Human Gene RPL15 (ENST00000456530.7) from GENCODE V44
  Description: Homo sapiens ribosomal protein L15 (RPL15), transcript variant 6, mRNA. (from RefSeq NM_001253384)
RefSeq Summary (NM_001253384): Ribosomes, the organelles that catalyze protein synthesis, consist of a small 40S subunit and a large 60S subunit. Together these subunits are composed of four RNA species and approximately 80 structurally distinct proteins. This gene encodes a member of the L15E family of ribosomal proteins and a component of the 60S subunit. This gene shares sequence similarity with the yeast ribosomal protein YL10 gene. Elevated expression of this gene has been observed in esophageal tumors and gastric cancer tissues, and deletion of this gene has been observed in a Diamond-Blackfan anemia (DBA) patient. As is typical for genes encoding ribosomal proteins, there are multiple processed pseudogenes of this gene dispersed through the genome. [provided by RefSeq, Mar 2017].
Gencode Transcript: ENST00000456530.7
Gencode Gene: ENSG00000174748.22
Transcript (Including UTRs)
   Position: hg38 chr3:23,917,139-23,924,374 Size: 7,236 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg38 chr3:23,917,860-23,921,675 Size: 3,816 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesGeneReviewsMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:23,917,139-23,924,374)mRNA (may differ from genome)Protein (145 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCLynxMalacardsMGImyGene2neXtProt
OMIMPubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RL15_HUMAN
DESCRIPTION: RecName: Full=60S ribosomal protein L15;
SUBUNIT: Interacts with IFIT1 (via TPR repeats 1-4).
SIMILARITY: Belongs to the ribosomal protein L15e family.
SEQUENCE CAUTION: Sequence=AAA36583.1; Type=Frameshift; Positions=199;

-  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: RPL15
Diseases sorted by gene-association score: diamond-blackfan anemia 12* (969), rpl15-related diamond-blackfan anemia* (500), diamond-blackfan anemia* (114), retinitis pigmentosa 10 (9), macrocytic anemia (5), pierre robin syndrome (5)
* = Manually curated disease association

-  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: 340.44 RPKM in Ovary
Total median expression: 7736.69 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 -10.1045-0.224 Picture PostScript Text
3' UTR -887.702699-0.329 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
IPR024794 - Rbsml_L15e_core_dom
IPR000439 - Ribosomal_L15e
IPR020925 - Ribosomal_L15e_CS
IPR012678 - Ribosomal_L23/L15e_core_dom

Pfam Domains:
PF00827 - Ribosomal L15

ModBase Predicted Comparative 3D Structure on P61313
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-  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
GO:0045296 cadherin binding

Biological Process:
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:0006413 translational initiation
GO:0006614 SRP-dependent cotranslational protein targeting to membrane
GO:0045471 response to ethanol

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus
GO:0005829 cytosol
GO:0005840 ribosome
GO:0016020 membrane
GO:0022625 cytosolic large ribosomal subunit
GO:0031672 A band


-  Descriptions from all associated GenBank mRNAs
  BC030575 - Homo sapiens, Similar to RIKEN cDNA 2510008H07 gene, clone IMAGE:3961042, mRNA, partial cds.
BC081565 - Homo sapiens ribosomal protein L15, mRNA (cDNA clone MGC:88603 IMAGE:5458912), complete cds.
BC014837 - Homo sapiens ribosomal protein L15, mRNA (cDNA clone MGC:5220 IMAGE:2901238), complete cds.
AK129815 - Homo sapiens cDNA FLJ26304 fis, clone DMC07927, highly similar to 60S ribosomal protein L15.
AK091751 - Homo sapiens cDNA FLJ34432 fis, clone HLUNG2000884, highly similar to 60S RIBOSOMAL PROTEIN L15.
BX537495 - Homo sapiens mRNA; cDNA DKFZp779A2364 (from clone DKFZp779A2364).
BC070328 - Homo sapiens ribosomal protein L15, mRNA (cDNA clone MGC:88331 IMAGE:30371842), complete cds.
AK290694 - Homo sapiens cDNA FLJ77915 complete cds, highly similar to Homo sapiens ribosomal protein L15 (RPL15), mRNA.
AK292000 - Homo sapiens cDNA FLJ75555 complete cds, highly similar to Homo sapiens ribosomal protein L15 (RPL15), mRNA.
AK297091 - Homo sapiens cDNA FLJ51497 complete cds, highly similar to 60S ribosomal protein L15.
AF283772 - Homo sapiens clone TCBAP0781 mRNA sequence.
BC068198 - Homo sapiens ribosomal protein L15, mRNA (cDNA clone MGC:71982 IMAGE:4093343), complete cds.
AK293709 - Homo sapiens cDNA FLJ53585 complete cds, highly similar to 60S ribosomal protein L15.
AK098795 - Homo sapiens cDNA FLJ25929 fis, clone CBR05358, highly similar to 60S RIBOSOMAL PROTEIN L15.
LF383438 - JP 2014500723-A/190941: Polycomb-Associated Non-Coding RNAs.
MA619015 - JP 2018138019-A/190941: Polycomb-Associated Non-Coding RNAs.
BC071672 - Homo sapiens ribosomal protein L15, mRNA (cDNA clone MGC:87873 IMAGE:4390593), complete cds.
AF279903 - Homo sapiens 60S ribosomal protein L15 (EC45) mRNA, complete cds.
AY347528 - Homo sapiens ribosomal protein L15 mRNA, complete cds.
L25899 - Human ribosomal protein L10 mRNA, complete cds.
AB529129 - Synthetic construct DNA, clone: pF1KB5000, Homo sapiens RPL15 gene for ribosomal protein L15, without stop codon, in Flexi system.
BT019672 - Homo sapiens ribosomal protein L15 mRNA, complete cds.
CU677095 - Synthetic construct Homo sapiens gateway clone IMAGE:100020247 5' read RPL15 mRNA.
CU687134 - Synthetic construct Homo sapiens gateway clone IMAGE:100022759 5' read RPL15 mRNA.
KJ892028 - Synthetic construct Homo sapiens clone ccsbBroadEn_01422 RPL15 gene, encodes complete protein.
KJ897486 - Synthetic construct Homo sapiens clone ccsbBroadEn_06880 RPL15 gene, encodes complete protein.
KJ901712 - Synthetic construct Homo sapiens clone ccsbBroadEn_11106 RPL15 gene, encodes complete protein.
LF328871 - JP 2014500723-A/136374: Polycomb-Associated Non-Coding RNAs.
MA564448 - JP 2018138019-A/136374: Polycomb-Associated Non-Coding RNAs.
LF365687 - JP 2014500723-A/173190: Polycomb-Associated Non-Coding RNAs.
MA601264 - JP 2018138019-A/173190: Polycomb-Associated Non-Coding RNAs.
LF328872 - JP 2014500723-A/136375: Polycomb-Associated Non-Coding RNAs.
MA564449 - JP 2018138019-A/136375: Polycomb-Associated Non-Coding RNAs.
LF317701 - JP 2014500723-A/125204: Polycomb-Associated Non-Coding RNAs.
MA553278 - JP 2018138019-A/125204: Polycomb-Associated Non-Coding RNAs.
LF375854 - JP 2014500723-A/183357: Polycomb-Associated Non-Coding RNAs.
MA611431 - JP 2018138019-A/183357: Polycomb-Associated Non-Coding RNAs.
LF346821 - JP 2014500723-A/154324: Polycomb-Associated Non-Coding RNAs.
MA582398 - JP 2018138019-A/154324: Polycomb-Associated Non-Coding RNAs.
LF365686 - JP 2014500723-A/173189: Polycomb-Associated Non-Coding RNAs.
MA601263 - JP 2018138019-A/173189: Polycomb-Associated Non-Coding RNAs.
JD023586 - Sequence 4610 from Patent EP1572962.
JD064001 - Sequence 45025 from Patent EP1572962.
JD441156 - Sequence 422180 from Patent EP1572962.
JD064002 - Sequence 45026 from Patent EP1572962.
JD441157 - Sequence 422181 from Patent EP1572962.
AK055501 - Homo sapiens cDNA FLJ30939 fis, clone FEBRA2007414.
JD564273 - Sequence 545297 from Patent EP1572962.
JD365007 - Sequence 346031 from Patent EP1572962.
JD242742 - Sequence 223766 from Patent EP1572962.
JD329839 - Sequence 310863 from Patent EP1572962.

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

Reactome (by CSHL, EBI, and GO)

Protein P61313 (Reactome details) participates in the following event(s):

R-HSA-72672 The 60S subunit joins the translation initiation complex
R-HSA-156826 Dissociation of L13a from the 60s ribosomal subunit
R-HSA-72673 Release of 40S and 60S subunits from the 80S ribosome
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-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-72706 GTP hydrolysis and joining of the 60S ribosomal subunit
R-HSA-156827 L13a-mediated translation
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-72737 Cap-dependent Translation Initiation
R-HSA-72613 Eukaryotic 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-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: EC45, ENST00000456530.1, ENST00000456530.2, ENST00000456530.3, ENST00000456530.4, ENST00000456530.5, ENST00000456530.6, NM_001253384, P39030, P41051, P61313, Q5U0C0, Q6IPX6, Q8WYP2, Q96C44, Q9H2E5, RL15_HUMAN, TCBAP0781, uc003cco.1, uc003cco.2, uc003cco.3, uc003cco.4, uc003cco.5
UCSC ID: ENST00000456530.7
RefSeq Accession: NM_001253384
Protein: P61313 (aka RL15_HUMAN)
CCDS: CCDS58818.1

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene RPL15:
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.