiens clone IMAGE:100074036 ribosomal protein S15a (RPS15A) gene, encodes complete protein.
KJ892060 - Synthetic construct Homo sapiens clone ccsbBroadEn_01454 RPS15A gene, encodes complete protein.
KJ897505 - Synthetic construct Homo sapiens clone ccsbBroadEn_06899 RPS15A gene, encodes complete protein.
AB528052 - Synthetic construct DNA, clone: pF1KB6710, Homo sapiens RPS15A gene for ribosomal protein S15a, without stop codon, in Flexi system.
JD067230 - Sequence 48254 from Patent EP1572962.
JD092903 - Sequence 73927 from Patent EP1572962.
JD250569 - Sequence 231593 from Patent EP1572962.
CU688908 - Synthetic construct Homo sapiens gateway clone IMAGE:100016684 5' read RPS15A mRNA.
LF378540 - JP 2014500723-A/186043: Polycomb-Associated Non-Coding RNAs.
MA614117 - JP 2018138019-A/186043: Polycomb-Associated Non-Coding RNAs.
D28347 - Homo sapiens mRNA for ribosomal protein YS24 homologue, 5'UTR region.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa03010 - Ribosome

Reactome (by CSHL, EBI, and GO)

Protein P62244 (Reactome details) participates in the following event(s):

R-HSA-72676 eIF3 and eIF1A bind to the 40S subunit
R-HSA-72673 Release of 40S and 60S subunits from the 80S ribosome
R-HSA-72672 The 60S subunit joins the translation initiation complex
R-HSA-72619 eIF2:GTP is hydrolyzed, eIFs are released
R-HSA-72691 Formation of the 43S pre-initiation complex
R-HSA-156808 Formation of translation initiation complexes yielding circularized Ceruloplasmin mRNA in a 'closed-loop' conformation
R-HSA-157849 Formation of translation initiation complexes containing mRNA that does not circularize
R-HSA-72671 eIF5B:GTP is hydrolyzed and released
R-HSA-156907 Aminoacyl-tRNA binds to the ribosome at the A-site
R-HSA-2408529 Sec-tRNA(Sec):EEFSEC:GTP binds to 80S Ribosome
R-HSA-141691 GTP bound eRF3:eRF1 complex binds the peptidyl tRNA:mRNA:80S Ribosome complex
R-HSA-156915 Translocation of ribosome by 3 bases in the 3' direction
R-HSA-141671 Polypeptide release from the eRF3-GDP:eRF1:mRNA:80S Ribosome complex
R-HSA-156912 Peptide transfer from P-site tRNA to the A-site tRNA
R-HSA-927832 UPF1 binds an mRNP with a termination codon preceding an Exon Junction Complex
R-HSA-927789 Formation of UPF1:eRF3 complex on mRNA with a premature termination codon and no Exon Junction Complex
R-HSA-1799332 Nascent polypeptide:mRNA:ribosome complex binds signal recognition particle (SRP)
R-HSA-156923 Hydrolysis of eEF1A:GTP
R-HSA-72621 Ribosomal scanning
R-HSA-72697 Start codon recognition
R-HSA-156823 Association of phospho-L13a with GAIT element of Ceruloplasmin mRNA
R-HSA-5333615 80S:Met-tRNAi:mRNA:SECISBP2:Sec-tRNA(Sec):EEFSEC:GTP is hydrolysed to 80S:Met-tRNAi:mRNA:SECISBP2:Sec and EEFSEC:GDP by EEFSEC
R-HSA-141673 GTP Hydrolysis by eRF3 bound to the eRF1:mRNA:polypeptide:80S Ribosome complex
R-HSA-927889 SMG1 phosphorylates UPF1 (enhanced by Exon Junction Complex)
R-HSA-1799329 Signal peptidase hydrolyzes signal peptide from ribosome-associated nascent protein
R-HSA-1799330 The SRP receptor binds the SRP:nascent peptide:ribosome complex
R-HSA-1799326 Signal-containing nascent peptide translocates to endoplasmic reticulum
R-HSA-72689 Formation of a pool of free 40S subunits
R-HSA-6791226 Major pathway of rRNA processing in the nucleolus and cytosol
R-HSA-1799339 SRP-dependent cotranslational protein targeting to membrane
R-HSA-9010553 Regulation of expression of SLITs and ROBOs
R-HSA-72706 GTP hydrolysis and joining of the 60S ribosomal subunit
R-HSA-72695 Formation of the ternary complex, and subsequently, the 43S complex
R-HSA-72649 Translation initiation complex formation
R-HSA-72737 Cap-dependent Translation Initiation
R-HSA-8868773 rRNA processing in the nucleus and cytosol
R-HSA-156902 Peptide chain elongation
R-HSA-2408557 Selenocysteine synthesis
R-HSA-72764 Eukaryotic Translation Termination
R-HSA-975957 Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)
R-HSA-975956 Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)
R-HSA-72766 Translation
R-HSA-376176 Signaling by ROBO receptors
R-HSA-192823 Viral mRNA Translation
R-HSA-72702 Ribosomal scanning and start codon recognition
R-HSA-156827 L13a-mediated translation
R-HSA-72662 Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S
R-HSA-72613 Eukaryotic Translation Initiation
R-HSA-72312 rRNA processing
R-HSA-156842 Eukaryotic Translation Elongation
R-HSA-2408522 Selenoamino acid metabolism
R-HSA-927802 Nonsense-Mediated Decay (NMD)
R-HSA-392499 Metabolism of proteins
R-HSA-422475 Axon guidance
R-HSA-168273 Influenza Viral RNA Transcription and Replication
R-HSA-8953854 Metabolism of RNA
R-HSA-71291 Metabolism of nitrogenous molecules
R-HSA-1266738 Developmental Biology
R-HSA-168255 Influenza Life Cycle
R-HSA-1430728 Metabolism
R-HSA-168254 Influenza Infection
R-HSA-5663205 Infectious disease
R-HSA-1643685 Disease

-  Other Names for This Gene
  Alternate Gene Symbols: AK291988, OK/SW-cl.82, P39027, P39031, P62244, Q3MHD9, Q8C023, Q9BV24, RS15A_HUMAN, uc002dfi.1, uc002dfi.2
UCSC ID: uc002dfi.2
RefSeq Accession: NM_001030009
Protein: P62244 (aka RS15A_HUMAN or RS1A_HUMAN)
CCDS: CCDS10571.1

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene RPS15A:
diamond-b (Diamond-Blackfan Anemia)

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.